Citrus Sinensis ID: 011431

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-------380-------390-------400-------410-------420-------430-------440-------450-------460-------470-------480------
Protein Sequence
MASSSLSSSSSRRLRDQWRYKHDVFVTFSGEDIRENFGSYLFAALFRESVKTFRDEQIRRGDEIMPALLQAIEESKISLVIFSKRFAFSRWCLEELVKIIECNKLYQTVIPVFYKVLPSDVRNQLGSFGEAFLEHEKSHDLRPKVGRWRDALREASDLAGWDSNVTRPESKLTDEIVNGVVENLKSFAELMEKELVVLFNRARDKLDNHASSLLDEVLSLLRNAEGYRSYRCWLLCPLFSELRVLTNDVHQLMDNYENSDVTLAKFEGEVKKLDQRLLRFLESVDKHVASYDRYGSASFEQPRPQTTSAAHPYVEDVIDDAYMEDITDDSSPSLNLSRINSTSRFEQLWPETISATDTCTEDVTVDNSPSLNLSSCNSSSTFKEAIFKLEIHHDNLEAWRAAFSIVSEFIGITKISFDFKVKKMTVVGDNFDVLSAGTKLNGLCRTELVSFGQAKEPEEGEHDKAESNEANKKEERKLPISFLSRM
Secondary Structure (PSIPRED)
cccccccccccccccccccccEEEEEcccccccccccHHHHHHHHHHccccEEEcccccccccccHHHHHHHHHccEEEEEEcccccccHHHHHHHHHHHHHHccccEEEEEEccccccccccccccHHHHHHHHHHcccccHHHHHHHHHHHHHHccccEEccccccHHHHHHHHHHHHHHHccccccccccccEEEcHHHHHHHHHHHccccccEEEEEEccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccEEccccccccccccEEEEEEccccHHcccccccccccccccccccccccccccccccccEEEEEccccccccccccccccccHHHccccccccccccEEcEEEcccccccccEEcccccHHHHHHHHHccccccHHHHHHHHHHHHHHHHHcEEEEEEEEEEEEEEcccccccccccccccccHHHHHccccccccccccccHHHHHHHHHHHHccccccccccc
Secondary Structure Prediction (SSPRO)
ccccccccccccccccccccEEEEEcccccHHHHHHHHHHHHHHHHHccccEEEcccccccccccHHHHHHHHHccEEEEEEEccccccHHHHHHHHHHHHHHHcccEEEEEEEEccHHHHHHccccHHHHHHHHHcccccHHHHHHHHHHHHHHHHHccccccccccHHHHHHHHHHHHHHHHcccccccccccccccHHHHHHHHHHHccccccEEEEEEccccHHHEEEEcccHHcHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHcEEEEEEccccHHHHHHHHccccccccccEEEEEEccHHHHHHHHccccEEEEEcccccHHHHHHHHHHHHHHHHHHHHccccccccHHHHHHHHHHHHHHHcHcHHHHHHHHcccccccccHHHHHcccEEccccccEEEEEcccccccccccHHcccHHHHHHHHHcccEHHHccc
Coil and Loop (DISEMBL)
massslsssssrrlrdQWRYKHDVFVTFSGEDIRENFGSYLFAALFRESVKTFRDEQIRRGDEIMPALLQAIEESKISLVIFSKRFAFSRWCLEELVKIIECNKLYQTVIPVFYKVLPSDVRNQLGSFGEAflehekshdlrpkvGRWRDALREASdlagwdsnvtrpeskltdEIVNGVVENLKSFAELMEKELVVLFNRARDKLDNHASSLLDEVLSLLRNaegyrsyrcwllcplfselrVLTNDVHQLMDNYENSDVTLAKFEGEVKKLDQRLLRFLESVDKHVASydrygsasfeqprpqttsaahpyvedviddaymeditddsspslnlsrinstsrfeqlwpetisatdtctedvtvdnspslnlsscnsssTFKEAIFKLEIHHDNLEAWRAAFSIVSEFIGITKISFDFKVKKMTVVGDNFDVLSAGTKLNGLCRTELvsfgqakepeegehdkaesneankkeerklPISFLSRM
Flexible Loop (DISEMBL)
massslsssssrrlrdqwryKHDVFVTFSGEDIRENFGSYLFAALFRESVKTFRDEQIRRGDEIMPALLQAIEESKISLVIFSKRFAFSRWCLEELVKIIECNKLYQTVIPVFYKVLPSDVRNQLGSFGEAFlehekshdlrpkvGRWRDALReasdlagwdsnvtrpeskltdeiVNGVVENLKSFAELMEKELVVLFNRARDKLDNHASSLLDEVLSLLRNAEGYRSYRCWLLCPLFSELRVLTNDVHQLMDNYENSDVTLAKFEGEVKKLDQRLLRFLESVDKHVASYDRYgsasfeqprpqttsaaHPYVEDVIDDAYMEDITDdsspslnlsrinSTSRFEQLWPETISATDTCTEDVTVdnspslnlsscnsSSTFKEAIFKLEIHHDNLEAWRAAFSIVSEFIGITKISFDFKVKKMTVVGDNFDVLSAGTKLNGLCRTELVSfgqakepeegehdkaesneankkeerklpisflsrm
Low Complexity Region (SEG)
MAssslsssssrrlrDQWRYKHDVFVTFSGEDIRENFGSYLFAALFRESVKTFRDEQIRRGDEIMPALLQAIEESKISLVIFSKRFAFSRWCLEELVKIIECNKLYQTVIPVFYKVLPSDVRNQLGSFGEAFLEHEKSHDLRPKVGRWRDALREASDLAGWDSNVTRPESKLTDEIVNGVVENLKSFAELMEKELVVLFNRARDKLDNHASSLLDEVLSLLRNAEGYRSYRCWLLCPLFSELRVLTNDVHQLMDNYENSDVTLAKFEGEVKKLDQRLLRFLESVDKHVASYDRYGSASFEQPRPQTTSAAHPYVEDVIDDAYMEDITDDSSPSLNLSRINSTSRFEQLWPETISATDTCTEDVTVDnspslnlsscnsssTFKEAIFKLEIHHDNLEAWRAAFSIVSEFIGITKISFDFKVKKMTVVGDNFDVLSAGTKLNGLCRTELVSFGQAKEPEEGEHDkaesneankkeerkLPISFLSRM
Disordered region (IsUnstruct)
****************QWRYKHDVFVTFSGEDIRENFGSYLFAALFRESVKTFRDEQIRRGDEIMPALLQAIEESKISLVIFSKRFAFSRWCLEELVKIIECNKLYQTVIPVFYKVLPSDVRNQLGSFGEAFLEH*********VGRWRDALREASDLAGWDS*******KLTDEIVNGVVENLKSFAELMEKELVVLFNRARDKLDNHASSLLDEVLSLLRNAEGYRSYRCWLLCPLFSELRVLTNDVHQLMDNYENSDVTLAKFEGEVKKLDQRLLRFLESVDKHVASYDRY******************YVEDVIDDAY***********************EQLWPETISATDTCTE*******************TFKEAIFKLEIHHDNLEAWRAAFSIVSEFIGITKISFDFKVKKMTVVGDNFDVLSAGTKLNGLCRTELVSF***********************************
Disordered Region (DISOPRED)
*******************YKHDVFVTFSGEDIRENFGSYLFAALFRESVKTFRDEQIRRGDEIMPALLQAIEESKISLVIFSKRFAFSRWCLEELVKIIECNKLYQTVIPVFYKVLPSDVRNQLGSFGEAFLEHEKS*D**PKVGRWRDALREASDLAGWDSNVTRPESKLTDEIVNGVVENLKSFAELMEKELVVLFNRARDKLDNHASSLLDEVLSLLRNAEGYRSYRCWLLCPLFSELRV***************************KLDQRLLRFLESVDKHVASYDRYGSASFEQPRPQTTSAAHPYVEDVIDDAYMEDITDDSSPSLNLSRINSTSRFEQLWPETISATDTCTEDVTVDNSPSLNLSSCNSSSTFKEAIFKLEIHHDNLEAWRAAFSIVSEFIGITKISFDFKVKKMTVVGDNFDVLSAGTKLNGLCRTELV******************************ISFLSRM
Disordered Region (DISEMBL)
**************RDQWRYKHDVFVTFSGEDIRENFGSYLFAALFRESVKTFRDEQIRRGDEIMPALLQAIEESKISLVIFSKRFAFSRWCLEELVKIIECNKLYQTVIPVFYKVLPSDVRNQLGSFGEAFLEHEKSHDLRPKVGRWRDALREASDLAGWDSNVTRPESKLTDEIVNGVVENLKSFAELMEKELVVLFNRARDKLDNHASSLLDEVLSLLRNAEGYRSYRCWLLCPLFSELRVLTNDVHQLMDNYENSDVTLAKFEGEVKKLDQRLLRFLESVDKHVASYDRYG*************AAHPYVEDVIDDAYMEDITDDSSPSLNLSRINSTSRFEQLWPETISATDTCTEDVTVDNSPSLNLSSCNSSSTFKEAIFKLEIHHDNLEAWRAAFSIVSEFIGITKISFDFKVKKMTVVGDNFDVLSAGTKLNGLCRTELVSFGQ*********************ERKLPISFLSRM
Disordered Region (DISPRO)
*****************WRYKHDVFVTFSGEDIRENFGSYLFAALFRESVKTFRDEQIRRGDEIMPALLQAIEESKISLVIFSKRFAFSRWCLEELVKIIECNKLYQTVIPVFYKVLPSDVRNQLGSFGEAFLEHEKSHDLRPKVGRWRDALREASDLAGWDSNVTRPESKLTDEIVNGVVENLKSFAELMEKELVVLFNRARDKLDNHASSLLDEVLSLLRNAEGYRSYRCWLLCPLFSELRVLTNDVHQLMDNYENSDVTLAKFEGEVKKLDQRLLRFLESVDKHVASYDRYGSASFEQPRPQTTSAAHPYVEDVIDDAYMEDITDDSSPSLNLSRINSTSRFEQLWPETISATDTCTEDVTVDNSPSLNLSSCNSSSTFKEAIFKLEIHHDNLEAWRAAFSIVSEFIGITKISFDFKVKKMTVVGDNFDVLSAGTKLNGLCRTELVSFGQAK*****EHDKAESNEANKKEERKLPISFL***
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MASSSLSSSSSRRLRDQWRYKHDVFVTFSGEDIRENFGSYLFAALFRESVKTFRDEQIRRGDEIMPALLQAIEESKISLVIFSKRFAFSRWCLEELVKIIECNKLYQTVIPVFYKVLPSDVRNQLGSFGEAFLEHEKSHDLRPKVGRWRDALREASDLAGWDSNVTRPESKLTDEIVNGVVENLKSFAELMEKELVVLFNRARDKLDNHASSLLDEVLSLLRNAEGYRSYRCWLLCPLFSELRVLTNDVHQLMDNYENSDVTLAKFEGEVKKLDQRLLRFLESVDKHVASYDRYGSASFEQPRPQTTSAAHPYVEDVIDDAYMEDITDDSSPSLNLSRINSTSRFEQLWPETISATDTCTEDVTVDNSPSLNLSSCNSSSTFKEAIFKLEIHHDNLEAWRAAFSIVSEFIGITKISFDFKVKKMTVVGDNFDVLSAGTKLNGLCRTELVSFGQAKEPEEGEHDKAESNEANKKEERKLPISFLSRM
Positional Conservation
no confident homologs detected

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Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	486	2.2.26 [Sep-21-2011]
Q40392	1144	TMV resistance protein N	N/A	no	0.341	0.145	0.455	1e-32
O82500	1095	Putative disease resistan	no	no	0.298	0.132	0.435	2e-28
O23530	1301	Protein SUPPRESSOR OF npr	no	no	0.339	0.126	0.420	2e-26
Q9C5Q9	411	Protein PHLOEM PROTEIN 2-	no	no	0.271	0.321	0.388	3e-18
Q9FHE8	392	Protein PHLOEM PROTEIN 2-	no	no	0.261	0.323	0.446	4e-17
Q9FHE9	354	Protein PHLOEM PROTEIN 2-	no	no	0.279	0.384	0.359	1e-16
Q9SYC9	571	Vesicle-associated protei	no	no	0.296	0.252	0.331	2e-16

>sp|Q40392|TMVRN_NICGU TMV resistance protein N OS=Nicotiana glutinosa GN=N PE=1 SV=1

 Score =  141 bits (355), Expect = 1e-32,   Method: Compositional matrix adjust.
 Identities = 77/169 (45%), Positives = 110/169 (65%), Gaps = 3/169 (1%)

Query: 19  RYKHDVFVTFSGEDIRENFGSYLFAALFRESVKTFRDEQ-IRRGDEIMPALLQAIEESKI 77
           R+ +DVF++F GED R+ F S+L+  L  + +KTF+D++ +  G  I   L +AIEES+ 
Sbjct: 9   RWSYDVFLSFRGEDTRKTFTSHLYEVLNDKGIKTFQDDKRLEYGATIPGELCKAIEESQF 68

Query: 78  SLVIFSKRFAFSRWCLEELVKIIEC-NKLYQTVIPVFYKVLPSDVRNQLGSFGEAFLEHE 136
           ++V+FS+ +A SRWCL ELVKI+EC  +  QTVIP+FY V PS VRNQ  SF +AF EHE
Sbjct: 69  AIVVFSENYATSRWCLNELVKIMECKTRFKQTVIPIFYDVDPSHVRNQKESFAKAFEEHE 128

Query: 137 -KSHDLRPKVGRWRDALREASDLAGWDSNVTRPESKLTDEIVNGVVENL 184
            K  D    + RWR AL EA++L G   N  + ++    +IV+ +   L
Sbjct: 129 TKYKDDVEGIQRWRIALNEAANLKGSCDNRDKTDADCIRQIVDQISSKL 177

Disease resistance protein. Resistance proteins guard the plant against pathogens that contain an appropriate avirulence protein via a direct or indirect interaction with this avirulence protein. That triggers a defense system including the hypersensitive response, which restricts the pathogen growth.
Nicotiana glutinosa (taxid: 35889)

>sp|O82500|Y4117_ARATH Putative disease resistance protein At4g11170 OS=Arabidopsis thaliana GN=At4g11170 PE=2 SV=1

 Score =  127 bits (319), Expect = 2e-28,   Method: Compositional matrix adjust.
 Identities = 74/170 (43%), Positives = 104/170 (61%), Gaps = 25/170 (14%)

Query: 6   LSSSSSRRLRDQWRYKHDVFVTFSGEDIRENFGSYLFAALFRESVKTFRDEQIRRGDEIM 65
           ++SSSS    + WRY  DVF +F GED+R NF S+L      + + TFRD+ I+R   I 
Sbjct: 1   MASSSS----NSWRY--DVFPSFRGEDVRNNFLSHLLKEFESKGIVTFRDDHIKRSHTIG 54

Query: 66  PALLQAIEESKISLVIFSKRFAFSRWCLEELVKIIECNKLYQ-TVIPVFYKVLPSDVRNQ 124
             L  AI ESKIS+V+FS+ +A S WCL+EL++I++C +     V+PVFYKV PSD+R Q
Sbjct: 55  HELRAAIRESKISVVLFSENYASSSWCLDELIEIMKCKEEQGLKVMPVFYKVDPSDIRKQ 114

Query: 125 LGSFGEAFLE------HEKSHDLRPKVGRWRDALREASDLAG-----WDS 163
            G FG +FLE       E+ H+       WR AL +A+++ G     WD+
Sbjct: 115 TGKFGMSFLETCCGKTEERQHN-------WRRALTDAANILGDHPQNWDN 157

Arabidopsis thaliana (taxid: 3702)

>sp|O23530|SNC1_ARATH Protein SUPPRESSOR OF npr1-1, CONSTITUTIVE 1 OS=Arabidopsis thaliana GN=SNC1 PE=1 SV=3

 Score =  120 bits (302), Expect = 2e-26,   Method: Compositional matrix adjust.
 Identities = 74/176 (42%), Positives = 104/176 (59%), Gaps = 11/176 (6%)

Query: 7   SSSSSRRLRDQWRYKHDVFVTFSGEDIRENFGSYLFAALFRESVKTFRDEQIRRGDEIMP 66
           SSS SRR        +DVF +F GED+R++F S+L   L R    TF D++I R   I P
Sbjct: 5   SSSGSRR--------YDVFPSFRGEDVRDSFLSHLLKEL-RGKAITFIDDEIERSRSIGP 55

Query: 67  ALLQAIEESKISLVIFSKRFAFSRWCLEELVKIIEC-NKLYQTVIPVFYKVLPSDVRNQL 125
            LL AI+ES+I++VIFSK +A S WCL ELV+I +C   L Q VIP+F+ V  S+V+ Q 
Sbjct: 56  ELLSAIKESRIAIVIFSKNYASSTWCLNELVEIHKCYTNLNQMVIPIFFHVDASEVKKQT 115

Query: 126 GSFGEAFLEHEKSHDLRPKVGRWRDALREASDLAGWDSNVTRPESKLTDEIVNGVV 181
           G FG+ F E  K+     K   W+ AL   + +AG+D      E+ + +E+   V+
Sbjct: 116 GEFGKVFEETCKAKSEDEK-QSWKQALAAVAVMAGYDLRKWPSEAAMIEELAEDVL 170

Disease resistance protein of the TIR-NB-LRR-type. Part of the RPP5 locus that contains a cluster of several paralogous disease resistance (R) genes. 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. Regulated by RNA silencing. Expression regulated by MOS1 at chromatin level. Negatively regulated at the transcript level by BON1.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9C5Q9|P2A05_ARATH Protein PHLOEM PROTEIN 2-LIKE A5 OS=Arabidopsis thaliana GN=PP2A5 PE=2 SV=1

 Score = 93.6 bits (231), Expect = 3e-18,   Method: Compositional matrix adjust.
 Identities = 54/139 (38%), Positives = 85/139 (61%), Gaps = 7/139 (5%)

Query: 24  VFVTFSGEDIRENFGSYLFAALFRESVKTFRDEQIRRGDEIMPALLQAIEESKISLVIFS 83
           VF+ F G+D+R+ F S+L  AL +E +  F DEQ  RG  ++ +L   I ESKI+LVIFS
Sbjct: 24  VFINFRGKDLRKGFMSFLKPALKKEKINVFIDEQEERGKYLI-SLFDTIGESKIALVIFS 82

Query: 84  KRFAFSRWCLEELVKI---IECNKLYQTVIPVFYKVLPSDVRNQLGSFGEAFLEHEKSHD 140
           + +  S WC++ELVKI   ++ N+L   +IP+FY++    V++  G FG+ F +    + 
Sbjct: 83  EGYCESHWCMDELVKIKEYMDQNRL--IIIPIFYRLDLDVVKDLTGKFGDNFWDLVDKYQ 140

Query: 141 LRP-KVGRWRDALREASDL 158
             P K+ +W +AL    +L
Sbjct: 141 PEPKKLHKWTEALFSVCEL 159

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FHE8|P2A06_ARATH Protein PHLOEM PROTEIN 2-LIKE A6 OS=Arabidopsis thaliana GN=PP2A6 PE=2 SV=1

 Score = 89.7 bits (221), Expect = 4e-17,   Method: Compositional matrix adjust.
 Identities = 59/132 (44%), Positives = 77/132 (58%), Gaps = 5/132 (3%)

Query: 24  VFVTFSGEDIRENFGSYLFAALFRESVKTFRDEQIRRGDEIMPALLQAIEESKISLVIFS 83
           VF+ F G D+R++F S+L  AL   ++  F DE    G E M  LL  IEES+++LVIFS
Sbjct: 17  VFICFRGADVRKHFISFLVPALREANINVFIDENEFLGSE-MANLLTRIEESELALVIFS 75

Query: 84  KRFAFSRWCLEELVKIIE-CNKLYQTVIPVFYKVLPSDVRNQLGSFGEAF--LEHEKSHD 140
             F  S  CL EL KI E  ++    VIP+FYKV PS V+   G FG+ F  LE    H 
Sbjct: 76  VDFTRSHRCLNELAKIKERKDQGRLIVIPIFYKVKPSAVKFLEGKFGDNFRALERNNRHM 135

Query: 141 LRPKVGRWRDAL 152
           L P   +W++AL
Sbjct: 136 L-PITQKWKEAL 146

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FHE9|P2A08_ARATH Protein PHLOEM PROTEIN 2-LIKE A8 OS=Arabidopsis thaliana GN=PP2A8 PE=2 SV=1

 Score = 88.6 bits (218), Expect = 1e-16,   Method: Compositional matrix adjust.
 Identities = 50/139 (35%), Positives = 80/139 (57%), Gaps = 3/139 (2%)

Query: 24  VFVTFSGEDIRENFGSYLFAALFRESVKTFRDEQIRRGDEIMPALLQAIEESKISLVIFS 83
           VF+ F G+D+R  F S+L  A+   ++  F D+    G +++  L   I+ES++++VIFS
Sbjct: 16  VFINFRGKDLRNGFLSFLEPAMREANINVFIDKDEVVGTDLV-NLFVRIQESRVAVVIFS 74

Query: 84  KRFAFSRWCLEELVKIIEC-NKLYQTVIPVFYKVLPSDVRNQLGSFGEAF-LEHEKSHDL 141
           K +  S WCL+EL +I +C N+     IP+FYK+ PS V    G FG+ F +  EK  + 
Sbjct: 75  KDYTSSEWCLDELAEIKDCINQGGLNAIPIFYKLAPSSVLELKGGFGDTFRVLKEKYKND 134

Query: 142 RPKVGRWRDALREASDLAG 160
             +  +W++AL     L G
Sbjct: 135 PERTQKWQEALESIPKLKG 153

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SYC9|VAP14_ARATH Vesicle-associated protein 1-4 OS=Arabidopsis thaliana GN=PVA14 PE=2 SV=1

 Score = 87.8 bits (216), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 50/151 (33%), Positives = 87/151 (57%), Gaps = 7/151 (4%)

Query: 21  KHDVFVTFSGEDIRENFGSYLFAALFRESVKTFRDEQIRRGDEIMPALLQAIEESKISLV 80
           ++ VF+ F G+++R +F  +L  A+  E +  F DE   RG  +   L + IEES++++ 
Sbjct: 357 QYQVFINFRGDELRNSFVGFLVKAMRLEKINVFTDEVELRGTNLN-YLFRRIEESRVAVA 415

Query: 81  IFSKRFAFSRWCLEELVKI---IECNKLYQTVIPVFYKVLPSDVRNQLGSFGEAFLEHEK 137
           IFS+R+  S WCL+ELVK+   +E  KL   V+PVFY++  +  +  +G+FG+     E 
Sbjct: 416 IFSERYTESCWCLDELVKMKEQMEQGKL--VVVPVFYRLNATACKRFMGAFGDNLRNLEW 473

Query: 138 SHDLRP-KVGRWRDALREASDLAGWDSNVTR 167
            +   P ++ +W++AL       G  S++ R
Sbjct: 474 EYRSEPERIQKWKEALSSVFSNIGLTSDIRR 504

May play a role in vesicle trafficking.

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	486
255564976	944	TMV resistance protein N, putative [Rici	0.388	0.200	0.486	2e-44
224145030	1435	tir-nbs-lrr resistance protein [Populus	0.358	0.121	0.528	4e-43
255561496	876	TMV resistance protein N, putative [Rici	0.337	0.187	0.530	4e-43
224127917	1470	tir-nbs-lrr resistance protein [Populus	0.355	0.117	0.519	5e-43
357486483	242	TMV resistance protein N [Medicago trunc	0.337	0.677	0.518	2e-42
224145021	1561	tir-nbs-lrr resistance protein [Populus	0.382	0.119	0.494	3e-42
357486473	274	TIR-NBS disease resistance-like protein	0.329	0.583	0.511	4e-42
255537137	1034	leucine-rich repeat containing protein,	0.364	0.171	0.5	4e-42
255555349	1109	leucine-rich repeat containing protein,	0.337	0.147	0.536	7e-42
255537139	1137	leucine-rich repeat-containing protein,	0.349	0.149	0.535	2e-41

>gi|255564976|ref|XP_002523481.1| TMV resistance protein N, putative [Ricinus communis] gi|223537309|gb|EEF38940.1| TMV resistance protein N, putative [Ricinus communis]

 Score =  186 bits (472), Expect = 2e-44,   Method: Compositional matrix adjust.
 Identities = 93/191 (48%), Positives = 134/191 (70%), Gaps = 2/191 (1%)

Query: 19  RYKHDVFVTFSGEDIRENFGSYLFAALFRESVKTFRDEQIRRGDEIMPALLQAIEESKIS 78
           + K+DVFV+F GED R+NF S+L+AAL ++ +K F D+++ RG+EI  AL++ IEES +S
Sbjct: 13  QLKYDVFVSFRGEDTRDNFTSHLYAALHQKQIKAFVDDKLSRGEEISAALVKVIEESMVS 72

Query: 79  LVIFSKRFAFSRWCLEELVKIIECNK-LYQTVIPVFYKVLPSDVRNQLGSFGEAFLEHEK 137
           ++IFS+ +AFS WCL+ELVKI+EC K + Q V+PVFY V PSDV  Q G FG AF+EHEK
Sbjct: 73  VIIFSENYAFSPWCLDELVKILECKKTVGQIVLPVFYHVDPSDVAEQKGGFGAAFIEHEK 132

Query: 138 SHDLR-PKVGRWRDALREASDLAGWDSNVTRPESKLTDEIVNGVVENLKSFAELMEKELV 196
               R  K+ +WR AL EA++++GW S+V R ESKL  EI   +++ L   +   + + +
Sbjct: 133 CFKERIDKLQKWRAALTEAANISGWSSSVIRSESKLIQEIAEDILKKLNHMSSSTDSKGL 192

Query: 197 VLFNRARDKLD 207
           V  N   DK++
Sbjct: 193 VGINSRIDKIE 203

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224145030|ref|XP_002325501.1| tir-nbs-lrr resistance protein [Populus trichocarpa] gi|222862376|gb|EEE99882.1| tir-nbs-lrr resistance protein [Populus trichocarpa]

 Score =  182 bits (462), Expect = 4e-43,   Method: Compositional matrix adjust.
 Identities = 94/178 (52%), Positives = 126/178 (70%), Gaps = 4/178 (2%)

Query: 9   SSSRRLRDQWRYKHDVFVTFSGEDIRENFGSYLFAALFRESVKTFRDEQIRRGDEIMPAL 68
           +SS  +  +W+Y  DVF++F G+D R NF S+L+ AL R+ +KTF D+++ RG EI PAL
Sbjct: 2   ASSSAVAHKWKY--DVFLSFRGKDTRNNFTSHLYDALCRKKIKTFIDDRLERGGEITPAL 59

Query: 69  LQAIEESKISLVIFSKRFAFSRWCLEELVKIIECNKLY-QTVIPVFYKVLPSDVRNQLGS 127
           L+ IEES+IS+VIFSK +A S WC++ELVKI+EC + Y Q V+PVFY V PSDV  Q GS
Sbjct: 60  LKTIEESRISVVIFSKNYASSPWCVDELVKILECKETYGQIVLPVFYHVNPSDVDEQTGS 119

Query: 128 FGEAFLEHEKSHDLR-PKVGRWRDALREASDLAGWDSNVTRPESKLTDEIVNGVVENL 184
           FG AF E EK+   +  KV RWR  L  A+ ++GWDS VT PESKL  ++V  + + L
Sbjct: 120 FGNAFAELEKNFKGKMDKVPRWRADLTNAASISGWDSQVTSPESKLVTDVVQTIWKRL 177

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255561496|ref|XP_002521758.1| TMV resistance protein N, putative [Ricinus communis] gi|223538971|gb|EEF40568.1| TMV resistance protein N, putative [Ricinus communis]

 Score =  182 bits (461), Expect = 4e-43,   Method: Compositional matrix adjust.
 Identities = 88/166 (53%), Positives = 126/166 (75%), Gaps = 2/166 (1%)

Query: 21  KHDVFVTFSGEDIRENFGSYLFAALFRESVKTFRDEQIRRGDEIMPALLQAIEESKISLV 80
           K+DVF++F GED R+NF S+L++AL ++ + TF D++I+RG+EI P++ +AI+ SK+S++
Sbjct: 10  KYDVFLSFRGEDTRDNFTSHLYSALNKKKIFTFMDKEIKRGEEISPSIAKAIKGSKLSVI 69

Query: 81  IFSKRFAFSRWCLEELVKIIECNKLY-QTVIPVFYKVLPSDVRNQLGSFGEAFLEHEKSH 139
           IFS+++AFS+WCL+EL KI+EC K+  Q VIPVFY+V P  VRNQ GSF  AF +HE++ 
Sbjct: 70  IFSEKYAFSKWCLDELTKILECKKMNGQIVIPVFYRVDPVHVRNQRGSFACAFAKHEETL 129

Query: 140 DLR-PKVGRWRDALREASDLAGWDSNVTRPESKLTDEIVNGVVENL 184
             R  KV  WR AL EA  ++GW+S V RPESKL +EIV  + + L
Sbjct: 130 KERMEKVESWRSALNEAGSISGWNSLVARPESKLIEEIVKDISKKL 175

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224127917|ref|XP_002329209.1| tir-nbs-lrr resistance protein [Populus trichocarpa] gi|222870990|gb|EEF08121.1| tir-nbs-lrr resistance protein [Populus trichocarpa]

 Score =  181 bits (460), Expect = 5e-43,   Method: Compositional matrix adjust.
 Identities = 92/177 (51%), Positives = 129/177 (72%), Gaps = 4/177 (2%)

Query: 10  SSRRLRDQWRYKHDVFVTFSGEDIRENFGSYLFAALFRESVKTFRDEQIRRGDEIMPALL 69
           SS  +  +W+Y  DVF++F G+D R+NF S+L  AL R+ +KTF D+++ RG+EI  ALL
Sbjct: 3   SSSAVAQKWKY--DVFLSFRGKDTRDNFVSHLRDALCRKQIKTFIDDKLERGEEITGALL 60

Query: 70  QAIEESKISLVIFSKRFAFSRWCLEELVKIIECNKLY-QTVIPVFYKVLPSDVRNQLGSF 128
           + IEES+IS++IFS+ +A S WC++ELVKI+EC K Y Q V+PVFY V PSDV  Q GSF
Sbjct: 61  RTIEESRISVIIFSRNYASSPWCVDELVKILECKKAYGQIVLPVFYHVDPSDVDQQTGSF 120

Query: 129 GEAFLEHEKSHDLR-PKVGRWRDALREASDLAGWDSNVTRPESKLTDEIVNGVVENL 184
           G AF E E++   +  KV RWR  L  A++++GWDS VTRPES L ++IV+ +++ L
Sbjct: 121 GNAFAELERNFKQKMDKVPRWRADLTSAANISGWDSQVTRPESSLVEQIVHHILKKL 177

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357486483|ref|XP_003613529.1| TMV resistance protein N [Medicago truncatula] gi|355514864|gb|AES96487.1| TMV resistance protein N [Medicago truncatula] gi|388497304|gb|AFK36718.1| unknown [Medicago truncatula] gi|388511843|gb|AFK43983.1| unknown [Medicago truncatula]

 Score =  180 bits (456), Expect = 2e-42,   Method: Compositional matrix adjust.
 Identities = 86/166 (51%), Positives = 122/166 (73%), Gaps = 2/166 (1%)

Query: 21  KHDVFVTFSGEDIRENFGSYLFAALFRESVKTFRDEQIRRGDEIMPALLQAIEESKISLV 80
           KH+VF++F GED R  F S+L A L R  V T+ D  ++RGDEI  ALL+AIEE+ +S+V
Sbjct: 13  KHEVFLSFRGEDTRYTFTSHLHATLTRLDVGTYIDYHLQRGDEISSALLRAIEEASLSVV 72

Query: 81  IFSKRFAFSRWCLEELVKIIECNKLY-QTVIPVFYKVLPSDVRNQLGSFGEAFLEH-EKS 138
           +FSK +  S+WCL+ELVKI+EC K+  Q V+P+FY + PSDVRNQ GS+ +AF++H E+ 
Sbjct: 73  VFSKNYGNSKWCLDELVKILECKKMRGQIVLPIFYDIEPSDVRNQTGSYADAFVKHEERF 132

Query: 139 HDLRPKVGRWRDALREASDLAGWDSNVTRPESKLTDEIVNGVVENL 184
           H    +V +WR+ALREA++L+GWD +  R ES+L ++I   V+E L
Sbjct: 133 HGNLERVQKWREALREAANLSGWDCSTNRMESELLEKIAKDVLEKL 178

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224145021|ref|XP_002325498.1| tir-nbs-lrr resistance protein [Populus trichocarpa] gi|222862373|gb|EEE99879.1| tir-nbs-lrr resistance protein [Populus trichocarpa]

 Score =  179 bits (454), Expect = 3e-42,   Method: Compositional matrix adjust.
 Identities = 94/190 (49%), Positives = 130/190 (68%), Gaps = 4/190 (2%)

Query: 9   SSSRRLRDQWRYKHDVFVTFSGEDIRENFGSYLFAALFRESVKTFRDEQIRRGDEIMPAL 68
           +SS  +  +W+Y  DVF++F G+D R NF S+L   L R+ +KTF D+++ RG+EI PAL
Sbjct: 2   ASSSAVARKWKY--DVFLSFRGKDTRNNFTSHLCKDLRRQKIKTFIDDRLERGEEITPAL 59

Query: 69  LQAIEESKISLVIFSKRFAFSRWCLEELVKIIECNKLY-QTVIPVFYKVLPSDVRNQLGS 127
           L+ IEES++S+VIFS+ +A S WCL+ELVKI+EC + Y Q V+PVFY V PSDV  Q GS
Sbjct: 60  LKTIEESRVSIVIFSENYASSPWCLDELVKILECKETYGQIVLPVFYHVDPSDVDEQTGS 119

Query: 128 FGEAFLEHEKSHDLR-PKVGRWRDALREASDLAGWDSNVTRPESKLTDEIVNGVVENLKS 186
           FG AF E EK+   +  KV RWR  L  A+ ++GWDS VT PE+KL  E+V  + + L  
Sbjct: 120 FGNAFSELEKNFKGKMGKVPRWRADLTYAASISGWDSQVTSPEAKLISEVVQTICKRLNR 179

Query: 187 FAELMEKELV 196
            +    ++LV
Sbjct: 180 ASPCKLRDLV 189

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357486473|ref|XP_003613524.1| TIR-NBS disease resistance-like protein [Medicago truncatula] gi|355514859|gb|AES96482.1| TIR-NBS disease resistance-like protein [Medicago truncatula]

 Score =  179 bits (453), Expect = 4e-42,   Method: Compositional matrix adjust.
 Identities = 86/168 (51%), Positives = 117/168 (69%), Gaps = 8/168 (4%)

Query: 21  KHDVFVTFSGEDIRENFGSYLFAALFRESVKTFRDEQIRRGDEIMPALLQAIEESKISLV 80
           KH+VF++F GED R NF S+L  AL R  ++T+ D  + RGDEI   L++AIEE+K+S++
Sbjct: 19  KHEVFISFRGEDTRNNFTSHLNGALKRLDIRTYIDNDLNRGDEIPTTLIRAIEEAKVSVI 78

Query: 81  IFSKRFAFSRWCLEELVKIIECNKLY-QTVIPVFYKVLPSDVRNQLGSFGEAFLEHEKSH 139
           +FSK +A S+WCLEEL+KI+E  K+  Q V+P+FY V PSDVRNQ GS+ EAF  HE++ 
Sbjct: 79  VFSKNYAVSKWCLEELMKILEIKKMKGQIVVPIFYDVDPSDVRNQRGSYAEAFNNHERNF 138

Query: 140 DLRPKVGRWRDALREASDLAGWDSNVTRPESKLTDEI-------VNGV 180
             + KV  WR+ L EA++ AGWD NV R E  L +EI       +NGV
Sbjct: 139 KKKIKVQEWRNGLMEAANYAGWDCNVNRTELALVEEIAVDVLNKINGV 186

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255537137|ref|XP_002509635.1| leucine-rich repeat containing protein, putative [Ricinus communis] gi|223549534|gb|EEF51022.1| leucine-rich repeat containing protein, putative [Ricinus communis]

 Score =  179 bits (453), Expect = 4e-42,   Method: Compositional matrix adjust.
 Identities = 93/186 (50%), Positives = 133/186 (71%), Gaps = 9/186 (4%)

Query: 1   MASSSLSSSSSRRLRDQWRYKHDVFVTFSGEDIRENFGSYLFAALFRESVKTFRDEQIRR 60
           MAS S +S S+ +    W+Y  DVF++F G D R+NF S+L  AL R+S++TF D+++ R
Sbjct: 1   MASPSSASHSTHK----WKY--DVFLSFRGADTRQNFTSHLHFALCRKSIRTFIDDELSR 54

Query: 61  GDEIMPALLQAIEESKISLVIFSKRFAFSRWCLEELVKIIECNKLY-QTVIPVFYKVLPS 119
           G++I PALL+ +EES+I+++IFSK +  S +CL+E+ KIIECN+ + QTV+PVFY V P 
Sbjct: 55  GEQITPALLEVVEESRIAVIIFSKNYGSSTFCLDEVAKIIECNETHRQTVVPVFYHVDPL 114

Query: 120 DVRNQLGSFGEAFLEHEKSHDLRPKVGRWRDALREASDLAGWDSNVTRPESKLTDEIVNG 179
           DV NQ GSF  AF +HE  H+   +V RW+ AL +A+ +AGWDS V R ES+L + IV  
Sbjct: 115 DVENQTGSFETAFAKHE-IHNF-DRVQRWKAALSKAASMAGWDSKVIRMESQLVENIVRD 172

Query: 180 VVENLK 185
           ++E LK
Sbjct: 173 ILEKLK 178

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255555349|ref|XP_002518711.1| leucine-rich repeat containing protein, putative [Ricinus communis] gi|223542092|gb|EEF43636.1| leucine-rich repeat containing protein, putative [Ricinus communis]

 Score =  177 bits (450), Expect = 7e-42,   Method: Compositional matrix adjust.
 Identities = 89/166 (53%), Positives = 121/166 (72%), Gaps = 2/166 (1%)

Query: 21  KHDVFVTFSGEDIRENFGSYLFAALFRESVKTFRDEQIRRGDEIMPALLQAIEESKISLV 80
           K+DVF+ F GED R NF S+L  AL + ++ TF D ++ RG+ + P+LL+AIEESKIS+V
Sbjct: 22  KYDVFLNFRGEDTRINFTSHLHDALLKNNILTFIDNELVRGEALSPSLLKAIEESKISVV 81

Query: 81  IFSKRFAFSRWCLEELVKIIECNKLY-QTVIPVFYKVLPSDVRNQLGSFGEAFLEHEKSH 139
           I S+ + +S+WCLEELVKI+EC K+  Q VIPVFYKV PS VRNQ GSF +AF  HE+S 
Sbjct: 82  ILSENYPYSKWCLEELVKILECMKINGQMVIPVFYKVDPSHVRNQTGSFADAFARHEESL 141

Query: 140 DL-RPKVGRWRDALREASDLAGWDSNVTRPESKLTDEIVNGVVENL 184
            +   KV  WR AL++ ++++GWDS VT PES+L  +I+  + E L
Sbjct: 142 LVTEDKVKSWRAALKDVANISGWDSRVTSPESELIKKIIRDIWEKL 187

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255537139|ref|XP_002509636.1| leucine-rich repeat-containing protein, putative [Ricinus communis] gi|223549535|gb|EEF51023.1| leucine-rich repeat-containing protein, putative [Ricinus communis]

 Score =  177 bits (448), Expect = 2e-41,   Method: Compositional matrix adjust.
 Identities = 99/185 (53%), Positives = 132/185 (71%), Gaps = 15/185 (8%)

Query: 3   SSSLSSSSSRRLRDQWRYKHDVFVTFSGEDIRENFGSYLFAALFRESVKTFRDEQ-IRRG 61
           ++SLS+S +     QW+Y  DVF++F GED R+NF S+LFAAL R+SV TF D   +  G
Sbjct: 2   ATSLSTSHTTH---QWKY--DVFLSFRGEDTRDNFTSHLFAALSRKSVITFMDNNDLHVG 56

Query: 62  DEIMPALLQAIEESKISLVIFSKRFAFSRWCLEELVKIIECNKLY-QTVIPVFYKVLPSD 120
           +EI PA+ +AIEESKI++VIFS+R+AFSRWCL E+V+IIEC +   Q V+PVFY V PSD
Sbjct: 57  EEITPAISKAIEESKIAIVIFSERYAFSRWCLNEIVRIIECKETCGQLVLPVFYHVGPSD 116

Query: 121 VRNQLGSFGEAFLEHEKSHDLRPKVGRWRDALREASDLAGWDSNVTRPESKLTDEIVNGV 180
           V      F EAF     S+D   KV +W++AL +A++L+ +DS VTRPESKL DEIV   
Sbjct: 117 V----SVFAEAF----PSYDQFEKVQKWKNALSKAANLSAFDSRVTRPESKLVDEIVMYT 168

Query: 181 VENLK 185
           ++ LK
Sbjct: 169 LKQLK 173

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

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	486
TAIR|locus:2175991	1294	AT5G17680 [Arabidopsis thalian	0.329	0.123	0.452	4.3e-34
TAIR|locus:2153072	1229	AT5G51630 [Arabidopsis thalian	0.333	0.131	0.458	2.6e-33
TAIR|locus:2151466	1353	VICTL "VARIATION IN COMPOUND T	0.339	0.121	0.441	6.8e-32
UNIPROTKB|Q40392	1144	N "TMV resistance protein N" [	0.652	0.277	0.347	8.1e-32
TAIR|locus:2151476	1168	VICTR "VARIATION IN COMPOUND T	0.333	0.138	0.419	1.2e-31
TAIR|locus:2028681	1161	AT1G31540 [Arabidopsis thalian	0.360	0.150	0.413	1.4e-31
TAIR|locus:2098145	1240	AT3G44630 [Arabidopsis thalian	0.405	0.158	0.361	3.6e-31
TAIR|locus:2032753	371	AT1G72940 [Arabidopsis thalian	0.419	0.549	0.380	6.9e-31
TAIR|locus:2115870	1234	AT4G08450 [Arabidopsis thalian	0.331	0.130	0.437	1.1e-30
TAIR|locus:2130319	796	RLM3 "RESISTANCE TO LEPTOSPHAE	0.333	0.203	0.481	2.6e-30

TAIR|locus:2175991 AT5G17680 [Arabidopsis thaliana (taxid:3702)]

 Score = 374 (136.7 bits), Expect = 4.3e-34, Sum P(2) = 4.3e-34
 Identities = 76/168 (45%), Positives = 114/168 (67%)

Query:    20 YKHDVFVTFSGEDIRENFGSYLFAALFRESVKTFRDE-QIRRGDEIMPALLQAIEESKIS 78
             +K DVFV+F GED+R+ F S+LF    R  +K FRD+  ++RG  I P L+ AI+ S+ +
Sbjct:    16 WKTDVFVSFRGEDVRKTFVSHLFCEFDRMGIKAFRDDLDLQRGKSISPELIDAIKGSRFA 75

Query:    79 LVIFSKRFAFSRWCLEELVKIIECNKLYQTVIPVFYKVLPSDVRNQLGSFGEAFLEHEKS 138
             +V+ S+ +A S WCL+EL+KI+ECNK   T++P+FY+V PSDVR Q GSFGE      +S
Sbjct:    76 IVVVSRNYAASSWCLDELLKIMECNK--DTIVPIFYEVDPSDVRRQRGSFGEDV----ES 129

Query:   139 HDLRPKVGRWRDALREASDLAGWDSNVTRPESKLTDEIVNGVVENLKS 186
             H  + KVG+W++AL++ + ++G DS     +SKL  +IV  + + L S
Sbjct:   130 HSDKEKVGKWKEALKKLAAISGEDSR-NWDDSKLIKKIVKDISDKLVS 176

GO:0005622 "intracellular" evidence=IEA

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

GO:0007165 "signal transduction" evidence=IEA

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2153072 AT5G51630 [Arabidopsis thaliana (taxid:3702)]

 Score = 343 (125.8 bits), Expect = 2.6e-33, Sum P(3) = 2.6e-33
 Identities = 78/170 (45%), Positives = 104/170 (61%)

Query:    18 WRYKHDVFVTFSGEDIRENFGSYLFAALFRESVKTFRDEQIRRGDEIMPALLQAIEESKI 77
             W Y  DVF +FSGED+R++F S+L   L R+S+ TF D  I R   I P LL AI  S I
Sbjct:     9 WTY--DVFPSFSGEDVRKSFLSHLLKKLHRKSINTFIDNNIERSHAIAPDLLSAINNSMI 66

Query:    78 SLVIFSKRFAFSRWCLEELVKIIECNK-LYQTVIPVFYKVLPSDVRNQLGSFGEAFLEH- 135
             S+V+FSK++A S WCL ELV+I +C K L Q VIP+FY+V PSDVR Q   FGE F    
Sbjct:    67 SIVVFSKKYASSTWCLNELVEIHKCYKELTQIVIPIFYEVDPSDVRKQTREFGEFFKVTC 126

Query:   136 -EKSHDLRPKVGRWRDALREASDLAGWDSNVTRPESKLTDEIVNGVVENL 184
               K+ D++ +   W +AL E + +AG DS     E+ + + I   V+  L
Sbjct:   127 VGKTEDVKQQ---WIEALEEVASIAGHDSKNWPNEANMIEHIAKDVLNKL 173

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

GO:0005737 "cytoplasm" evidence=ISM

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

GO:0007165 "signal transduction" evidence=IEA

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

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2151466 VICTL "VARIATION IN COMPOUND TRIGGERED ROOT growth response-like" [Arabidopsis thaliana (taxid:3702)]

 Score = 340 (124.7 bits), Expect = 6.8e-32, Sum P(2) = 6.8e-32
 Identities = 75/170 (44%), Positives = 108/170 (63%)

Query:    18 WRYKHDVFVTFSGEDIRENFGSYLFAALFRESVKTFRDEQIRRGDEIMPALLQAIEESKI 77
             W Y  DVF +FSG D+R NF S+L   L + SV +FRD+ + R   + P L QAI +S+I
Sbjct:     7 WVY--DVFPSFSGTDVRRNFLSHLLKGLHK-SVNSFRDQNMERSQSLDPMLKQAIRDSRI 63

Query:    78 SLVIFSKRFAFSRWCLEELVKIIECNKLY-QTVIPVFYKVLPSDVRNQLGSFGEAFLEHE 136
             +LV+FSK +A S WCL EL++I++C + + Q VIP+FY + PS VR+Q G FG+ F E  
Sbjct:    64 ALVVFSKNYASSSWCLNELLEIVKCKEEFGQMVIPIFYCLDPSHVRHQDGDFGKNFEETC 123

Query:   137 KSHDLRPKVGRWRDALREASDLAGWDSNVTRPESKLTDEIVNGVVENLKS 186
               +    K+ +W  AL + ++LAG+DS     E+K+ +EI N V   L S
Sbjct:   124 GRNTEEEKI-QWEKALTDVANLAGFDSVTWDDEAKMIEEIANDVSGKLLS 172

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

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

GO:0007165 "signal transduction" evidence=IEA

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

GO:0043531 "ADP binding" evidence=IEA

UNIPROTKB|Q40392 N "TMV resistance protein N" [Nicotiana glutinosa (taxid:35889)]

 Score = 361 (132.1 bits), Expect = 8.1e-32, P = 8.1e-32
 Identities = 118/340 (34%), Positives = 173/340 (50%)

Query:    19 RYKHDVFVTFSGEDIRENFGSYLFAALFRESVKTFRDEQ-IRRGDEIMPALLQAIEESKI 77
             R+ +DVF++F GED R+ F S+L+  L  + +KTF+D++ +  G  I   L +AIEES+ 
Sbjct:     9 RWSYDVFLSFRGEDTRKTFTSHLYEVLNDKGIKTFQDDKRLEYGATIPGELCKAIEESQF 68

Query:    78 SLVIFSKRFAFSRWCLEELVKIIECNKLY-QTVIPVFYKVLPSDVRNQLGSFGEAFLEHE 136
             ++V+FS+ +A SRWCL ELVKI+EC   + QTVIP+FY V PS VRNQ  SF +AF EHE
Sbjct:    69 AIVVFSENYATSRWCLNELVKIMECKTRFKQTVIPIFYDVDPSHVRNQKESFAKAFEEHE 128

Query:   137 -KSHDLRPKVGRWRDALREASDLAGWDSNVTRPESKLTDEIVNGVVENLKSFAELMEKEL 195
              K  D    + RWR AL EA++L G   N      K   + +  +V+ + S  +L +  L
Sbjct:   129 TKYKDDVEGIQRWRIALNEAANLKGSCDN----RDKTDADCIRQIVDQISS--KLCKISL 182

Query:   196 VVLFNRARDKLDNHASSLLDEVLSLLR-NAEGYRSYRCWLLCPLFSEL--RVLTNDVHQL 252
               L N     +D H    L+++ SLL     G R    W +  +      R + + +   
Sbjct:   183 SYLQNIVG--IDTH----LEKIESLLEIGINGVRIMGIWGMGGVGKTTIARAIFDTLLGR 236

Query:   253 MDN-YENSDVTLAKFEGEVKKLDQRLLR-FLESVDKHVASYDRYGSASFEQPRPQTTSAA 310
             MD+ Y+       K   E K+    L    L  + +  A+Y+        Q   +  S  
Sbjct:   237 MDSSYQFDGACFLKDIKENKRGMHSLQNALLSELLREKANYNNEEDGK-HQMASRLRSKK 295

Query:   311 HPYVEDVID--DAYMEDITDDSSPSLNLSRINSTSRFEQL 348
                V D ID  D Y+E +  D     N SRI  T+R + L
Sbjct:   296 VLIVLDDIDNKDHYLEYLAGDLDWFGNGSRIIITTRDKHL 335

GO:0005515 "protein binding" evidence=IPI

TAIR|locus:2151476 VICTR "VARIATION IN COMPOUND TRIGGERED ROOT growth response" [Arabidopsis thaliana (taxid:3702)]

 Score = 336 (123.3 bits), Expect = 1.2e-31, Sum P(2) = 1.2e-31
 Identities = 70/167 (41%), Positives = 104/167 (62%)

Query:    18 WRYKHDVFVTFSGEDIRENFGSYLFAALFRESVKTFRDEQIRRGDEIMPALLQAIEESKI 77
             W Y  DVF++FSG+D+R  F S+    L R+ +  FRD +I R   + P L QAI++S+I
Sbjct:    10 WVY--DVFLSFSGKDVRVTFRSHFLKELDRKLISAFRDNEIERSHSLWPDLEQAIKDSRI 67

Query:    78 SLVIFSKRFAFSRWCLEELVKIIECNKLYQTVIPVFYKVLPSDVRNQLGSFGEAFLEHEK 137
             ++V+FSK +A S WCL EL++I+ CN   + +IPVFY V PS VR Q+G FG  F +  K
Sbjct:    68 AVVVFSKNYASSSWCLNELLEIVNCND--KIIIPVFYGVDPSQVRYQIGEFGSIFEKTCK 125

Query:   138 SHDLRPKVGRWRDALREASDLAGWDSNVTRPESKLTDEIVNGVVENL 184
                   K  +W+ AL + +++ G+DS     E+K+ +EI N V+  L
Sbjct:   126 RQTEEVK-NQWKKALTDVANMLGFDSAKWDDEAKMIEEIANDVLAKL 171

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

GO:0007165 "signal transduction" evidence=IEA

GO:0005515 "protein binding" evidence=IPI

GO:0005634 "nucleus" evidence=IDA

GO:0005829 "cytosol" evidence=IDA

TAIR|locus:2028681 AT1G31540 [Arabidopsis thaliana (taxid:3702)]

 Score = 341 (125.1 bits), Expect = 1.4e-31, Sum P(2) = 1.4e-31
 Identities = 74/179 (41%), Positives = 106/179 (59%)

Query:    18 WRYKHDVFVTFSGEDIRENFGSYLFAALFRESVKTFRDEQIRRGDEIMPALLQAIEESKI 77
             W Y  DVF++F GED+R  F S+    L R+ +  FRD +I R   + P L QAI+ES+I
Sbjct:    10 WLY--DVFLSFRGEDVRVTFRSHFLKELDRKLITAFRDNEIERSHSLWPDLEQAIKESRI 67

Query:    78 SLVIFSKRFAFSRWCLEELVKIIECNKLYQTVIPVFYKVLPSDVRNQLGSFGEAFLEHEK 137
             ++V+FSK +A S WCL EL++I+ CN   + VIPVFY V PS VR+Q+G FG+ F    K
Sbjct:    68 AVVVFSKNYASSSWCLNELLEIVNCND--KIVIPVFYHVDPSQVRHQIGDFGKIFENTCK 125

Query:   138 SHDLRPKVGRWRDALREASDLAGWDSNVTRPESKLTDEIVNGVVENLKSFAELMEKELV 196
                      +W+ AL   +++ G+DS     E+K+ +EI N V+  L        +ELV
Sbjct:   126 RQTDEEVKNQWKKALTLVANMLGFDSAKWNDEAKMIEEIANDVLGKLLLTTPKDSEELV 184

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

GO:0005737 "cytoplasm" evidence=ISM

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

GO:0007165 "signal transduction" evidence=IEA

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

GO:0043531 "ADP binding" evidence=IEA

GO:0009506 "plasmodesma" evidence=IDA

TAIR|locus:2098145 AT3G44630 [Arabidopsis thaliana (taxid:3702)]

 Score = 340 (124.7 bits), Expect = 3.6e-31, Sum P(2) = 3.6e-31
 Identities = 72/199 (36%), Positives = 118/199 (59%)

Query:    20 YKHDVFVTFSGEDIRENFGSYLFAALFRESVKTFRDEQIRRGDEIMPALLQAIEESKISL 79
             +KHDVF +F G D+R  F S++  +  R+ + TF D  I R   I P L +AI+ SKI++
Sbjct:    92 WKHDVFPSFHGADVRRTFLSHIMESFRRKGIDTFIDNNIERSKSIGPELKEAIKGSKIAI 151

Query:    80 VIFSKRFAFSRWCLEELVKIIECNKLY-QTVIPVFYKVLPSDVRNQLGSFGEAFLEHEKS 138
             V+ S+++A S WCL+EL +I++C ++  Q V+ +FY+V P+D++ Q G FG+AF +  + 
Sbjct:   152 VLLSRKYASSSWCLDELAEIMKCRQMVGQIVMTIFYEVEPTDIKKQTGEFGKAFTKTCRG 211

Query:   139 HDLRPKVGRWRDALREASDLAGWDSNVTRPESKLTDEIVNGVVENLKSFAELMEKELVVL 198
                + +V RWR AL + + +AG+ S+  R E+ + ++I   V   L SF    + + +V 
Sbjct:   212 KP-KEQVERWRKALEDVATIAGYHSHSWRNEADMIEKIATDVSNMLNSFTPSRDFDGLVG 270

Query:   199 FNRARDKLDNHASSLLDEV 217
                  D L+      LDEV
Sbjct:   271 MRAHMDMLEQLLRLDLDEV 289

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

GO:0005737 "cytoplasm" evidence=ISM

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

GO:0007165 "signal transduction" evidence=IEA

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

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2032753 AT1G72940 [Arabidopsis thaliana (taxid:3702)]

 Score = 340 (124.7 bits), Expect = 6.9e-31, P = 6.9e-31
 Identities = 81/213 (38%), Positives = 123/213 (57%)

Query:    21 KHDVFVTFSGEDIRENFGSYLFAALFRESVKTFRDE-QIRRGDEIMPALLQAIEESKISL 79
             K+DVF++F G D R NF S+L+    R  ++TF+D+ ++  G  I P L +AIEESK ++
Sbjct:     8 KYDVFLSFRGVDTRRNFISFLYKEFVRRKIRTFKDDKELENGRRISPELKRAIEESKFAV 67

Query:    80 VIFSKRFAFSRWCLEELVKIIEC-NKLYQTVIPVFYKVLPSDVRNQLGSFGEAFLEHEKS 138
             V+ S  +A S WCL+ELVKI++  NK   TV+P+FY V P  +R Q+G   E F +HE  
Sbjct:    68 VVVSVNYAASPWCLDELVKIMDFENKGSITVMPIFYGVDPCHLRRQIGDVAEQFKKHEAR 127

Query:   139 HDLRPKVGRWRDALREASDLAGWDSNVTRPESKLTDEIVNGVVENLKSFAELME-KELVV 197
              +   KV  WR AL   + ++G  S+    E+KL DEI + + +NL +   +   K LV 
Sbjct:   128 EEDHEKVASWRRALTSLASISGDCSSKCEDEAKLVDEIADKISKNLMTVTTISNGKNLVG 187

Query:   198 LFNRAR---DKLDNHASSLLDEVLSLLRNAEGY 227
             +    +    KLD +++  L  V+ +   A GY
Sbjct:   188 IDTHMKALNKKLDLNSNKSL-RVVGIW--ARGY 217

GO:0005622 "intracellular" evidence=IEA

GO:0005737 "cytoplasm" evidence=ISM

GO:0006952 "defense response" evidence=ISS

GO:0007165 "signal transduction" evidence=IEA

GO:0043531 "ADP binding" evidence=IEA

GO:0006914 "autophagy" evidence=RCA

TAIR|locus:2115870 AT4G08450 [Arabidopsis thaliana (taxid:3702)]

 Score = 351 (128.6 bits), Expect = 1.1e-30, P = 1.1e-30
 Identities = 73/167 (43%), Positives = 109/167 (65%)

Query:    18 WRYKHDVFVTFSGEDIRENFGSYLFAALFRESVKTFRDEQIRRGDEIMPALLQAIEESKI 77
             W Y  DVF +FSGEDIR  F ++    L R+ +  F+D +I RG+ I   L+QAI++S+I
Sbjct:     9 WVY--DVFTSFSGEDIRVTFLTHFLKELDRKMIIAFKDNEIERGNSIGTELIQAIKDSRI 66

Query:    78 SLVIFSKRFAFSRWCLEELVKIIECNKLYQTVIPVFYKVLPSDVRNQLGSFGEAFLEHEK 137
             ++V+FSK+++ S WCL ELV+I+ C ++   VIPVFY + PSDVR Q G FGE+F E  K
Sbjct:    67 AVVVFSKKYSSSSWCLNELVEIVNCKEI---VIPVFYDLDPSDVRKQEGEFGESFKETCK 123

Query:   138 SHDLRPKVGRWRDALREASDLAGWDSNVTRPESKLTDEIVNGVVENL 184
             +     ++ RW  AL   +++AG+ +     E+KL +EI N V++ L
Sbjct:   124 NRT-DYEIQRWGQALTNVANIAGYHTRKPNNEAKLIEEITNDVLDKL 169

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

GO:0005737 "cytoplasm" evidence=ISM

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

GO:0007165 "signal transduction" evidence=IEA

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

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2130319 RLM3 "RESISTANCE TO LEPTOSPHAERIA MACULANS 3" [Arabidopsis thaliana (taxid:3702)]

 Score = 344 (126.2 bits), Expect = 2.6e-30, P = 2.6e-30
 Identities = 79/164 (48%), Positives = 98/164 (59%)

Query:    22 HDVFVTFSGEDIRENFGSYLFAALFRESVKTFRDEQIRRGDEIMPALLQAIEESKISLVI 81
             +DVF  F GED+R +  S+L   L R+ + TF D +I R  +I P LL AIE S+ISLV+
Sbjct:     9 YDVFPNFRGEDVRHSLVSHLRKELDRKFINTFNDNRIERSRKITPELLLAIENSRISLVV 68

Query:    82 FSKRFAFSRWCLEELVKIIEC-NKLYQTVIPVFYKVLPSDVRNQLGSFGEAFLEHEKSHD 140
             FSK +A S WCL+ELVKI EC  KL Q VIP+FYKV PS VR Q G FG  F E  K   
Sbjct:    69 FSKNYASSTWCLDELVKIQECYEKLDQMVIPIFYKVDPSHVRKQTGEFGMVFGETCKGRT 128

Query:   141 LRPKVGRWRDALREASDLAGWDSNVTRPESKLTDEIVNGVVENL 184
                K  +W  AL E + LAG D    R E+++ + I   V   L
Sbjct:   129 ENEK-RKWMRALAEVAHLAGEDLRNWRSEAEMLENIAKDVSNKL 171

GO:0005622 "intracellular" evidence=IEA

GO:0005634 "nucleus" evidence=ISM

GO:0005737 "cytoplasm" evidence=ISM

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

GO:0007165 "signal transduction" evidence=IEA

GO:0043531 "ADP binding" evidence=IEA

GO:0009817 "defense response to fungus, incompatible interaction" evidence=IMP

GO:0009861 "jasmonic acid and ethylene-dependent systemic resistance" evidence=IMP

GO:2000071 "regulation of defense response by callose deposition" evidence=IMP

GO:0015979 "photosynthesis" evidence=RCA

---

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

Your Input: eugene3.01250002 annotation not avaliable (1627 aa) (Populus trichocarpa)

Predicted Functional Partners:

Sorry, there are no predicted associations at the current settings.

---

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	486
PLN03210	1153	PLN03210, PLN03210, Resistant to P	3e-37
pfam01582	135	pfam01582, TIR, TIR domain	1e-33
smart00255	140	smart00255, TIR, Toll - interleukin 1 - resistance	2e-27
PLN03194	187	PLN03194, PLN03194, putative disease resistance pr	1e-11
pfam13676	102	pfam13676, TIR_2, TIR domain	5e-09

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

 Score =  145 bits (368), Expect = 3e-37
 Identities = 81/187 (43%), Positives = 114/187 (60%), Gaps = 15/187 (8%)

Query: 1   MASSSLSSSSSRRLRDQWRYKHDVFVTFSGEDIRENFGSYLFAALFRESVKTFRDEQIRR 60
           MASSS   SSSR     W Y  DVF +FSGED+R  F S+    L R+ +  F+D +I R
Sbjct: 1   MASSS---SSSR----NWVY--DVFPSFSGEDVRITFLSHFLKELDRKLIIAFKDNEIER 51

Query: 61  GDEIMPALLQAIEESKISLVIFSKRFAFSRWCLEELVKIIECNK-LYQTVIPVFYKVLPS 119
              + P L QAI +S+I++V+FSK +A S WCL EL++I+ C + L Q VIPVFY + PS
Sbjct: 52  SQSLDPELKQAIRDSRIAVVVFSKNYASSSWCLNELLEIVRCKEELGQLVIPVFYGLDPS 111

Query: 120 DVRNQLGSFGEAFLE--HEKSHDLRPKVGRWRDALREASDLAGWDSNVTRPESKLTDEIV 177
            VR Q G FGEAF +    K+ D +    +W+ AL + +++ G+ S     E+K+ +EI 
Sbjct: 112 HVRKQTGDFGEAFEKTCQNKTEDEKI---QWKQALTDVANILGYHSQNWPNEAKMIEEIA 168

Query: 178 NGVVENL 184
           N V+  L
Sbjct: 169 NDVLGKL 175

syringae 6; Provisional. Length = 1153

>gnl|CDD|216585 pfam01582, TIR, TIR domain

 Score =  123 bits (311), Expect = 1e-33
 Identities = 57/135 (42%), Positives = 85/135 (62%), Gaps = 5/135 (3%)

Query: 24  VFVTFSGEDIRENFGSYLFAALFRESVKTFRDE-QIRRGDEIMPALLQAIEESKISLVIF 82
           VFV+FSG+D R+ F S+L   L  + +K   D+     G+ I+  L +AIE+S+ ++VIF
Sbjct: 1   VFVSFSGKDDRDTFVSHLLKELEEKGIKLCIDDRDELPGESILENLFEAIEKSRRAIVIF 60

Query: 83  SKRFAFSRWCLEELVKIIECNK---LYQTVIPVFYKVLPSDVRNQLGSFGEAFLEHEKSH 139
           S  +A S WCL+ELV+I++C       + ++P+FYKV PSDVR Q G FG+AFL+  K  
Sbjct: 61  SSNYASSEWCLDELVEIVKCALEGGGKKVILPIFYKVDPSDVRPQSGKFGKAFLKTLKWS 120

Query: 140 DLR-PKVGRWRDALR 153
             +  K+  W+ AL 
Sbjct: 121 GDKEDKIRFWKKALY 135

The Toll/interleukin-1 receptor (TIR) homology domain is an intracellular signalling domain found in MyD88, interleukin 1 receptor and the Toll receptor. It contains three highly-conserved regions, and mediates protein-protein interactions between the Toll-like receptors (TLRs) and signal-transduction components. TIR-like motifs are also found in plant proteins thought to be involved in resistance to disease. When activated, TIR domains recruit cytoplasmic adaptor proteins MyD88 and TOLLIP (Toll interacting protein). In turn, these associate with various kinases to set off signalling cascades. Length = 135

>gnl|CDD|214587 smart00255, TIR, Toll - interleukin 1 - resistance

 Score =  106 bits (266), Expect = 2e-27
 Identities = 50/141 (35%), Positives = 79/141 (56%), Gaps = 4/141 (2%)

Query: 21  KHDVFVTFSG-EDIRENFGSYLFAALFRESVKTFRDEQIRRGDEIMPALLQAIEESKISL 79
           ++DVF+++SG ED+R  F S+L   L    +  F D+    G ++   + +AIE+S+I++
Sbjct: 1   EYDVFISYSGKEDVRNEFLSHLLEKLRGYGLCVFIDDFEPGGGDL-EEIDEAIEKSRIAI 59

Query: 80  VIFSKRFAFSRWCLEELVKIIEC--NKLYQTVIPVFYKVLPSDVRNQLGSFGEAFLEHEK 137
           V+ S  +A S WCL+ELV  +E    +    VIP+FY+V+PSDVR Q G F + F ++  
Sbjct: 60  VVLSPNYAESEWCLDELVAALENALEEGGLRVIPIFYEVIPSDVRKQPGKFRKVFKKNYL 119

Query: 138 SHDLRPKVGRWRDALREASDL 158
                 K   W+ AL      
Sbjct: 120 KWPEDEKEQFWKKALYAVPSK 140

Length = 140

>gnl|CDD|215626 PLN03194, PLN03194, putative disease resistance protein; Provisional

 Score = 63.3 bits (154), Expect = 1e-11
 Identities = 43/148 (29%), Positives = 70/148 (47%), Gaps = 15/148 (10%)

Query: 22  HDVFVTFSGEDIRENFGSYLFAALFRESVKTFRDEQ-IRRGDEIMPALLQAIEESKISLV 80
            DVF+   G D +    + L+  L R +++ F D + ++ GD++   +  AI   K+ + 
Sbjct: 27  CDVFINHRGIDTKRTIATLLYDHLSRLNLRPFLDNKNMKPGDKLFDKINSAIRNCKVGVA 86

Query: 81  IFSKRFAFSRWCLEELVKIIECNKLYQTVIPVFYKVLPSDVR---------NQLGSFGEA 131
           +FS R+  S +CL EL  I+E  K    VIP+F  V PS +R          ++  F  A
Sbjct: 87  VFSPRYCESYFCLHELALIMESKK---RVIPIFCDVKPSQLRVVDNGTCPDEEIRRFNWA 143

Query: 132 FLEHEKSHDL--RPKVGRWRDALREASD 157
             E + +  L      G W + +  ASD
Sbjct: 144 LEEAKYTVGLTFDSLKGNWSEVVTMASD 171

Length = 187

>gnl|CDD|222311 pfam13676, TIR_2, TIR domain

 Score = 53.4 bits (129), Expect = 5e-09
 Identities = 22/89 (24%), Positives = 42/89 (47%), Gaps = 5/89 (5%)

Query: 24  VFVTFSGEDIRENFGSYLFAALFRESVKTFRDEQIRRGDEIMPALLQAIEESKISLVIFS 83
           VF++++  D    +  +L  AL    ++ + D  I  G++    + +A+  + + LV+ S
Sbjct: 1   VFISYASADRE--WAEWLADALEAAGIRVWLDWDIPPGEDWRDEIEEALRSADVVLVLLS 58

Query: 84  KRFAFSRWCLEELVKIIECNKLYQTVIPV 112
             +  S WC  E    +E  K    +IPV
Sbjct: 59  PAYLASPWCRAEWGAALERGK---RLIPV 84

This is a family of bacterial Toll-like receptors. Length = 102

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	486
PLN03210	1153	Resistant to P. syringae 6; Provisional	100.0
PLN03194	187	putative disease resistance protein; Provisional	100.0
KOG4658	889	consensus Apoptotic ATPase [Signal transduction me	99.93
PF01582	141	TIR: TIR domain; InterPro: IPR000157 In Drosophila	99.87
PF00931	287	NB-ARC: NB-ARC domain; InterPro: IPR002182 This is	99.87
smart00255	140	TIR Toll - interleukin 1 - resistance.	99.8
PF13676	102	TIR_2: TIR domain; PDB: 3H16_B 3UB4_A 2Y92_A 3UB3_	99.48
KOG1603	73	consensus Copper chaperone [Inorganic ion transpor	99.31
PF00403	62	HMA: Heavy-metal-associated domain; InterPro: IPR0	98.49
KOG3678	832	consensus SARM protein (with sterile alpha and arm	98.24
PF05729	166	NACHT: NACHT domain	98.04
PF08937	130	DUF1863: MTH538 TIR-like domain (DUF1863); InterPr	97.76
PRK06893	229	DNA replication initiation factor; Validated	97.66
KOG4656	247	consensus Copper chaperone for superoxide dismutas	97.41
PF13173	128	AAA_14: AAA domain	97.38
COG2608	71	CopZ Copper chaperone [Inorganic ion transport and	97.37
TIGR03015	269	pepcterm_ATPase putative secretion ATPase, PEP-CTE	97.15
PRK00411	394	cdc6 cell division control protein 6; Reviewed	96.94
cd01128	249	rho_factor Transcription termination factor rho is	96.65
cd00009	151	AAA The AAA+ (ATPases Associated with a wide varie	96.63
PRK13342	413	recombination factor protein RarA; Reviewed	96.47
COG2256	436	MGS1 ATPase related to the helicase subunit of the	96.45
PRK09376	416	rho transcription termination factor Rho; Provisio	96.17
TIGR00635	305	ruvB Holliday junction DNA helicase, RuvB subunit.	96.13
PLN02957	238	copper, zinc superoxide dismutase	96.12
PF08357	150	SEFIR: SEFIR domain; InterPro: IPR013568 This doma	96.06
TIGR02903	615	spore_lon_C ATP-dependent protease, Lon family. Me	95.98
PRK00080	328	ruvB Holliday junction DNA helicase RuvB; Reviewed	95.9
TIGR01242	364	26Sp45 26S proteasome subunit P45 family. Many pro	95.89
PRK09087	226	hypothetical protein; Validated	95.81
PRK13341	725	recombination factor protein RarA/unknown domain f	95.81
TIGR03420	226	DnaA_homol_Hda DnaA regulatory inactivator Hda. Me	95.79
PF01637	234	Arch_ATPase: Archaeal ATPase; InterPro: IPR011579	95.58
PRK08727	233	hypothetical protein; Validated	95.15
PRK05564	313	DNA polymerase III subunit delta'; Validated	94.99
PRK08116	268	hypothetical protein; Validated	94.96
PRK04841	903	transcriptional regulator MalT; Provisional	94.96
PF10137	125	TIR-like: Predicted nucleotide-binding protein con	94.9
PF13401	131	AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S	94.7
PF00308	219	Bac_DnaA: Bacterial dnaA protein; InterPro: IPR013	94.68
TIGR02928	365	orc1/cdc6 family replication initiation protein. M	94.56
PRK05642	234	DNA replication initiation factor; Validated	94.53
PLN03025	319	replication factor C subunit; Provisional	94.43
PRK08084	235	DNA replication initiation factor; Provisional	94.39
PF05673	249	DUF815: Protein of unknown function (DUF815); Inte	94.15
PRK06620	214	hypothetical protein; Validated	94.07
TIGR00362	405	DnaA chromosomal replication initiator protein Dna	94.03
TIGR00767	415	rho transcription termination factor Rho. Members	93.8
PRK14963	504	DNA polymerase III subunits gamma and tau; Provisi	93.7
PRK07003	830	DNA polymerase III subunits gamma and tau; Validat	93.67
PHA02544	316	44 clamp loader, small subunit; Provisional	93.51
PF13207	121	AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6	93.43
PRK08118	167	topology modulation protein; Reviewed	93.42
PRK14088	440	dnaA chromosomal replication initiation protein; P	93.17
PRK12402	337	replication factor C small subunit 2; Reviewed	93.07
PRK12422	445	chromosomal replication initiation protein; Provis	92.97
PRK14961	363	DNA polymerase III subunits gamma and tau; Provisi	92.95
PRK00149	450	dnaA chromosomal replication initiation protein; R	92.7
PRK09270	229	nucleoside triphosphate hydrolase domain-containin	92.63
PRK07667	193	uridine kinase; Provisional	92.57
PRK14086	617	dnaA chromosomal replication initiation protein; P	92.51
PRK14087	450	dnaA chromosomal replication initiation protein; P	92.38
PRK04195	482	replication factor C large subunit; Provisional	92.33
PRK07261	171	topology modulation protein; Provisional	92.16
PF13238	129	AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB	92.04
TIGR02881	261	spore_V_K stage V sporulation protein K. Members o	92.03
PRK06696	223	uridine kinase; Validated	91.99
PRK05480	209	uridine/cytidine kinase; Provisional	91.93
TIGR00678	188	holB DNA polymerase III, delta' subunit. At positi	91.89
PF00485	194	PRK: Phosphoribulokinase / Uridine kinase family;	91.82
PRK12377	248	putative replication protein; Provisional	91.79
PRK06645	507	DNA polymerase III subunits gamma and tau; Validat	91.76
PRK10671	834	copA copper exporting ATPase; Provisional	91.73
PRK03992	389	proteasome-activating nucleotidase; Provisional	91.68
TIGR01425	429	SRP54_euk signal recognition particle protein SRP5	91.38
PRK14949	944	DNA polymerase III subunits gamma and tau; Provisi	91.19
COG1373	398	Predicted ATPase (AAA+ superfamily) [General funct	91.1
PRK14951	618	DNA polymerase III subunits gamma and tau; Provisi	91.09
PRK08233	182	hypothetical protein; Provisional	91.08
TIGR03689	512	pup_AAA proteasome ATPase. In the Actinobacteria,	90.83
PRK12323	700	DNA polymerase III subunits gamma and tau; Provisi	90.77
PRK06921	266	hypothetical protein; Provisional	90.71
PRK00440	319	rfc replication factor C small subunit; Reviewed	90.64
TIGR00235	207	udk uridine kinase. Model contains a number of lon	90.43
COG0572	218	Udk Uridine kinase [Nucleotide transport and metab	90.29
cd01858	157	NGP_1 NGP-1. Autoantigen NGP-1 (Nucleolar G-protei	90.25
PRK14957	546	DNA polymerase III subunits gamma and tau; Provisi	89.93
PRK14962	472	DNA polymerase III subunits gamma and tau; Provisi	89.81
PF13191	185	AAA_16: AAA ATPase domain; PDB: 2V1U_A.	89.73
PTZ00301	210	uridine kinase; Provisional	89.65
TIGR00064	272	ftsY signal recognition particle-docking protein F	89.3
PRK10416	318	signal recognition particle-docking protein FtsY;	89.24
PRK06835	329	DNA replication protein DnaC; Validated	89.22
COG1618	179	Predicted nucleotide kinase [Nucleotide transport	89.03
PRK06762	166	hypothetical protein; Provisional	88.38
PRK14970	367	DNA polymerase III subunits gamma and tau; Provisi	88.11
TIGR02880	284	cbbX_cfxQ probable Rubsico expression protein CbbX	87.98
PF13271	83	DUF4062: Domain of unknown function (DUF4062)	87.97
PTZ00112	1164	origin recognition complex 1 protein; Provisional	87.73
PRK05541	176	adenylylsulfate kinase; Provisional	87.51
cd02023	198	UMPK Uridine monophosphate kinase (UMPK, EC 2.7.1.	87.45
PRK03839	180	putative kinase; Provisional	87.43
cd02024	187	NRK1 Nicotinamide riboside kinase (NRK) is an enzy	87.16
cd01857	141	HSR1_MMR1 HSR1/MMR1. Human HSR1, is localized to t	87.03
PRK06547	172	hypothetical protein; Provisional	86.89
PRK04040	188	adenylate kinase; Provisional	86.83
PRK14960	702	DNA polymerase III subunits gamma and tau; Provisi	86.83
PF04665	241	Pox_A32: Poxvirus A32 protein; InterPro: IPR006758	86.68
PRK07994	647	DNA polymerase III subunits gamma and tau; Validat	86.68
PF03205	140	MobB: Molybdopterin guanine dinucleotide synthesis	86.64
cd02042	104	ParA ParA and ParB of Caulobacter crescentus belon	86.5
cd02025	220	PanK Pantothenate kinase (PanK) catalyzes the phos	86.48
CHL00181	287	cbbX CbbX; Provisional	86.47
PRK07940	394	DNA polymerase III subunit delta'; Validated	86.46
COG1428	216	Deoxynucleoside kinases [Nucleotide transport and	86.43
KOG2028	554	consensus ATPase related to the helicase subunit o	86.1
PF05496	233	RuvB_N: Holliday junction DNA helicase ruvB N-term	86.03
PRK07764	824	DNA polymerase III subunits gamma and tau; Validat	86.02
PRK00771	437	signal recognition particle protein Srp54; Provisi	85.93
PF13604	196	AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL	85.91
PRK00131	175	aroK shikimate kinase; Reviewed	85.69
PRK12608	380	transcription termination factor Rho; Provisional	85.65
PRK11889	436	flhF flagellar biosynthesis regulator FlhF; Provis	85.59
TIGR03596	276	GTPase_YlqF ribosome biogenesis GTP-binding protei	85.57
PRK11331	459	5-methylcytosine-specific restriction enzyme subun	85.52
COG1763	161	MobB Molybdopterin-guanine dinucleotide biosynthes	85.27
cd02028	179	UMPK_like Uridine monophosphate kinase_like (UMPK_	85.23
cd02019	69	NK Nucleoside/nucleotide kinase (NK) is a protein	85.18
PRK08691	709	DNA polymerase III subunits gamma and tau; Validat	85.05
PRK05439	311	pantothenate kinase; Provisional	84.82
COG4916	329	Uncharacterized protein containing a TIR (Toll-Int	84.65
PF13671	143	AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1	84.56
PRK14964	491	DNA polymerase III subunits gamma and tau; Provisi	84.39
TIGR03156	351	GTP_HflX GTP-binding protein HflX. This protein fa	84.36
TIGR00554	290	panK_bact pantothenate kinase, bacterial type. Sho	84.34
PTZ00454	398	26S protease regulatory subunit 6B-like protein; P	84.33
TIGR01360	188	aden_kin_iso1 adenylate kinase, isozyme 1 subfamil	84.32
COG4240	300	Predicted kinase [General function prediction only	84.27
PF13614	157	AAA_31: AAA domain; PDB: 2VED_B 2PH1_A 3EA0_B 3FKQ	84.2
COG1100	219	GTPase SAR1 and related small G proteins [General	84.08
PRK00889	175	adenylylsulfate kinase; Provisional	83.95
PRK06217	183	hypothetical protein; Validated	83.9
CHL00176	638	ftsH cell division protein; Validated	83.79
smart00382	148	AAA ATPases associated with a variety of cellular	83.49
PF06564	243	YhjQ: YhjQ protein; InterPro: IPR017746 The YhjQ p	83.29
TIGR00176	155	mobB molybdopterin-guanine dinucleotide biosynthes	83.16
PF08477	119	Miro: Miro-like protein; InterPro: IPR013684 Mitoc	83.15
cd01133	274	F1-ATPase_beta F1 ATP synthase beta subunit, nucle	82.83
PRK10751	173	molybdopterin-guanine dinucleotide biosynthesis pr	82.74
PRK10867	433	signal recognition particle protein; Provisional	82.71
PF01926	116	MMR_HSR1: 50S ribosome-binding GTPase; InterPro: I	82.64
PF01656	195	CbiA: CobQ/CobB/MinD/ParA nucleotide binding domai	82.63
COG2019	189	AdkA Archaeal adenylate kinase [Nucleotide transpo	82.58
PRK14493	274	putative bifunctional molybdopterin-guanine dinucl	82.55
PRK09563	287	rbgA GTPase YlqF; Reviewed	82.46
TIGR00073	207	hypB hydrogenase accessory protein HypB. HypB is i	82.42
cd04139	164	RalA_RalB RalA/RalB subfamily. The Ral (Ras-like)	82.28
cd01983	99	Fer4_NifH The Fer4_NifH superfamily contains a var	82.25
PF02680	95	DUF211: Uncharacterized ArCR, COG1888; InterPro: I	82.18
PRK14956	484	DNA polymerase III subunits gamma and tau; Provisi	82.1
PF00004	132	AAA: ATPase family associated with various cellula	82.05
smart00763	361	AAA_PrkA PrkA AAA domain. This is a family of PrkA	81.94
PRK03846	198	adenylylsulfate kinase; Provisional	81.94
PF00910	107	RNA_helicase: RNA helicase; InterPro: IPR000605 He	81.89
TIGR02322	179	phosphon_PhnN phosphonate metabolism protein/1,5-b	81.87
cd00227	175	CPT Chloramphenicol (Cm) phosphotransferase (CPT).	81.83
PRK08903	227	DnaA regulatory inactivator Hda; Validated	81.72
PF07726	131	AAA_3: ATPase family associated with various cellu	81.59
PHA00729	226	NTP-binding motif containing protein	81.54
PRK13975	196	thymidylate kinase; Provisional	81.27
PRK13947	171	shikimate kinase; Provisional	81.14
TIGR02397	355	dnaX_nterm DNA polymerase III, subunit gamma and t	81.14
PF01583	156	APS_kinase: Adenylylsulphate kinase; InterPro: IPR	81.1
TIGR03263	180	guanyl_kin guanylate kinase. Members of this famil	81.08
PRK00625	173	shikimate kinase; Provisional	81.07
PLN02348	395	phosphoribulokinase	81.02
COG0593	408	DnaA ATPase involved in DNA replication initiation	80.99
PRK07471	365	DNA polymerase III subunit delta'; Validated	80.88
PRK00300	205	gmk guanylate kinase; Provisional	80.88
PRK13695	174	putative NTPase; Provisional	80.36
PHA02518	211	ParA-like protein; Provisional	80.32
cd02020	147	CMPK Cytidine monophosphate kinase (CMPK) catalyze	80.29
PRK13768	253	GTPase; Provisional	80.28
cd04155	173	Arl3 Arl3 subfamily. Arl3 (Arf-like 3) is an Arf f	80.28
cd00879	190	Sar1 Sar1 subfamily. Sar1 is an essential componen	80.12
TIGR00959	428	ffh signal recognition particle protein. This mode	80.07
TIGR01287	275	nifH nitrogenase iron protein. This model describe	80.05

>PLN03210 Resistant to P

Probab=100.00  E-value=1.8e-69  Score=625.38  Aligned_cols=342  Identities=27%  Similarity=0.396  Sum_probs=289.4

Q ss_pred             CCceecCceEEecccCccCcChHHHHHHHHhcCCCeEEEeCCcCCCCCchHHHHHHHhhccceEEEeecccccChhhHHH
Q 011431           16 DQWRYKHDVFVTFSGEDIRENFGSYLFAALFRESVKTFRDEQIRRGDEIMPALLQAIEESKISLVIFSKRFAFSRWCLEE   95 (486)
Q Consensus        16 ~~~~y~~dVFis~~~~D~~~~f~~~L~~~L~~~gi~~~~d~~~~~g~~i~~~i~~~I~~s~~~ivv~S~~y~~S~wcl~E   95 (486)
                      +.|+|  ||||||||+|+|++|++||+.||.++||++|+|+++.+|+.|++++.+||++|+++|||||++||+|+|||+|
T Consensus         9 ~~~~~--~vf~sfrg~d~r~~f~~hl~~~l~~~~i~~f~d~~~~~g~~~~~~l~~~i~~s~~~ivv~s~~ya~s~wcl~e   86 (1153)
T PLN03210          9 RNWVY--DVFPSFSGEDVRITFLSHFLKELDRKLIIAFKDNEIERSQSLDPELKQAIRDSRIAVVVFSKNYASSSWCLNE   86 (1153)
T ss_pred             CCCCC--cEEeeCCCcccccCHHHHHHHHHHHCCCeEEccCCccCCCcccHHHHHHHHhCeEEEEEecCCcccchHHHHH
Confidence            46888  9999999999999999999999999999999998999999999999999999999999999999999999999


Q ss_pred             HHHHHHH-hcCCCEEEEEEeeecCCccccccCchHHHHHHhHhhCCCchhhccHHHHHHHhhhccCCCCCCCCCcchhhh
Q 011431           96 LVKIIEC-NKLYQTVIPVFYKVLPSDVRNQLGSFGEAFLEHEKSHDLRPKVGRWRDALREASDLAGWDSNVTRPESKLTD  174 (486)
Q Consensus        96 l~~i~~~-~~~~~~v~Pify~v~~s~vr~q~g~f~~~f~~~~~~~~~~e~i~~Wr~AL~eva~~~G~~~~~~~~E~~~I~  174 (486)
                      |++|++| ++.++.|+||||+|+|++||+|+|.||++|.+++.+.. .+++++|++||++||+++||++..+++|+++|+
T Consensus        87 l~~i~~~~~~~~~~v~pvfy~v~p~~v~~~~g~f~~~f~~~~~~~~-~~~~~~w~~al~~~~~~~g~~~~~~~~E~~~i~  165 (1153)
T PLN03210         87 LLEIVRCKEELGQLVIPVFYGLDPSHVRKQTGDFGEAFEKTCQNKT-EDEKIQWKQALTDVANILGYHSQNWPNEAKMIE  165 (1153)
T ss_pred             HHHHHHhhhhcCceEEEEEecccHHHHhhccchHHHHHHHHhcccc-hhHHHHHHHHHHHHhCcCceecCCCCCHHHHHH
Confidence            9999999 88999999999999999999999999999999987755 688999999999999999999999899999999


Q ss_pred             hHHHhHHhhhhhhhhhhHHHHHHHhhhhhhccchhhhhhHHHHHHHhh-cCCCceeeeeeeccCccchhHHHHHHHhhhc
Q 011431          175 EIVNGVVENLKSFAELMEKELVVLFNRARDKLDNHASSLLDEVLSLLR-NAEGYRSYRCWLLCPLFSELRVLTNDVHQLM  253 (486)
Q Consensus       175 ~IV~~V~~~L~~~~~~~~~~lVgi~~~~~~~~~~~~~~~l~~v~~ll~-~~~~~~vi~I~GmGgGvGKTTLa~~vy~~~~  253 (486)
                      +||++|..+|........+++||+..            .++++..++. ..+++++||||||| |+||||||+.+|+++.
T Consensus       166 ~Iv~~v~~~l~~~~~~~~~~~vG~~~------------~l~~l~~lL~l~~~~~~vvgI~G~g-GiGKTTLA~~l~~~l~  232 (1153)
T PLN03210        166 EIANDVLGKLNLTPSNDFEDFVGIED------------HIAKMSSLLHLESEEVRMVGIWGSS-GIGKTTIARALFSRLS  232 (1153)
T ss_pred             HHHHHHHHhhccccCcccccccchHH------------HHHHHHHHHccccCceEEEEEEcCC-CCchHHHHHHHHHHHh
Confidence            99999999998766665677888733            2345555553 35679999999999 9999999999999999


Q ss_pred             cccccceEEE---Eeeec-----------c-HHHHHHHHhhhhcccccccccccccccccccccccccCcceeeceeccc
Q 011431          254 DNYENSDVTL---AKFEG-----------E-VKKLDQRLLRFLESVDKHVASYDRYGSASFEQPRPQTTSAAHPYVEDVI  318 (486)
Q Consensus       254 ~~F~~~~~~~---v~~~~-----------~-l~~lqk~ll~~L~~~d~~~~~~~~~g~~s~l~~~L~~tKr~LlVLDDVw  318 (486)
                      .+|++.++..   +....           . ...++++++..+...... ..    .....++++|.+ +|+||||||||
T Consensus       233 ~~F~g~vfv~~~~v~~~~~~~~~~~~~~~~~~~~l~~~~l~~il~~~~~-~~----~~~~~~~~~L~~-krvLLVLDdv~  306 (1153)
T PLN03210        233 RQFQSSVFIDRAFISKSMEIYSSANPDDYNMKLHLQRAFLSEILDKKDI-KI----YHLGAMEERLKH-RKVLIFIDDLD  306 (1153)
T ss_pred             hcCCeEEEeeccccccchhhcccccccccchhHHHHHHHHHHHhCCCCc-cc----CCHHHHHHHHhC-CeEEEEEeCCC
Confidence            9998765532   11110           0 123566666555432111 00    011346778888 99999999999


Q ss_pred             CHHHHHHHhcCCCCCCCCCEEEeeCCccccccccccCCCceEecCCCCCchhhhhhcccCCCc
Q 011431          319 DDAYMEDITDDSSPSLNLSRINSTSRFEQLWPETISATDTCTEDVTVDNSPSLNLSSCNSSST  381 (486)
Q Consensus       319 ~~~~~~~l~~~~~~~~~GSrIIiTTR~~~V~~~~~~~~~~~y~v~~L~~~es~~LF~~~a~~k  381 (486)
                      +..+|+.+.....++++|||||||||+++++.  .++.+.+|+|+.|+++|||+||+++||..
T Consensus       307 ~~~~l~~L~~~~~~~~~GsrIIiTTrd~~vl~--~~~~~~~~~v~~l~~~ea~~LF~~~Af~~  367 (1153)
T PLN03210        307 DQDVLDALAGQTQWFGSGSRIIVITKDKHFLR--AHGIDHIYEVCLPSNELALEMFCRSAFKK  367 (1153)
T ss_pred             CHHHHHHHHhhCccCCCCcEEEEEeCcHHHHH--hcCCCeEEEecCCCHHHHHHHHHHHhcCC
Confidence            99999998854334789999999999999984  34467899999999999999999999974

syringae 6; Provisional

>PLN03194 putative disease resistance protein; Provisional

Probab=100.00  E-value=4.8e-44  Score=321.11  Aligned_cols=154  Identities=29%  Similarity=0.477  Sum_probs=141.2

Q ss_pred             CCceecCceEEecccCccCcChHHHHHHHHhcCCCeEEEeC-CcCCCCCchHHHHHHHhhccceEEEeecccccChhhHH
Q 011431           16 DQWRYKHDVFVTFSGEDIRENFGSYLFAALFRESVKTFRDE-QIRRGDEIMPALLQAIEESKISLVIFSKRFAFSRWCLE   94 (486)
Q Consensus        16 ~~~~y~~dVFis~~~~D~~~~f~~~L~~~L~~~gi~~~~d~-~~~~g~~i~~~i~~~I~~s~~~ivv~S~~y~~S~wcl~   94 (486)
                      .+..|  ||||||||+|+|++|++||+.+|+++||++|+|+ ++.+|+.|.+.|.+||++|+++|+|||++|++|.|||+
T Consensus        23 ~~~~y--DVFISFrG~DtR~~FvshL~~aL~~~GI~vF~D~~el~~G~~i~~~L~~AIeeSri~IvVfS~~Ya~S~WCLd  100 (187)
T PLN03194         23 SAKPC--DVFINHRGIDTKRTIATLLYDHLSRLNLRPFLDNKNMKPGDKLFDKINSAIRNCKVGVAVFSPRYCESYFCLH  100 (187)
T ss_pred             CCCCC--cEEEeCCCccccccHHHHHHHHHHHCCCEEEEcCccccCCCcHHHHHHHHHHhCeEEEEEECCCcccchhHHH
Confidence            45668  9999999999999999999999999999999999 99999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhcCCCEEEEEEeeecCCccccc-cCchHHHHHHhHhhCCCchhhccHHHHHHHhhhccCCCCCC-CCCcchh
Q 011431           95 ELVKIIECNKLYQTVIPVFYKVLPSDVRNQ-LGSFGEAFLEHEKSHDLRPKVGRWRDALREASDLAGWDSNV-TRPESKL  172 (486)
Q Consensus        95 El~~i~~~~~~~~~v~Pify~v~~s~vr~q-~g~f~~~f~~~~~~~~~~e~i~~Wr~AL~eva~~~G~~~~~-~~~E~~~  172 (486)
                      ||++|++|   +..||||||+|+|++||+| .|.+           . .+++++|++||++|++++||++.. .++|+++
T Consensus       101 EL~~I~e~---~~~ViPIFY~VdPsdVr~q~~~~~-----------~-~e~v~~Wr~AL~~va~l~G~~~~~~~~~e~e~  165 (187)
T PLN03194        101 ELALIMES---KKRVIPIFCDVKPSQLRVVDNGTC-----------P-DEEIRRFNWALEEAKYTVGLTFDSLKGNWSEV  165 (187)
T ss_pred             HHHHHHHc---CCEEEEEEecCCHHHhhccccCCC-----------C-HHHHHHHHHHHHHHhccccccCCCCCCCHHHH
Confidence            99999997   2479999999999999997 4431           1 578999999999999999998864 5789999


Q ss_pred             hhhHHHhHHhhhhh
Q 011431          173 TDEIVNGVVENLKS  186 (486)
Q Consensus       173 I~~IV~~V~~~L~~  186 (486)
                      |++||+.|.++|..
T Consensus       166 i~~iv~~v~k~l~~  179 (187)
T PLN03194        166 VTMASDAVIKNLIE  179 (187)
T ss_pred             HHHHHHHHHHHHHH
Confidence            99999999888753

>KOG4658 consensus Apoptotic ATPase [Signal transduction mechanisms]

Probab=99.93  E-value=2.6e-26  Score=255.55  Aligned_cols=187  Identities=13%  Similarity=0.079  Sum_probs=145.4

Q ss_pred             hHHHHHHHhhcCCCceeeeeeeccCccchhHHHHHHHhhh---ccccccceEEEEeeeccHHHHHHHHhhhhcccccccc
Q 011431          213 LLDEVLSLLRNAEGYRSYRCWLLCPLFSELRVLTNDVHQL---MDNYENSDVTLAKFEGEVKKLDQRLLRFLESVDKHVA  289 (486)
Q Consensus       213 ~l~~v~~ll~~~~~~~vi~I~GmGgGvGKTTLa~~vy~~~---~~~F~~~~~~~v~~~~~l~~lqk~ll~~L~~~d~~~~  289 (486)
                      .++.+...|-.. +..++||+||| |+||||||+++||+.   ..+|+...|+.|+.......+|++++..|+..+....
T Consensus       166 ~~~kl~~~L~~d-~~~iv~i~GMG-GvGKTTL~~qi~N~~~~v~~~Fd~~iWV~VSk~f~~~~iq~~Il~~l~~~~~~~~  243 (889)
T KOG4658|consen  166 MLEKLWNRLMED-DVGIVGIYGMG-GVGKTTLARQIFNKFDEVGNHFDGVIWVVVSKEFTTRKIQQTILERLGLLDEEWE  243 (889)
T ss_pred             HHHHHHHHhccC-CCCEEEEECCC-cccHHHHHHHHhcccchhcccCceEEEEEEcccccHHhHHHHHHHHhccCCcccc
Confidence            344444444333 44999999999 999999999999964   4678876666666666667799999998876443211


Q ss_pred             cccccccccccccccccCcceeeceecccCHHHHHHHhcCCCCCCCCCEEEeeCCccccccccccCCCceEecCCCCCch
Q 011431          290 SYDRYGSASFEQPRPQTTSAAHPYVEDVIDDAYMEDITDDSSPSLNLSRINSTSRFEQLWPETISATDTCTEDVTVDNSP  369 (486)
Q Consensus       290 ~~~~~g~~s~l~~~L~~tKr~LlVLDDVw~~~~~~~l~~~~~~~~~GSrIIiTTR~~~V~~~~~~~~~~~y~v~~L~~~e  369 (486)
                      .......+..|.+.|.+ |||+|||||||+..+|+.+..+++...+||+|++|||++.|+.. .++++..+++++|..+|
T Consensus       244 ~~~~~~~~~~i~~~L~~-krfllvLDDIW~~~dw~~I~~~~p~~~~g~KvvlTTRs~~V~~~-~m~~~~~~~v~~L~~~e  321 (889)
T KOG4658|consen  244 DKEEDELASKLLNLLEG-KRFLLVLDDIWEEVDWDKIGVPFPSRENGSKVVLTTRSEEVCGR-AMGVDYPIEVECLTPEE  321 (889)
T ss_pred             hhhHHHHHHHHHHHhcc-CceEEEEecccccccHHhcCCCCCCccCCeEEEEEeccHhhhhc-cccCCccccccccCccc
Confidence            21113566789999999 99999999999999999999888766679999999999999843 25578899999999999


Q ss_pred             hhhhhcccCCCcceeeeeeccccccchhhHHHHHHHhhcCCCe
Q 011431          370 SLNLSSCNSSSTFKEAIFKLEIHHDNLEAWRAAFSIVSEFIGI  412 (486)
Q Consensus       370 s~~LF~~~a~~k~~~~v~kv~~~~~~~~~~~~a~k~~~~~~Gv  412 (486)
                      ||.||++.||....      . .++...  .-|++++.+|.|.
T Consensus       322 aW~LF~~~v~~~~~------~-~~~~i~--~lak~v~~kC~GL  355 (889)
T KOG4658|consen  322 AWDLFQKKVGPNTL------G-SHPDIE--ELAKEVAEKCGGL  355 (889)
T ss_pred             cHHHHHHhhccccc------c-ccccHH--HHHHHHHHHhCCh
Confidence            99999999997432      1 223355  7889999998884

>PF01582 TIR: TIR domain; InterPro: IPR000157 In Drosophila melanogaster the Toll protein is involved in establishment of dorso-ventral polarity in the embryo

Probab=99.87  E-value=2.4e-23  Score=184.87  Aligned_cols=130  Identities=35%  Similarity=0.510  Sum_probs=114.0

Q ss_pred             eEEecccCccCcChHHHHHHHHhcC--CCeEEEeC-CcCCCCCchHHHHHHHhhccceEEEeecccccChhhHHHHHHHH
Q 011431           24 VFVTFSGEDIRENFGSYLFAALFRE--SVKTFRDE-QIRRGDEIMPALLQAIEESKISLVIFSKRFAFSRWCLEELVKII  100 (486)
Q Consensus        24 VFis~~~~D~~~~f~~~L~~~L~~~--gi~~~~d~-~~~~g~~i~~~i~~~I~~s~~~ivv~S~~y~~S~wcl~El~~i~  100 (486)
                      |||||++.+.+..|+++|.++|++.  |+++|+++ |+.+|..+.++|.++|++|+++|+|||++|+.|.||+.||..++
T Consensus         1 vfisy~~~~d~~~~~~~L~~~Le~~~~g~~~c~~~rD~~~G~~~~~~i~~~i~~Sr~~I~VlS~~y~~s~wc~~el~~a~   80 (141)
T PF01582_consen    1 VFISYSGKDDREWFVSHLLPELEERPYGYKLCLDERDFLPGESILDNIQEAIERSRRTIVVLSRNYLSSEWCLFELQEAL   80 (141)
T ss_dssp             EEEEE-GHHGHHHHHHCHHHHHHCTSSTS-EEEHHHCTSSSSCHHHHHHHHHHTEEEEEEEESHHHHHHTHHHHHHHHHH
T ss_pred             cEEEeCCCCcHHHHHHHHHHHHHhCCCCeEEEEechhhcccccccchhhHhhhhceeeEEEeecccccccchhhhhhhhh
Confidence            8999999445679999999999999  99999999 99999999999999999999999999999999999999999999


Q ss_pred             HH-hcC--CCEEEEEEeeecCCccc-cccCchHHHHHHhHhhCCC---chhhccHHHHHH
Q 011431          101 EC-NKL--YQTVIPVFYKVLPSDVR-NQLGSFGEAFLEHEKSHDL---RPKVGRWRDALR  153 (486)
Q Consensus       101 ~~-~~~--~~~v~Pify~v~~s~vr-~q~g~f~~~f~~~~~~~~~---~e~i~~Wr~AL~  153 (486)
                      ++ .+.  ...|+||||++.+++++ .+.+.|+..|..+..-...   ..+...|++++.
T Consensus        81 ~~~~~~~~~~~Il~v~~~v~~~~~~~~~~~~~~~~~~~~~~w~~~~~~~~~~~fW~~l~~  140 (141)
T PF01582_consen   81 ERLLEEGRDKLILPVFYDVSPSDVRPDQSLRFLLRFLTYLRWPDDDSREDRSWFWKKLRY  140 (141)
T ss_dssp             HHHHCSTCTTEEEEESSSS-CHHCHTHHHHHHHHHCTHCEETSSSGGGGGHHHHHHHHHH
T ss_pred             hhccccccccceeeEeccCChhhcChhhhHHHHHHhhhheeCCCCCCccHHHHHHHHHhc
Confidence            99 543  48999999999999999 7999999888887766553   356789998875

In addition, members of the Toll family play a key role in innate antibacterial and antifungal immunity in insects as well as in mammals. These proteins are type-I transmembrane receptors that share an intracellular 200 residue domain with the interleukin-1 receptor (IL-1R), the Toll/IL-1R homologous region (TIR). The similarity between Toll-like receptors (LTRs) and IL-1R is not restricted to sequence homology since these proteins also share a similar signalling pathway. They both induce the activation of a Rel type transcription factor via an adaptor protein and a protein kinase []. Interestingly, MyD88, a cytoplasmic adaptor protein found in mammals, contains a TIR domain associated to a DEATH domain (see IPR000488 from INTERPRO) [, , ]. Besides the mammalian and Drosophila melanogaster proteins, a TIR domain is also found in a number of plant proteins implicated in host defence []. As MyD88, these proteins are cytoplasmic. Site directed mutagenesis and deletion analysis have shown that the TIR domain is essential for Toll and IL-1R activities. Sequence analysis have revealed the presence of three highly conserved regions among the different members of the family: box 1 (FDAFISY), box 2 (GYKLC-RD-PG), and box 3 (a conserved W surrounded by basic residues). It has been proposed that boxes 1 and 2 are involved in the binding of proteins involved in signalling, whereas box 3 is primarily involved in directing localization of receptor, perhaps through interactions with cytoskeletal elements [].; GO: 0005515 protein binding, 0007165 signal transduction, 0005622 intracellular; PDB: 3J0A_A 2J67_B 3JRN_A 1FYV_A 1O77_D 1FYX_A 1FYW_A 3OZI_B 1T3G_B 2JS7_A ....

>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=99.87  E-value=1.4e-22  Score=200.88  Aligned_cols=166  Identities=13%  Similarity=0.078  Sum_probs=113.8

Q ss_pred             HHHHHHHhhc-CCCceeeeeeeccCccchhHHHHHHHhh--hccccccceEEEEeeeccHHHHHHHHhhhhccccccc-c
Q 011431          214 LDEVLSLLRN-AEGYRSYRCWLLCPLFSELRVLTNDVHQ--LMDNYENSDVTLAKFEGEVKKLDQRLLRFLESVDKHV-A  289 (486)
Q Consensus       214 l~~v~~ll~~-~~~~~vi~I~GmGgGvGKTTLa~~vy~~--~~~~F~~~~~~~v~~~~~l~~lqk~ll~~L~~~d~~~-~  289 (486)
                      ++++.+.|.. .++.++|+|+||| |+||||||.+++++  +..+|+...|+..........+.+.++..|....... .
T Consensus         5 ~~~l~~~L~~~~~~~~~v~I~G~~-G~GKT~LA~~~~~~~~~~~~f~~v~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~   83 (287)
T PF00931_consen    5 IEKLKDWLLDNSNEVRVVAIVGMG-GIGKTTLARQVARDLRIKNRFDGVIWVSLSKNPSLEQLLEQILRQLGEPDSSISD   83 (287)
T ss_dssp             HHHHHHHHHTTTTSSEEEEEEEST-TSSHHHHHHHHHCHHHHCCCCTEEEEEEEES-SCCHHHHHHHHHHHTCC-STSSC
T ss_pred             HHHHHHHhhCCCCCeEEEEEEcCC-cCCcceeeeeccccccccccccccccccccccccccccccccccccccccccccc
Confidence            3455554433 4789999999999 99999999999988  7788876555544444444556777888886542211 1


Q ss_pred             cccccccccccccccccCcceeeceecccCHHHHHHHhcCCCCCCCCCEEEeeCCccccccccccCCCceEecCCCCCch
Q 011431          290 SYDRYGSASFEQPRPQTTSAAHPYVEDVIDDAYMEDITDDSSPSLNLSRINSTSRFEQLWPETISATDTCTEDVTVDNSP  369 (486)
Q Consensus       290 ~~~~~g~~s~l~~~L~~tKr~LlVLDDVw~~~~~~~l~~~~~~~~~GSrIIiTTR~~~V~~~~~~~~~~~y~v~~L~~~e  369 (486)
                      ..+.......+++.|.+ +++||||||||+...|+.+....+.+..||+||||||+.+|+.... .....|+|++|+.+|
T Consensus        84 ~~~~~~~~~~l~~~L~~-~~~LlVlDdv~~~~~~~~l~~~~~~~~~~~kilvTTR~~~v~~~~~-~~~~~~~l~~L~~~e  161 (287)
T PF00931_consen   84 PKDIEELQDQLRELLKD-KRCLLVLDDVWDEEDLEELREPLPSFSSGSKILVTTRDRSVAGSLG-GTDKVIELEPLSEEE  161 (287)
T ss_dssp             CSSHHHHHHHHHHHHCC-TSEEEEEEEE-SHHHH-------HCHHSS-EEEEEESCGGGGTTHH-SCEEEEECSS--HHH
T ss_pred             ccccccccccchhhhcc-ccceeeeeeecccccccccccccccccccccccccccccccccccc-ccccccccccccccc
Confidence            11221234667888888 8999999999999999888765544566999999999999974332 125789999999999


Q ss_pred             hhhhhcccCCCcc
Q 011431          370 SLNLSSCNSSSTF  382 (486)
Q Consensus       370 s~~LF~~~a~~k~  382 (486)
                      ||+||++.|+...
T Consensus       162 a~~L~~~~~~~~~  174 (287)
T PF00931_consen  162 ALELFKKRAGRKE  174 (287)
T ss_dssp             HHHHHHHHHTSHS
T ss_pred             ccccccccccccc
Confidence            9999999998644

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.

>smart00255 TIR Toll - interleukin 1 - resistance

Probab=99.80  E-value=2.9e-19  Score=158.00  Aligned_cols=133  Identities=36%  Similarity=0.592  Sum_probs=111.1

Q ss_pred             ceEEeccc-CccCcChHHHHHHHHhcCCCeEEEeCCcCCCCCchHHHHHHHhhccceEEEeecccccChhhHHHHHHHHH
Q 011431           23 DVFVTFSG-EDIRENFGSYLFAALFRESVKTFRDEQIRRGDEIMPALLQAIEESKISLVIFSKRFAFSRWCLEELVKIIE  101 (486)
Q Consensus        23 dVFis~~~-~D~~~~f~~~L~~~L~~~gi~~~~d~~~~~g~~i~~~i~~~I~~s~~~ivv~S~~y~~S~wcl~El~~i~~  101 (486)
                      ||||||++ .+....|+.+|..+|...|+.+|.|+....|.... +|.++|++|++.|+|+|++|..|.||..|+..+.+
T Consensus         3 dvFISys~~~~~~~~~v~~L~~~l~~~~~~v~~d~~~~~~~~~~-~i~~~i~~s~~~i~vlS~~~~~S~w~~~E~~~a~~   81 (140)
T smart00255        3 DVFISYSGKEDVRNEFLSHLLEKLRGYGLCVFIDDFEPGGGDLE-EIDEAIEKSRIAIVVLSPNYAESEWCLDELVAALE   81 (140)
T ss_pred             eEEEECCCCHHHHHHHHHHHHHHhhcCCcEEEecCcccccchHH-HHHHHHHHCcEEEEEECcccccChhHHHHHHHHHH
Confidence            99999999 45667999999999999999999998433333333 99999999999999999999999999999999999


Q ss_pred             H-h-cCCCEEEEEEeeecCCccccccCchHHHHHHhHhhCCCchhh-ccHHHHHHHhhh
Q 011431          102 C-N-KLYQTVIPVFYKVLPSDVRNQLGSFGEAFLEHEKSHDLRPKV-GRWRDALREASD  157 (486)
Q Consensus       102 ~-~-~~~~~v~Pify~v~~s~vr~q~g~f~~~f~~~~~~~~~~e~i-~~Wr~AL~eva~  157 (486)
                      + . .....||||+|+..|+.+..+.+.++..+.....+... ... +.|++++..+++
T Consensus        82 ~~~~~~~~~iIPI~~~~~~~~~~~~~~~l~~~~~~~~~~w~~-~~~~~fW~~~~~~l~~  139 (140)
T smart00255       82 NALEEGGLRVIPIFYEVIPSDVRKQPGKFRKVLKKNYLKWPE-DEKERFWKKALYAVPS  139 (140)
T ss_pred             HHHHcCCCeEEEEEEecChHHHHhcccHHHHHHHHHHhhcCC-chhHHHHHHHHHHhcc
Confidence            8 3 36789999999999999999999999998877444432 221 689999887653

>PF13676 TIR_2: TIR domain; PDB: 3H16_B 3UB4_A 2Y92_A 3UB3_A 3UB2_A

Probab=99.48  E-value=1.2e-14  Score=121.53  Aligned_cols=87  Identities=30%  Similarity=0.486  Sum_probs=74.8

Q ss_pred             eEEecccCccCcChHHHHHHHHhcCCCeEEEeCCcCCCCCchHHHHHHHhhccceEEEeecccccChhhHHHHHHHHHHh
Q 011431           24 VFVTFSGEDIRENFGSYLFAALFRESVKTFRDEQIRRGDEIMPALLQAIEESKISLVIFSKRFAFSRWCLEELVKIIECN  103 (486)
Q Consensus        24 VFis~~~~D~~~~f~~~L~~~L~~~gi~~~~d~~~~~g~~i~~~i~~~I~~s~~~ivv~S~~y~~S~wcl~El~~i~~~~  103 (486)
                      |||||++.|  ..++..|...|++.|+++|+|.++..|+++.+.|.++|++|+..|+++|++|..|.||..|+..+.+  
T Consensus         1 VFIS~~~~D--~~~a~~l~~~L~~~g~~v~~d~~~~~g~~~~~~i~~~i~~s~~~i~~~S~~~~~s~~~~~E~~~a~~--   76 (102)
T PF13676_consen    1 VFISYSSED--REFAERLAERLESAGIRVFLDRDIPPGEDWREEIERAIERSDCVIVLLSPNYLKSPWCRFELGAAWK--   76 (102)
T ss_dssp             EEEEEEGGG--CCCHHHHHHHHHHTT--EE-GGEE-TTS-HHCCCHHCCTTEEEEEEEEEHHHHCTHHHHHHHHHHHC--
T ss_pred             eEEEecCCc--HHHHHHHHHHHhhcCCEEEEEEeCCCCCCHHHHHHHHHHhCCEEEEEECcccccChHHHHHHHHHHH--
Confidence            899999999  4699999999999999999998889999999999999999999999999999999999999887743  


Q ss_pred             cCCCEEEEEEee
Q 011431          104 KLYQTVIPVFYK  115 (486)
Q Consensus       104 ~~~~~v~Pify~  115 (486)
                       .+..|+||.++
T Consensus        77 -~~~~iipv~~~   87 (102)
T PF13676_consen   77 -RGKPIIPVRLD   87 (102)
T ss_dssp             -TSESEEEEECS
T ss_pred             -CCCEEEEEEEC
Confidence             44579999954

>KOG1603 consensus Copper chaperone [Inorganic ion transport and metabolism]

Probab=99.31  E-value=6.8e-12  Score=98.04  Aligned_cols=61  Identities=23%  Similarity=0.411  Sum_probs=58.4

Q ss_pred             cceeeeeeccccccchhhHHHHHHHhhcCCCeeEEEeecCCCeEEEEeeccCHHHHHHHhhccc
Q 011431          381 TFKEAIFKLEIHHDNLEAWRAAFSIVSEFIGITKISFDFKVKKMTVVGDNFDVLSAGTKLNGLC  444 (486)
Q Consensus       381 k~~~~v~kv~~~~~~~~~~~~a~k~~~~~~Gv~~v~~d~~~~~~~V~G~~~d~~~~~~~l~k~~  444 (486)
                      .++..++++.|||++|+  .++.+.+.+++||+++.+|.++++|||+|+ +||..|+++|+|.+
T Consensus         3 ~~~~~v~kv~~~C~gc~--~kV~~~l~~~~GV~~v~id~~~~kvtV~g~-~~p~~vl~~l~k~~   63 (73)
T KOG1603|consen    3 PIKTVVLKVNMHCEGCA--RKVKRVLQKLKGVESVDIDIKKQKVTVKGN-VDPVKLLKKLKKTG   63 (73)
T ss_pred             CccEEEEEECcccccHH--HHHHHHhhccCCeEEEEecCCCCEEEEEEe-cCHHHHHHHHHhcC
Confidence            45788999999999999  999999999999999999999999999999 99999999999976

>PF00403 HMA: Heavy-metal-associated domain; InterPro: IPR006121 Proteins that transport heavy metals in micro-organisms and mammals share similarities in their sequences and structures

Probab=98.49  E-value=4e-07  Score=68.56  Aligned_cols=57  Identities=16%  Similarity=0.226  Sum_probs=50.8

Q ss_pred             eec-cccccchhhHHHHHHHhhcCCCeeEEEeecCCCeEEEEeec--cCHHHHHHHhhcccc
Q 011431          387 FKL-EIHHDNLEAWRAAFSIVSEFIGITKISFDFKVKKMTVVGDN--FDVLSAGTKLNGLCR  445 (486)
Q Consensus       387 ~kv-~~~~~~~~~~~~a~k~~~~~~Gv~~v~~d~~~~~~~V~G~~--~d~~~~~~~l~k~~~  445 (486)
                      +++ .|+|.+|.  +++.+.+.+++||.++.+|...++++|.++.  +++.++.+.|++.|+
T Consensus         2 ~~v~~m~C~~C~--~~v~~~l~~~~GV~~v~vd~~~~~v~v~~~~~~~~~~~i~~~i~~~Gy   61 (62)
T PF00403_consen    2 FKVPGMTCEGCA--KKVEKALSKLPGVKSVKVDLETKTVTVTYDPDKTSIEKIIEAIEKAGY   61 (62)
T ss_dssp             EEEESTTSHHHH--HHHHHHHHTSTTEEEEEEETTTTEEEEEESTTTSCHHHHHHHHHHTTS
T ss_pred             EEECCcccHHHH--HHHHHHHhcCCCCcEEEEECCCCEEEEEEecCCCCHHHHHHHHHHhCc
Confidence            456 79999999  9999999999999999999999999999982  355899999998763

These proteins provide an important focus for research, some being involved in bacterial resistance to toxic metals, such as lead and cadmium, while others are involved in inherited human syndromes, such as Wilson's and Menke's diseases []. A conserved domain has been found in a number of these heavy metal transport or detoxification proteins []. The domain, which has been termed Heavy-Metal-Associated (HMA), contains two conserved cysteines that are probably involved in metal binding. Structure solution of the fourth HMA domain of the Menke's copper transporting ATPase shows a well-defined structure comprising a four-stranded antiparallel beta-sheet and two alpha helices packed in an alpha-beta sandwich fold []. This fold is common to other domains and is classified as "ferredoxin-like".; GO: 0046872 metal ion binding, 0030001 metal ion transport; PDB: 2VOY_A 1P6T_A 1KQK_A 2RML_A 1JWW_A 3K7R_F 1FES_A 1CC8_A 1FD8_A 2GGP_A ....

>KOG3678 consensus SARM protein (with sterile alpha and armadillo motifs) [Extracellular structures]

Probab=98.24  E-value=2.5e-06  Score=86.37  Aligned_cols=86  Identities=22%  Similarity=0.408  Sum_probs=71.3

Q ss_pred             ceEEecccCccCcChHHHHHHHHhcCCCeEEEeC-CcCCCCCchHHHHHHHhhccceEEEeeccccc--------ChhhH
Q 011431           23 DVFVTFSGEDIRENFGSYLFAALFRESVKTFRDE-QIRRGDEIMPALLQAIEESKISLVIFSKRFAF--------SRWCL   93 (486)
Q Consensus        23 dVFis~~~~D~~~~f~~~L~~~L~~~gi~~~~d~-~~~~g~~i~~~i~~~I~~s~~~ivv~S~~y~~--------S~wcl   93 (486)
                      |||||||.. +.+..++.|.-.|+-+|+++|+|- .+..|+ +.+.+.+.|...+.+|.|++||...        -.|-.
T Consensus       614 DVFISYRRs-tGnQLASLiKV~LQL~GyrVFIDVdKL~AGK-FdssLlkni~aAkhFiLVLtP~sLDr~lnD~nCeDWVH  691 (832)
T KOG3678|consen  614 DVFISYRRS-TGNQLASLIKVLLQLRGYRVFIDVDKLYAGK-FDSSLLKNIQAAKHFILVLTPNSLDRLLNDDNCEDWVH  691 (832)
T ss_pred             ceEEEeecc-ccHHHHHHHHHHHHhcCceEEEehhhhhccc-ccHHHHHHHHhhheeEEEeCcchHHHHhccccHHHHHH
Confidence            999999876 567889999999999999999997 777776 4568899999999999999998543        35667


Q ss_pred             HHHHHHHHHhcCCCEEEEEE
Q 011431           94 EELVKIIECNKLYQTVIPVF  113 (486)
Q Consensus        94 ~El~~i~~~~~~~~~v~Pif  113 (486)
                      .||.-+++|   +..|+|||
T Consensus       692 KEl~~Afe~---~KNIiPI~  708 (832)
T KOG3678|consen  692 KELKCAFEH---QKNIIPIF  708 (832)
T ss_pred             HHHHHHHHh---cCCeeeee
Confidence            788877776   33599999

>PF05729 NACHT: NACHT domain

Probab=98.04  E-value=7.4e-06  Score=73.61  Aligned_cols=140  Identities=10%  Similarity=-0.080  Sum_probs=76.7

Q ss_pred             eeeeeeeccCccchhHHHHHHHhhhccccccc----eEEEEeeeccH-----HHHHHHHhhhhccccccccccccccccc
Q 011431          228 RSYRCWLLCPLFSELRVLTNDVHQLMDNYENS----DVTLAKFEGEV-----KKLDQRLLRFLESVDKHVASYDRYGSAS  298 (486)
Q Consensus       228 ~vi~I~GmGgGvGKTTLa~~vy~~~~~~F~~~----~~~~v~~~~~l-----~~lqk~ll~~L~~~d~~~~~~~~~g~~s  298 (486)
                      |++-|.|.+ |.||||+++.+...+.......    ...........     ..+...+...+....   ... .    .
T Consensus         1 r~l~I~G~~-G~GKStll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~---~~~-~----~   71 (166)
T PF05729_consen    1 RVLWISGEP-GSGKSTLLRKLAQQLAEEEPPPSKFPYPFFFSLRDISDSNNSRSLADLLFDQLPESI---API-E----E   71 (166)
T ss_pred             CEEEEECCC-CCChHHHHHHHHHHHHhcCcccccceEEEEEeehhhhhccccchHHHHHHHhhccch---hhh-H----H
Confidence            467789999 9999999999988766544321    11111111100     012222222221100   000 0    0


Q ss_pred             ccccccccCcceeeceecccCHHH---------HHHHhcCCC--CCCCCCEEEeeCCcccc--ccccccCCCceEecCCC
Q 011431          299 FEQPRPQTTSAAHPYVEDVIDDAY---------MEDITDDSS--PSLNLSRINSTSRFEQL--WPETISATDTCTEDVTV  365 (486)
Q Consensus       299 ~l~~~L~~tKr~LlVLDDVw~~~~---------~~~l~~~~~--~~~~GSrIIiTTR~~~V--~~~~~~~~~~~y~v~~L  365 (486)
                      .+...+...++++||+|.++....         +..++....  ...++.+||||||....  +.. .......+++.+|
T Consensus        72 ~~~~~~~~~~~~llilDglDE~~~~~~~~~~~~~~~~l~~l~~~~~~~~~~liit~r~~~~~~~~~-~~~~~~~~~l~~~  150 (166)
T PF05729_consen   72 LLQELLEKNKRVLLILDGLDELEEQDQSQERQRLLDLLSQLLPQALPPGVKLIITSRPRAFPDLRR-RLKQAQILELEPF  150 (166)
T ss_pred             HHHHHHHcCCceEEEEechHhcccchhhhHHHHHHHHHHHHhhhccCCCCeEEEEEcCChHHHHHH-hcCCCcEEEECCC
Confidence            111122233799999999874322         111121111  13568999999999887  321 1223358999999


Q ss_pred             CCchhhhhhccc
Q 011431          366 DNSPSLNLSSCN  377 (486)
Q Consensus       366 ~~~es~~LF~~~  377 (486)
                      ++++..+++.+.
T Consensus       151 ~~~~~~~~~~~~  162 (166)
T PF05729_consen  151 SEEDIKQYLRKY  162 (166)
T ss_pred             CHHHHHHHHHHH
Confidence            999999988654

>PF08937 DUF1863: MTH538 TIR-like domain (DUF1863); InterPro: IPR015032 This protein adopts the flavodoxin fold, that is, five parallel beta-strands and four helical segments

Probab=97.76  E-value=4e-05  Score=66.85  Aligned_cols=89  Identities=19%  Similarity=0.262  Sum_probs=47.3

Q ss_pred             CceEEecccCccCcChHHHHHHHHhcC-------CCeE----------EEeC-CcCCCCCchHHHHHHHhhccceEEEee
Q 011431           22 HDVFVTFSGEDIRENFGSYLFAALFRE-------SVKT----------FRDE-QIRRGDEIMPALLQAIEESKISLVIFS   83 (486)
Q Consensus        22 ~dVFis~~~~D~~~~f~~~L~~~L~~~-------gi~~----------~~d~-~~~~g~~i~~~i~~~I~~s~~~ivv~S   83 (486)
                      |.|||||+..|.. ..+..|...+...       ++..          +.+. +......|...|.++|.+|.+.||+.|
T Consensus         1 ~~vFIS~~~~d~~-~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ik~~I~~~i~~s~~~IVLig   79 (130)
T PF08937_consen    1 YKVFISYSHDDDD-WYYDQLKEWLENSYEIPRDKNFDFRFYDVSKWEPIRSRDDDSSSEYIKRKIRERIKNSSVTIVLIG   79 (130)
T ss_dssp             ----------THH--HHHHHHHHHHH-------TTSS--BT---TTT---TTS---TTTTHHHHHHHHHHTEEEEEEE--
T ss_pred             CCccccccccCcH-HHHHHHHHHhccccccccccccccCcccccccCcccCccccchHHHHHHHHHHHHhcCCEEEEEeC
Confidence            3899999999853 3677777777763       2211          1122 233445788999999999999999999


Q ss_pred             cccccChhhHHHHHHHHHHhcCCCEEEEEEe
Q 011431           84 KRFAFSRWCLEELVKIIECNKLYQTVIPVFY  114 (486)
Q Consensus        84 ~~y~~S~wcl~El~~i~~~~~~~~~v~Pify  114 (486)
                      ++...|.|+-.|+...++   .+..||-|.+
T Consensus        80 ~~T~~s~wV~~EI~~A~~---~~~~Ii~V~~  107 (130)
T PF08937_consen   80 PNTAKSKWVNWEIEYALK---KGKPIIGVYL  107 (130)
T ss_dssp             TT----HHHHHHHHHHTT---T---EEEEET
T ss_pred             CCcccCcHHHHHHHHHHH---CCCCEEEEEC
Confidence            999999999999988776   4556777764

The structure is a three-layer sandwich with alpha-1 and alpha-4 on one side of the beta-sheet, and alpha-2 and alpha-3 on the other side. Probable role in signal transduction as a phosphorylation-independent conformational switch protein []. This domain is similar to the TIR domain [].; PDB: 3HYN_A.

>PRK06893 DNA replication initiation factor; Validated

Probab=97.66  E-value=3.5e-05  Score=73.99  Aligned_cols=120  Identities=7%  Similarity=-0.054  Sum_probs=70.7

Q ss_pred             eeeeeeeccCccchhHHHHHHHhhhccccccceEEEEeeeccHHHHHHHHhhhhcccccccccccccccccccccccccC
Q 011431          228 RSYRCWLLCPLFSELRVLTNDVHQLMDNYENSDVTLAKFEGEVKKLDQRLLRFLESVDKHVASYDRYGSASFEQPRPQTT  307 (486)
Q Consensus       228 ~vi~I~GmGgGvGKTTLa~~vy~~~~~~F~~~~~~~v~~~~~l~~lqk~ll~~L~~~d~~~~~~~~~g~~s~l~~~L~~t  307 (486)
                      +.+-+||-. |.|||+|++++.+....+...  +....... ......++                       .+.+.  
T Consensus        40 ~~l~l~G~~-G~GKThL~~ai~~~~~~~~~~--~~y~~~~~-~~~~~~~~-----------------------~~~~~--   90 (229)
T PRK06893         40 PFFYIWGGK-SSGKSHLLKAVSNHYLLNQRT--AIYIPLSK-SQYFSPAV-----------------------LENLE--   90 (229)
T ss_pred             CeEEEECCC-CCCHHHHHHHHHHHHHHcCCC--eEEeeHHH-hhhhhHHH-----------------------Hhhcc--
Confidence            456799999 999999999999876443221  12222110 00000000                       11121  


Q ss_pred             cceeeceecccC---HHHHHHH----hcCCCCCCCCCEEEeeCCcc----------ccccccccCCCceEecCCCCCchh
Q 011431          308 SAAHPYVEDVID---DAYMEDI----TDDSSPSLNLSRINSTSRFE----------QLWPETISATDTCTEDVTVDNSPS  370 (486)
Q Consensus       308 Kr~LlVLDDVw~---~~~~~~l----~~~~~~~~~GSrIIiTTR~~----------~V~~~~~~~~~~~y~v~~L~~~es  370 (486)
                      +--+|++||+|.   ...|+..    .+..  ...|+.+||||.+.          ++...  .....+++++++++++.
T Consensus        91 ~~dlLilDDi~~~~~~~~~~~~l~~l~n~~--~~~~~~illits~~~p~~l~~~~~~L~sR--l~~g~~~~l~~pd~e~~  166 (229)
T PRK06893         91 QQDLVCLDDLQAVIGNEEWELAIFDLFNRI--KEQGKTLLLISADCSPHALSIKLPDLASR--LTWGEIYQLNDLTDEQK  166 (229)
T ss_pred             cCCEEEEeChhhhcCChHHHHHHHHHHHHH--HHcCCcEEEEeCCCChHHccccchhHHHH--HhcCCeeeCCCCCHHHH
Confidence            235899999995   3344432    2211  12467776655544          44422  22356899999999999


Q ss_pred             hhhhcccCCC
Q 011431          371 LNLSSCNSSS  380 (486)
Q Consensus       371 ~~LF~~~a~~  380 (486)
                      |+++.++|+.
T Consensus       167 ~~iL~~~a~~  176 (229)
T PRK06893        167 IIVLQRNAYQ  176 (229)
T ss_pred             HHHHHHHHHH
Confidence            9999998874

>KOG4656 consensus Copper chaperone for superoxide dismutase [Inorganic ion transport and metabolism]

Probab=97.41  E-value=0.00037  Score=63.54  Aligned_cols=67  Identities=16%  Similarity=0.201  Sum_probs=59.7

Q ss_pred             eeeeeccccccchhhHHHHHHHhhcCCCeeEEEeecCCCeEEEEeeccCHHHHHHHhhccc-ceeEEecCC
Q 011431          384 EAIFKLEIHHDNLEAWRAAFSIVSEFIGITKISFDFKVKKMTVVGDNFDVLSAGTKLNGLC-RTELVSFGQ  453 (486)
Q Consensus       384 ~~v~kv~~~~~~~~~~~~a~k~~~~~~Gv~~v~~d~~~~~~~V~G~~~d~~~~~~~l~k~~-~~~~~~~~~  453 (486)
                      +..+-|.|+|+.|.  ..++..+.+.+||++|++|.+++.|.|-+. +-+..+...|+..| .|-|.-.+.
T Consensus         8 ~~efaV~M~cescv--navk~~L~~V~Gi~~vevdle~q~v~v~ts-~p~s~i~~~le~tGr~Avl~G~G~   75 (247)
T KOG4656|consen    8 EAEFAVQMTCESCV--NAVKACLKGVPGINSVEVDLEQQIVSVETS-VPPSEIQNTLENTGRDAVLRGAGK   75 (247)
T ss_pred             eEEEEEechhHHHH--HHHHHHhccCCCcceEEEEhhhcEEEEEcc-CChHHHHHHHHhhChheEEecCCc
Confidence            55666899999999  999999999999999999999999999999 99999999999988 676665543

>PF13173 AAA_14: AAA domain

Probab=97.38  E-value=0.00038  Score=60.36  Aligned_cols=121  Identities=8%  Similarity=-0.064  Sum_probs=70.0

Q ss_pred             eeeeeeeccCccchhHHHHHHHhhhccccccceEEEEeeeccHHHHHHHHhhhhcccccccccccccccccccccccccC
Q 011431          228 RSYRCWLLCPLFSELRVLTNDVHQLMDNYENSDVTLAKFEGEVKKLDQRLLRFLESVDKHVASYDRYGSASFEQPRPQTT  307 (486)
Q Consensus       228 ~vi~I~GmGgGvGKTTLa~~vy~~~~~~F~~~~~~~v~~~~~l~~lqk~ll~~L~~~d~~~~~~~~~g~~s~l~~~L~~t  307 (486)
                      +++-|.|.- |+|||||++++.....   ....+..+...... ........ +               ...+.+.+.. 
T Consensus         3 ~~~~l~G~R-~vGKTtll~~~~~~~~---~~~~~~yi~~~~~~-~~~~~~~~-~---------------~~~~~~~~~~-   60 (128)
T PF13173_consen    3 KIIILTGPR-GVGKTTLLKQLAKDLL---PPENILYINFDDPR-DRRLADPD-L---------------LEYFLELIKP-   60 (128)
T ss_pred             CeEEEECCC-CCCHHHHHHHHHHHhc---ccccceeeccCCHH-HHHHhhhh-h---------------HHHHHHhhcc-
Confidence            467789999 9999999999987664   11112222221111 00000000 0               0111112222 


Q ss_pred             cceeeceecccCHHHHHHHhcCCCCCCCCCEEEeeCCcccccccc----ccCCCceEecCCCCCchh
Q 011431          308 SAAHPYVEDVIDDAYMEDITDDSSPSLNLSRINSTSRFEQLWPET----ISATDTCTEDVTVDNSPS  370 (486)
Q Consensus       308 Kr~LlVLDDVw~~~~~~~l~~~~~~~~~GSrIIiTTR~~~V~~~~----~~~~~~~y~v~~L~~~es  370 (486)
                      +..+|++|++-....|...+....+..+..+|++|+.+...+...    ..+.-..++|.+|+..|-
T Consensus        61 ~~~~i~iDEiq~~~~~~~~lk~l~d~~~~~~ii~tgS~~~~l~~~~~~~l~gr~~~~~l~Plsf~E~  127 (128)
T PF13173_consen   61 GKKYIFIDEIQYLPDWEDALKFLVDNGPNIKIILTGSSSSLLSKDIAESLAGRVIEIELYPLSFREF  127 (128)
T ss_pred             CCcEEEEehhhhhccHHHHHHHHHHhccCceEEEEccchHHHhhcccccCCCeEEEEEECCCCHHHh
Confidence            467899999988777777664333444568999999988876321    112224679999988763

>COG2608 CopZ Copper chaperone [Inorganic ion transport and metabolism]

Probab=97.37  E-value=0.00059  Score=52.81  Aligned_cols=60  Identities=10%  Similarity=0.156  Sum_probs=50.2

Q ss_pred             eeeeec-cccccchhhHHHHHHHhhcCCCeeEEEeecCCCeEE--EEeeccCHHHHHHHhhcccc
Q 011431          384 EAIFKL-EIHHDNLEAWRAAFSIVSEFIGITKISFDFKVKKMT--VVGDNFDVLSAGTKLNGLCR  445 (486)
Q Consensus       384 ~~v~kv-~~~~~~~~~~~~a~k~~~~~~Gv~~v~~d~~~~~~~--V~G~~~d~~~~~~~l~k~~~  445 (486)
                      +..+++ .|+|..|.  ..+.+.+.+++||.++.+|.+.++++  +.+..++...+.+.+.+.|+
T Consensus         3 ~~~l~v~~MtC~~C~--~~V~~al~~v~gv~~v~v~l~~~~~~V~~d~~~~~~~~i~~ai~~aGy   65 (71)
T COG2608           3 KTTLKVEGMTCGHCV--KTVEKALEEVDGVASVDVDLEKGTATVTFDSNKVDIEAIIEAIEDAGY   65 (71)
T ss_pred             eEEEEECCcCcHHHH--HHHHHHHhcCCCeeEEEEEcccCeEEEEEcCCcCCHHHHHHHHHHcCC
Confidence            455666 59999999  99999999999999999999996544  55534899999999998884

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

Probab=97.15  E-value=0.00063  Score=66.60  Aligned_cols=145  Identities=8%  Similarity=-0.084  Sum_probs=74.0

Q ss_pred             ceeeeeeeccCccchhHHHHHHHhhhccccccceEEE-EeeeccHHHHHHHHhhhhcccccccccccccccccccccc--
Q 011431          227 YRSYRCWLLCPLFSELRVLTNDVHQLMDNYENSDVTL-AKFEGEVKKLDQRLLRFLESVDKHVASYDRYGSASFEQPR--  303 (486)
Q Consensus       227 ~~vi~I~GmGgGvGKTTLa~~vy~~~~~~F~~~~~~~-v~~~~~l~~lqk~ll~~L~~~d~~~~~~~~~g~~s~l~~~--  303 (486)
                      -.++.++|.. |.|||||++.+++.+... .. .+.+ .........+...++..++. ... +. ........+...  
T Consensus        43 ~~~~~l~G~~-G~GKTtl~~~l~~~l~~~-~~-~~~~~~~~~~~~~~~l~~i~~~lG~-~~~-~~-~~~~~~~~l~~~l~  116 (269)
T TIGR03015        43 EGFILITGEV-GAGKTTLIRNLLKRLDQE-RV-VAAKLVNTRVDAEDLLRMVAADFGL-ETE-GR-DKAALLRELEDFLI  116 (269)
T ss_pred             CCEEEEEcCC-CCCHHHHHHHHHHhcCCC-Ce-EEeeeeCCCCCHHHHHHHHHHHcCC-CCC-CC-CHHHHHHHHHHHHH
Confidence            4467899999 999999999999876521 11 1111 11122333445555544432 110 00 000000112211  


Q ss_pred             --c-ccCcceeeceecccCH--HHHHHHh---cCCCCCCCCCEEEeeCCccc--cccc-----cccCCCceEecCCCCCc
Q 011431          304 --P-QTTSAAHPYVEDVIDD--AYMEDIT---DDSSPSLNLSRINSTSRFEQ--LWPE-----TISATDTCTEDVTVDNS  368 (486)
Q Consensus       304 --L-~~tKr~LlVLDDVw~~--~~~~~l~---~~~~~~~~GSrIIiTTR~~~--V~~~-----~~~~~~~~y~v~~L~~~  368 (486)
                        + .+ ++.+||+||+|..  ..++.+.   ........+..|++|....-  .+..     ........+++++|+.+
T Consensus       117 ~~~~~~-~~~vliiDe~~~l~~~~~~~l~~l~~~~~~~~~~~~vvl~g~~~~~~~l~~~~~~~l~~r~~~~~~l~~l~~~  195 (269)
T TIGR03015       117 EQFAAG-KRALLVVDEAQNLTPELLEELRMLSNFQTDNAKLLQIFLVGQPEFRETLQSPQLQQLRQRIIASCHLGPLDRE  195 (269)
T ss_pred             HHHhCC-CCeEEEEECcccCCHHHHHHHHHHhCcccCCCCeEEEEEcCCHHHHHHHcCchhHHHHhheeeeeeCCCCCHH
Confidence              2 33 6789999999863  3344433   11111122335566665321  1100     00011346789999999


Q ss_pred             hhhhhhcccC
Q 011431          369 PSLNLSSCNS  378 (486)
Q Consensus       369 es~~LF~~~a  378 (486)
                      |...++...+
T Consensus       196 e~~~~l~~~l  205 (269)
T TIGR03015       196 ETREYIEHRL  205 (269)
T ss_pred             HHHHHHHHHH
Confidence            9999887654

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.

>PRK00411 cdc6 cell division control protein 6; Reviewed

Probab=96.94  E-value=0.0027  Score=65.93  Aligned_cols=149  Identities=4%  Similarity=-0.187  Sum_probs=79.0

Q ss_pred             eeeeeeeccCccchhHHHHHHHhhhccccccceEEEEeee--ccHHHHHHHHhhhhcccccccccccccccccccccccc
Q 011431          228 RSYRCWLLCPLFSELRVLTNDVHQLMDNYENSDVTLAKFE--GEVKKLDQRLLRFLESVDKHVASYDRYGSASFEQPRPQ  305 (486)
Q Consensus       228 ~vi~I~GmGgGvGKTTLa~~vy~~~~~~F~~~~~~~v~~~--~~l~~lqk~ll~~L~~~d~~~~~~~~~g~~s~l~~~L~  305 (486)
                      ..+-|+|.. |.||||+++.+++.+........+..+...  .....+..+++..|..................+.+.+.
T Consensus        56 ~~~lI~G~~-GtGKT~l~~~v~~~l~~~~~~~~~v~in~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~l~  134 (394)
T PRK00411         56 LNVLIYGPP-GTGKTTTVKKVFEELEEIAVKVVYVYINCQIDRTRYAIFSEIARQLFGHPPPSSGLSFDELFDKIAEYLD  134 (394)
T ss_pred             CeEEEECCC-CCCHHHHHHHHHHHHHHhcCCcEEEEEECCcCCCHHHHHHHHHHHhcCCCCCCCCCCHHHHHHHHHHHHH
Confidence            335599999 999999999999877544311112222211  22333455666666432111000000011123333443


Q ss_pred             c-CcceeeceecccCHH------HHHHHhcCCCCCCCCCE--EEeeCCcccccccc-----ccCCCceEecCCCCCchhh
Q 011431          306 T-TSAAHPYVEDVIDDA------YMEDITDDSSPSLNLSR--INSTSRFEQLWPET-----ISATDTCTEDVTVDNSPSL  371 (486)
Q Consensus       306 ~-tKr~LlVLDDVw~~~------~~~~l~~~~~~~~~GSr--IIiTTR~~~V~~~~-----~~~~~~~y~v~~L~~~es~  371 (486)
                      . .+..+|++|+++.-.      .+..+.. .+....+++  +|.++.+.++....     +.-......+++++.++..
T Consensus       135 ~~~~~~viviDE~d~l~~~~~~~~l~~l~~-~~~~~~~~~v~vI~i~~~~~~~~~l~~~~~s~~~~~~i~f~py~~~e~~  213 (394)
T PRK00411        135 ERDRVLIVALDDINYLFEKEGNDVLYSLLR-AHEEYPGARIGVIGISSDLTFLYILDPRVKSVFRPEEIYFPPYTADEIF  213 (394)
T ss_pred             hcCCEEEEEECCHhHhhccCCchHHHHHHH-hhhccCCCeEEEEEEECCcchhhhcCHHHHhcCCcceeecCCCCHHHHH
Confidence            2 145789999998643      2333332 222234554  66776666543210     0001235689999999999


Q ss_pred             hhhcccC
Q 011431          372 NLSSCNS  378 (486)
Q Consensus       372 ~LF~~~a  378 (486)
                      +++..++
T Consensus       214 ~il~~r~  220 (394)
T PRK00411        214 DILKDRV  220 (394)
T ss_pred             HHHHHHH
Confidence            9988765

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

Probab=96.65  E-value=0.001  Score=64.62  Aligned_cols=50  Identities=12%  Similarity=-0.029  Sum_probs=37.7

Q ss_pred             eeeeeeeccCccchhHHHHHHHhhhcc-ccccceEEEEeee--ccHHHHHHHHh
Q 011431          228 RSYRCWLLCPLFSELRVLTNDVHQLMD-NYENSDVTLAKFE--GEVKKLDQRLL  278 (486)
Q Consensus       228 ~vi~I~GmGgGvGKTTLa~~vy~~~~~-~F~~~~~~~v~~~--~~l~~lqk~ll  278 (486)
                      ..++|.|.+ |.|||||++.+|+.+.. +|+..+|..+...  .++..+++.+.
T Consensus        17 qr~~I~G~~-G~GKTTLlr~I~n~l~~~~fdv~~~v~vI~er~~ev~el~~~I~   69 (249)
T cd01128          17 QRGLIVAPP-KAGKTTLLQSIANAITKNHPEVYLIVLLIDERPEEVTDMQRSVK   69 (249)
T ss_pred             CEEEEECCC-CCCHHHHHHHHHhccccccCCeEEEEEEccCCCccHHHHHHHhc
Confidence            456799999 99999999999998765 4666656555444  46667787773

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.

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

Probab=96.63  E-value=0.013  Score=50.56  Aligned_cols=26  Identities=4%  Similarity=-0.132  Sum_probs=22.4

Q ss_pred             ceeeeeeeccCccchhHHHHHHHhhhc
Q 011431          227 YRSYRCWLLCPLFSELRVLTNDVHQLM  253 (486)
Q Consensus       227 ~~vi~I~GmGgGvGKTTLa~~vy~~~~  253 (486)
                      .+.+-|+|-. |.|||||++.+++...
T Consensus        19 ~~~v~i~G~~-G~GKT~l~~~i~~~~~   44 (151)
T cd00009          19 PKNLLLYGPP-GTGKTTLARAIANELF   44 (151)
T ss_pred             CCeEEEECCC-CCCHHHHHHHHHHHhh
Confidence            4567799999 9999999999998764

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.

>PRK13342 recombination factor protein RarA; Reviewed

Probab=96.47  E-value=0.0088  Score=62.64  Aligned_cols=125  Identities=9%  Similarity=-0.011  Sum_probs=69.0

Q ss_pred             CceeeeeeeccCccchhHHHHHHHhhhccccccceEEEEeeeccHHHHHHHHhhhhcccccccccccccccccccccccc
Q 011431          226 GYRSYRCWLLCPLFSELRVLTNDVHQLMDNYENSDVTLAKFEGEVKKLDQRLLRFLESVDKHVASYDRYGSASFEQPRPQ  305 (486)
Q Consensus       226 ~~~vi~I~GmGgGvGKTTLa~~vy~~~~~~F~~~~~~~v~~~~~l~~lqk~ll~~L~~~d~~~~~~~~~g~~s~l~~~L~  305 (486)
                      ....+-++|.. |.||||||+.+.+.....|..-    .....+...++ .++.....               .   ...
T Consensus        35 ~~~~ilL~Gpp-GtGKTtLA~~ia~~~~~~~~~l----~a~~~~~~~ir-~ii~~~~~---------------~---~~~   90 (413)
T PRK13342         35 RLSSMILWGPP-GTGKTTLARIIAGATDAPFEAL----SAVTSGVKDLR-EVIEEARQ---------------R---RSA   90 (413)
T ss_pred             CCceEEEECCC-CCCHHHHHHHHHHHhCCCEEEE----ecccccHHHHH-HHHHHHHH---------------h---hhc
Confidence            34456689999 9999999999988765444211    11111221111 12111110               0   012


Q ss_pred             cCcceeeceecccC--HHHHHHHhcCCCCCCCCCEEEe--eCCccccc-cccccCCCceEecCCCCCchhhhhhcccC
Q 011431          306 TTSAAHPYVEDVID--DAYMEDITDDSSPSLNLSRINS--TSRFEQLW-PETISATDTCTEDVTVDNSPSLNLSSCNS  378 (486)
Q Consensus       306 ~tKr~LlVLDDVw~--~~~~~~l~~~~~~~~~GSrIIi--TTR~~~V~-~~~~~~~~~~y~v~~L~~~es~~LF~~~a  378 (486)
                      + ++.+|++|+++.  ..+.+.++... +  .|+.++|  ||.+.... .........++++++|+.++.+.++.+.+
T Consensus        91 g-~~~vL~IDEi~~l~~~~q~~LL~~l-e--~~~iilI~att~n~~~~l~~aL~SR~~~~~~~~ls~e~i~~lL~~~l  164 (413)
T PRK13342         91 G-RRTILFIDEIHRFNKAQQDALLPHV-E--DGTITLIGATTENPSFEVNPALLSRAQVFELKPLSEEDIEQLLKRAL  164 (413)
T ss_pred             C-CceEEEEechhhhCHHHHHHHHHHh-h--cCcEEEEEeCCCChhhhccHHHhccceeeEeCCCCHHHHHHHHHHHH
Confidence            2 568899999985  34455555422 2  3555554  44443211 00111122578999999999999998754

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

Probab=96.45  E-value=0.0099  Score=60.41  Aligned_cols=123  Identities=11%  Similarity=0.013  Sum_probs=74.5

Q ss_pred             CceeeeeeeccCccchhHHHHHHHhhhccccccceEEEEeeeccHHHHHHHHhhhhcccccccccccccccccccccccc
Q 011431          226 GYRSYRCWLLCPLFSELRVLTNDVHQLMDNYENSDVTLAKFEGEVKKLDQRLLRFLESVDKHVASYDRYGSASFEQPRPQ  305 (486)
Q Consensus       226 ~~~vi~I~GmGgGvGKTTLa~~vy~~~~~~F~~~~~~~v~~~~~l~~lqk~ll~~L~~~d~~~~~~~~~g~~s~l~~~L~  305 (486)
                      .+...=.||.. |+||||||+.+-......|..    ...+..++..+++.+ ..-.               ..   ...
T Consensus        47 ~l~SmIl~GPP-G~GKTTlA~liA~~~~~~f~~----~sAv~~gvkdlr~i~-e~a~---------------~~---~~~  102 (436)
T COG2256          47 HLHSMILWGPP-GTGKTTLARLIAGTTNAAFEA----LSAVTSGVKDLREII-EEAR---------------KN---RLL  102 (436)
T ss_pred             CCceeEEECCC-CCCHHHHHHHHHHhhCCceEE----eccccccHHHHHHHH-HHHH---------------HH---Hhc
Confidence            34444489999 999999999997766666642    122233343333222 1100               00   222


Q ss_pred             cCcceeeceeccc--CHHHHHHHhcCCCCCCCCCEEEe--eCCccccc-cccccCCCceEecCCCCCchhhhhhcc
Q 011431          306 TTSAAHPYVEDVI--DDAYMEDITDDSSPSLNLSRINS--TSRFEQLW-PETISATDTCTEDVTVDNSPSLNLSSC  376 (486)
Q Consensus       306 ~tKr~LlVLDDVw--~~~~~~~l~~~~~~~~~GSrIIi--TTR~~~V~-~~~~~~~~~~y~v~~L~~~es~~LF~~  376 (486)
                      + |+.+|.+|.|-  |..+-+.++..   -..|.-|+|  ||-|-.-- ......-..+|++++|+.+|-.++..+
T Consensus       103 g-r~tiLflDEIHRfnK~QQD~lLp~---vE~G~iilIGATTENPsF~ln~ALlSR~~vf~lk~L~~~di~~~l~r  174 (436)
T COG2256         103 G-RRTILFLDEIHRFNKAQQDALLPH---VENGTIILIGATTENPSFELNPALLSRARVFELKPLSSEDIKKLLKR  174 (436)
T ss_pred             C-CceEEEEehhhhcChhhhhhhhhh---hcCCeEEEEeccCCCCCeeecHHHhhhhheeeeecCCHHHHHHHHHH
Confidence            4 78899999986  55666666642   235776666  55554421 111112346899999999999999877

>PRK09376 rho transcription termination factor Rho; Provisional

Probab=96.17  E-value=0.0056  Score=62.70  Aligned_cols=50  Identities=14%  Similarity=-0.029  Sum_probs=37.6

Q ss_pred             eeeeeeccCccchhHHHHHHHhhhcc-ccccceEEEEeeec--cHHHHHHHHhh
Q 011431          229 SYRCWLLCPLFSELRVLTNDVHQLMD-NYENSDVTLAKFEG--EVKKLDQRLLR  279 (486)
Q Consensus       229 vi~I~GmGgGvGKTTLa~~vy~~~~~-~F~~~~~~~v~~~~--~l~~lqk~ll~  279 (486)
                      ..+|+|.+ |+|||||+++||+.+.. +|+..+|+.+.-.+  .+..+++.++-
T Consensus       171 R~lIvgpp-GvGKTTLaK~Ian~I~~nhFDv~~~VvLIgER~~EVtdiqrsIlg  223 (416)
T PRK09376        171 RGLIVAPP-KAGKTVLLQNIANSITTNHPEVHLIVLLIDERPEEVTDMQRSVKG  223 (416)
T ss_pred             eEEEeCCC-CCChhHHHHHHHHHHHhhcCCeEEEEEEeCCchhHHHHHHHHhcC
Confidence            35699999 99999999999998765 57776666654443  56667777763

>TIGR00635 ruvB Holliday junction DNA helicase, RuvB subunit

Probab=96.13  E-value=0.0051  Score=61.53  Aligned_cols=140  Identities=6%  Similarity=-0.067  Sum_probs=72.5

Q ss_pred             ceeeeeeeccCccchhHHHHHHHhhhccccccceEEEEeeeccHHHHHHH----Hhhhhccccccccccccccccccccc
Q 011431          227 YRSYRCWLLCPLFSELRVLTNDVHQLMDNYENSDVTLAKFEGEVKKLDQR----LLRFLESVDKHVASYDRYGSASFEQP  302 (486)
Q Consensus       227 ~~vi~I~GmGgGvGKTTLa~~vy~~~~~~F~~~~~~~v~~~~~l~~lqk~----ll~~L~~~d~~~~~~~~~g~~s~l~~  302 (486)
                      ...+-++|.. |+|||+||+.+-+.+...+....-........+......    -+..||+.+.. .   . .....++.
T Consensus        30 ~~~~ll~Gp~-G~GKT~la~~ia~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vl~iDEi~~l-~---~-~~~e~l~~  103 (305)
T TIGR00635        30 LDHLLLYGPP-GLGKTTLAHIIANEMGVNLKITSGPALEKPGDLAAILTNLEEGDVLFIDEIHRL-S---P-AVEELLYP  103 (305)
T ss_pred             CCeEEEECCC-CCCHHHHHHHHHHHhCCCEEEeccchhcCchhHHHHHHhcccCCEEEEehHhhh-C---H-HHHHHhhH
Confidence            4456689999 999999999998876543321100000000111110000    01111111110 0   0 11133444


Q ss_pred             ccccCcceeeceecccCHHHHHHHhcCCCCCCCCCEEEeeCCccccccccccCCCceEecCCCCCchhhhhhcccCC
Q 011431          303 RPQTTSAAHPYVEDVIDDAYMEDITDDSSPSLNLSRINSTSRFEQLWPETISATDTCTEDVTVDNSPSLNLSSCNSS  379 (486)
Q Consensus       303 ~L~~tKr~LlVLDDVw~~~~~~~l~~~~~~~~~GSrIIiTTR~~~V~~~~~~~~~~~y~v~~L~~~es~~LF~~~a~  379 (486)
                      .+.. .+..+|+++..+...+...      ..+.+-|..|||...+...-...-..++++++++.+|..+++...+.
T Consensus       104 ~~~~-~~~~~v~~~~~~~~~~~~~------~~~~~li~~t~~~~~l~~~l~sR~~~~~~l~~l~~~e~~~il~~~~~  173 (305)
T TIGR00635       104 AMED-FRLDIVIGKGPSARSVRLD------LPPFTLVGATTRAGMLTSPLRDRFGIILRLEFYTVEELAEIVSRSAG  173 (305)
T ss_pred             HHhh-hheeeeeccCccccceeec------CCCeEEEEecCCccccCHHHHhhcceEEEeCCCCHHHHHHHHHHHHH
Confidence            5555 5666777766554433211      12356777788876654210001134689999999999999987765

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.

>PLN02957 copper, zinc superoxide dismutase

Probab=96.12  E-value=0.023  Score=54.91  Aligned_cols=70  Identities=14%  Similarity=0.238  Sum_probs=60.8

Q ss_pred             eeeeeeccccccchhhHHHHHHHhhcCCCeeEEEeecCCCeEEEEeeccCHHHHHHHhhccc-ceeEEecCCCC
Q 011431          383 KEAIFKLEIHHDNLEAWRAAFSIVSEFIGITKISFDFKVKKMTVVGDNFDVLSAGTKLNGLC-RTELVSFGQAK  455 (486)
Q Consensus       383 ~~~v~kv~~~~~~~~~~~~a~k~~~~~~Gv~~v~~d~~~~~~~V~G~~~d~~~~~~~l~k~~-~~~~~~~~~~~  455 (486)
                      +++.+.+.|.|+.|.  ..+.+.+...+||.++.++...++++|.+. .++..+...+++.+ .+++++..++.
T Consensus         6 ~~~~~~VgMsC~~Ca--~~Iek~L~~~~GV~~v~vn~~~~~v~V~~~-~~~~~I~~aIe~~Gy~a~~~~~~~~~   76 (238)
T PLN02957          6 LLTEFMVDMKCEGCV--AAVKNKLETLEGVKAVEVDLSNQVVRVLGS-SPVKAMTAALEQTGRKARLIGQGDPE   76 (238)
T ss_pred             EEEEEEECccCHHHH--HHHHHHHhcCCCeEEEEEEcCCCEEEEEec-CCHHHHHHHHHHcCCcEEEecCCCcc
Confidence            456677889999999  999999999999999999999999999997 89999999999988 57777765554

>PF08357 SEFIR: SEFIR domain; InterPro: IPR013568 This domain is found in IL17 receptors (IL17Rs, e

Probab=96.06  E-value=0.0091  Score=53.14  Aligned_cols=65  Identities=15%  Similarity=0.257  Sum_probs=51.4

Q ss_pred             CceEEecccCccCc-ChHHHHHHHHhcC-CCeEEEeC-CcCC--CCCchHHHHHHHhhccceEEEeeccc
Q 011431           22 HDVFVTFSGEDIRE-NFGSYLFAALFRE-SVKTFRDE-QIRR--GDEIMPALLQAIEESKISLVIFSKRF   86 (486)
Q Consensus        22 ~dVFis~~~~D~~~-~f~~~L~~~L~~~-gi~~~~d~-~~~~--g~~i~~~i~~~I~~s~~~ivv~S~~y   86 (486)
                      +.|||||+.....+ ..|..|...|++. |+.|.+|. +...  +.....=+.+.|+++...|+|.|+.|
T Consensus         1 ~kVfI~Ys~d~~~h~~~V~~la~~L~~~~g~~V~lD~~~~~~i~~~g~~~W~~~~~~~ad~Vliv~S~~~   70 (150)
T PF08357_consen    1 RKVFISYSHDSEEHKEWVLALAEFLRQNCGIDVILDQWELNEIARQGPPRWMERQIREADKVLIVCSPGY   70 (150)
T ss_pred             CeEEEEeCCCCHHHHHHHHHHHHHHHhccCCceeecHHhhcccccCCHHHHHHHHHhcCCEEEEEeccch
Confidence            36999998754322 5588999999999 99999998 6533  55566677888999999999999543

g. Q60943 from SWISSPROT) and SEF proteins (e.g. Q8QHJ9 from SWISSPROT). The latter are feedback inhibitors of FGF signalling and are also thought to be receptors. Due to its similarity to the TIR domain (IPR000157 from INTERPRO), the SEFIR region is thought to be involved in homotypic interactions with other SEFIR/TIR-domain-containing proteins. Thus, SEFs and IL17Rs may be involved in TOLL/IL1R-like signalling pathways [].

>TIGR02903 spore_lon_C ATP-dependent protease, Lon family

Probab=95.98  E-value=0.0062  Score=66.89  Aligned_cols=81  Identities=5%  Similarity=-0.221  Sum_probs=46.8

Q ss_pred             cccccccccCcceeeceecccCH--HHHHHHhcCCCCCCCCCEEEe--eCCccccccccccCCCceEecCCCCCchhhhh
Q 011431          298 SFEQPRPQTTSAAHPYVEDVIDD--AYMEDITDDSSPSLNLSRINS--TSRFEQLWPETISATDTCTEDVTVDNSPSLNL  373 (486)
Q Consensus       298 s~l~~~L~~tKr~LlVLDDVw~~--~~~~~l~~~~~~~~~GSrIIi--TTR~~~V~~~~~~~~~~~y~v~~L~~~es~~L  373 (486)
                      ..|.+.|.+ ++++++.|+.|..  ..|..+...+....+...|+|  ||++...+..........+.+.+|+.+|.+.+
T Consensus       283 ~~Ll~~Le~-~~v~~~~~~~~~~~~~~~~~ik~~~~~~~~~~~VLI~aTt~~~~~l~~aLrSR~~~i~~~pls~edi~~I  361 (615)
T TIGR02903       283 NKLLKVLED-KRVEFSSSYYDPDDPNVPKYIKKLFEEGAPADFVLIGATTRDPEEINPALRSRCAEVFFEPLTPEDIALI  361 (615)
T ss_pred             HHHHHHHhh-CeEEeecceeccCCcccchhhhhhcccCccceEEEEEeccccccccCHHHHhceeEEEeCCCCHHHHHHH
Confidence            456666666 6777777766643  234444432212233444555  67765543211111123568899999999999


Q ss_pred             hcccCC
Q 011431          374 SSCNSS  379 (486)
Q Consensus       374 F~~~a~  379 (486)
                      +.+.+.
T Consensus       362 l~~~a~  367 (615)
T TIGR02903       362 VLNAAE  367 (615)
T ss_pred             HHHHHH
Confidence            998654

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=95.90  E-value=0.009  Score=60.56  Aligned_cols=143  Identities=8%  Similarity=-0.100  Sum_probs=67.3

Q ss_pred             CceeeeeeeccCccchhHHHHHHHhhhccccccceEEEEeeeccHHHHHHHHhhhhcccccc-ccccccc--cccccccc
Q 011431          226 GYRSYRCWLLCPLFSELRVLTNDVHQLMDNYENSDVTLAKFEGEVKKLDQRLLRFLESVDKH-VASYDRY--GSASFEQP  302 (486)
Q Consensus       226 ~~~vi~I~GmGgGvGKTTLa~~vy~~~~~~F~~~~~~~v~~~~~l~~lqk~ll~~L~~~d~~-~~~~~~~--g~~s~l~~  302 (486)
                      ....+-++|.. |.||||||+.+-+.+...+....   ......... ...++..+...+.. ++..+..  .....++.
T Consensus        50 ~~~~~ll~Gpp-G~GKT~la~~ia~~l~~~~~~~~---~~~~~~~~~-l~~~l~~l~~~~vl~IDEi~~l~~~~~e~l~~  124 (328)
T PRK00080         50 ALDHVLLYGPP-GLGKTTLANIIANEMGVNIRITS---GPALEKPGD-LAAILTNLEEGDVLFIDEIHRLSPVVEEILYP  124 (328)
T ss_pred             CCCcEEEECCC-CccHHHHHHHHHHHhCCCeEEEe---cccccChHH-HHHHHHhcccCCEEEEecHhhcchHHHHHHHH
Confidence            34556699999 99999999999887654332110   000001000 11122111110000 0000000  00112222


Q ss_pred             ccccCcceeeceecccCHHHHHHHhcCCCCCCCCCEEEeeCCccccccccccCCCceEecCCCCCchhhhhhcccCCC
Q 011431          303 RPQTTSAAHPYVEDVIDDAYMEDITDDSSPSLNLSRINSTSRFEQLWPETISATDTCTEDVTVDNSPSLNLSSCNSSS  380 (486)
Q Consensus       303 ~L~~tKr~LlVLDDVw~~~~~~~l~~~~~~~~~GSrIIiTTR~~~V~~~~~~~~~~~y~v~~L~~~es~~LF~~~a~~  380 (486)
                      .+.. .+..+++|+..+......      ...+.+-|..|||...+...-...-...+++++++.++..+++.+.+..
T Consensus       125 ~~e~-~~~~~~l~~~~~~~~~~~------~l~~~~li~at~~~~~l~~~L~sRf~~~~~l~~~~~~e~~~il~~~~~~  195 (328)
T PRK00080        125 AMED-FRLDIMIGKGPAARSIRL------DLPPFTLIGATTRAGLLTSPLRDRFGIVQRLEFYTVEELEKIVKRSARI  195 (328)
T ss_pred             HHHh-cceeeeeccCccccceee------cCCCceEEeecCCcccCCHHHHHhcCeeeecCCCCHHHHHHHHHHHHHH
Confidence            3333 344444444433221110      0112456777887665531100011346899999999999999987664

>TIGR01242 26Sp45 26S proteasome subunit P45 family

Probab=95.89  E-value=0.011  Score=60.96  Aligned_cols=130  Identities=5%  Similarity=-0.032  Sum_probs=69.0

Q ss_pred             eeeeeeccCccchhHHHHHHHhhhccccccceEEEEeeeccHHHHHHHHhhhhcccccccccccccccccccccccccCc
Q 011431          229 SYRCWLLCPLFSELRVLTNDVHQLMDNYENSDVTLAKFEGEVKKLDQRLLRFLESVDKHVASYDRYGSASFEQPRPQTTS  308 (486)
Q Consensus       229 vi~I~GmGgGvGKTTLa~~vy~~~~~~F~~~~~~~v~~~~~l~~lqk~ll~~L~~~d~~~~~~~~~g~~s~l~~~L~~tK  308 (486)
                      -+-++|.. |.|||+||+++.+.....|-.     +. ...+   .....   .. .      .. .. ..+.+......
T Consensus       158 gvLL~Gpp-GtGKT~lakaia~~l~~~~~~-----v~-~~~l---~~~~~---g~-~------~~-~i-~~~f~~a~~~~  215 (364)
T TIGR01242       158 GVLLYGPP-GTGKTLLAKAVAHETNATFIR-----VV-GSEL---VRKYI---GE-G------AR-LV-REIFELAKEKA  215 (364)
T ss_pred             eEEEECCC-CCCHHHHHHHHHHhCCCCEEe-----cc-hHHH---HHHhh---hH-H------HH-HH-HHHHHHHHhcC
Confidence            36689999 999999999999877554421     11 0111   10000   00 0      00 00 00000011113


Q ss_pred             ceeeceecccCH----------------HHHHHHhcCC--CCCCCCCEEEeeCCcccccccc---ccCCCceEecCCCCC
Q 011431          309 AAHPYVEDVIDD----------------AYMEDITDDS--SPSLNLSRINSTSRFEQLWPET---ISATDTCTEDVTVDN  367 (486)
Q Consensus       309 r~LlVLDDVw~~----------------~~~~~l~~~~--~~~~~GSrIIiTTR~~~V~~~~---~~~~~~~y~v~~L~~  367 (486)
                      ..+|++|+++.-                ..+..++...  .....+.+||.||..-+.+...   ...-+..++++..+.
T Consensus       216 p~il~iDEiD~l~~~~~~~~~~~~~~~~~~l~~ll~~ld~~~~~~~v~vI~ttn~~~~ld~al~r~grfd~~i~v~~P~~  295 (364)
T TIGR01242       216 PSIIFIDEIDAIAAKRTDSGTSGDREVQRTLMQLLAELDGFDPRGNVKVIAATNRPDILDPALLRPGRFDRIIEVPLPDF  295 (364)
T ss_pred             CcEEEhhhhhhhccccccCCCCccHHHHHHHHHHHHHhhCCCCCCCEEEEEecCChhhCChhhcCcccCceEEEeCCcCH
Confidence            457888887632                1122233111  1123467888888754433211   112356789999999


Q ss_pred             chhhhhhcccCCC
Q 011431          368 SPSLNLSSCNSSS  380 (486)
Q Consensus       368 ~es~~LF~~~a~~  380 (486)
                      ++.+++|..++..
T Consensus       296 ~~r~~Il~~~~~~  308 (364)
T TIGR01242       296 EGRLEILKIHTRK  308 (364)
T ss_pred             HHHHHHHHHHHhc
Confidence            9999999988754

Many proteins may score above the trusted cutoff because an internal

>PRK09087 hypothetical protein; Validated

Probab=95.81  E-value=0.0062  Score=58.35  Aligned_cols=111  Identities=9%  Similarity=-0.084  Sum_probs=64.5

Q ss_pred             eeeeeeeccCccchhHHHHHHHhhhccccccceEEEEeeeccHHHHHHHHhhhhcccccccccccccccccccccccccC
Q 011431          228 RSYRCWLLCPLFSELRVLTNDVHQLMDNYENSDVTLAKFEGEVKKLDQRLLRFLESVDKHVASYDRYGSASFEQPRPQTT  307 (486)
Q Consensus       228 ~vi~I~GmGgGvGKTTLa~~vy~~~~~~F~~~~~~~v~~~~~l~~lqk~ll~~L~~~d~~~~~~~~~g~~s~l~~~L~~t  307 (486)
                      +.+-|||.. |.|||+|++...+.....|       +  ...  .....++                   .    .+   
T Consensus        45 ~~l~l~G~~-GsGKThLl~~~~~~~~~~~-------i--~~~--~~~~~~~-------------------~----~~---   86 (226)
T PRK09087         45 PVVVLAGPV-GSGKTHLASIWREKSDALL-------I--HPN--EIGSDAA-------------------N----AA---   86 (226)
T ss_pred             CeEEEECCC-CCCHHHHHHHHHHhcCCEE-------e--cHH--HcchHHH-------------------H----hh---
Confidence            457899999 9999999998876532111       1  000  0000000                   0    11   


Q ss_pred             cceeeceeccc----CHHHHHHHhcCCCCCCCCCEEEeeCCc---------cccccccccCCCceEecCCCCCchhhhhh
Q 011431          308 SAAHPYVEDVI----DDAYMEDITDDSSPSLNLSRINSTSRF---------EQLWPETISATDTCTEDVTVDNSPSLNLS  374 (486)
Q Consensus       308 Kr~LlVLDDVw----~~~~~~~l~~~~~~~~~GSrIIiTTR~---------~~V~~~~~~~~~~~y~v~~L~~~es~~LF  374 (486)
                      ..-+|++||+.    +...+-.+.+..  ...|..||+|++.         .++..  ......+++++++++++-.+++
T Consensus        87 ~~~~l~iDDi~~~~~~~~~lf~l~n~~--~~~g~~ilits~~~p~~~~~~~~dL~S--Rl~~gl~~~l~~pd~e~~~~iL  162 (226)
T PRK09087         87 AEGPVLIEDIDAGGFDETGLFHLINSV--RQAGTSLLMTSRLWPSSWNVKLPDLKS--RLKAATVVEIGEPDDALLSQVI  162 (226)
T ss_pred             hcCeEEEECCCCCCCCHHHHHHHHHHH--HhCCCeEEEECCCChHHhccccccHHH--HHhCCceeecCCCCHHHHHHHH
Confidence            11367788884    223333333322  2347789998873         22321  1223468999999999999999


Q ss_pred             cccCCC
Q 011431          375 SCNSSS  380 (486)
Q Consensus       375 ~~~a~~  380 (486)
                      .+++..
T Consensus       163 ~~~~~~  168 (226)
T PRK09087        163 FKLFAD  168 (226)
T ss_pred             HHHHHH
Confidence            887754

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

Probab=95.81  E-value=0.017  Score=64.47  Aligned_cols=126  Identities=6%  Similarity=-0.078  Sum_probs=69.3

Q ss_pred             CceeeeeeeccCccchhHHHHHHHhhhccccccceEEEEeeeccHHHHHHHHhhhhcccccccccccccccccccccccc
Q 011431          226 GYRSYRCWLLCPLFSELRVLTNDVHQLMDNYENSDVTLAKFEGEVKKLDQRLLRFLESVDKHVASYDRYGSASFEQPRPQ  305 (486)
Q Consensus       226 ~~~vi~I~GmGgGvGKTTLa~~vy~~~~~~F~~~~~~~v~~~~~l~~lqk~ll~~L~~~d~~~~~~~~~g~~s~l~~~L~  305 (486)
                      ....+-+||.. |+||||||+.+.+.....|..-+    .....+..+. .++....               ..+  ...
T Consensus        51 ~~~slLL~GPp-GtGKTTLA~aIA~~~~~~f~~ln----a~~~~i~dir-~~i~~a~---------------~~l--~~~  107 (725)
T PRK13341         51 RVGSLILYGPP-GVGKTTLARIIANHTRAHFSSLN----AVLAGVKDLR-AEVDRAK---------------ERL--ERH  107 (725)
T ss_pred             CCceEEEECCC-CCCHHHHHHHHHHHhcCcceeeh----hhhhhhHHHH-HHHHHHH---------------HHh--hhc
Confidence            34455689999 99999999999987655542210    0111111111 1111100               000  001


Q ss_pred             cCcceeeceeccc--CHHHHHHHhcCCCCCCCCCEEEee--CCccc--cccccccCCCceEecCCCCCchhhhhhcccCC
Q 011431          306 TTSAAHPYVEDVI--DDAYMEDITDDSSPSLNLSRINST--SRFEQ--LWPETISATDTCTEDVTVDNSPSLNLSSCNSS  379 (486)
Q Consensus       306 ~tKr~LlVLDDVw--~~~~~~~l~~~~~~~~~GSrIIiT--TR~~~--V~~~~~~~~~~~y~v~~L~~~es~~LF~~~a~  379 (486)
                      . +..+|++||++  +..+.+.++...   ..|+.++|+  |.+..  +-. .......++++++|+.++-..++.+.+.
T Consensus       108 ~-~~~IL~IDEIh~Ln~~qQdaLL~~l---E~g~IiLI~aTTenp~~~l~~-aL~SR~~v~~l~pLs~edi~~IL~~~l~  182 (725)
T PRK13341        108 G-KRTILFIDEVHRFNKAQQDALLPWV---ENGTITLIGATTENPYFEVNK-ALVSRSRLFRLKSLSDEDLHQLLKRALQ  182 (725)
T ss_pred             C-CceEEEEeChhhCCHHHHHHHHHHh---cCceEEEEEecCCChHhhhhh-HhhccccceecCCCCHHHHHHHHHHHHH
Confidence            2 45789999996  455666666422   246666663  44421  110 0011134789999999999999887543

>TIGR03420 DnaA_homol_Hda DnaA regulatory inactivator Hda

Probab=95.79  E-value=0.02  Score=54.43  Aligned_cols=122  Identities=11%  Similarity=-0.013  Sum_probs=63.8

Q ss_pred             ceeeeeeeccCccchhHHHHHHHhhhccccccceEEEEeeeccHHHHHHHHhhhhccccccccccccccccccccccccc
Q 011431          227 YRSYRCWLLCPLFSELRVLTNDVHQLMDNYENSDVTLAKFEGEVKKLDQRLLRFLESVDKHVASYDRYGSASFEQPRPQT  306 (486)
Q Consensus       227 ~~vi~I~GmGgGvGKTTLa~~vy~~~~~~F~~~~~~~v~~~~~l~~lqk~ll~~L~~~d~~~~~~~~~g~~s~l~~~L~~  306 (486)
                      ...+-++|.. |+||||||+.+++......  ..+..+... .+   .......+                    ..+. 
T Consensus        38 ~~~lll~G~~-G~GKT~la~~~~~~~~~~~--~~~~~i~~~-~~---~~~~~~~~--------------------~~~~-   89 (226)
T TIGR03420        38 DRFLYLWGES-GSGKSHLLQAACAAAEERG--KSAIYLPLA-EL---AQADPEVL--------------------EGLE-   89 (226)
T ss_pred             CCeEEEECCC-CCCHHHHHHHHHHHHHhcC--CcEEEEeHH-HH---HHhHHHHH--------------------hhcc-
Confidence            4456689999 9999999999988754321  112222111 11   11100000                    0111 


Q ss_pred             CcceeeceecccCHH---HHH-HHhcCCCC-CCCCCEEEeeCCccccc-----cc-c-ccCCCceEecCCCCCchhhhhh
Q 011431          307 TSAAHPYVEDVIDDA---YME-DITDDSSP-SLNLSRINSTSRFEQLW-----PE-T-ISATDTCTEDVTVDNSPSLNLS  374 (486)
Q Consensus       307 tKr~LlVLDDVw~~~---~~~-~l~~~~~~-~~~GSrIIiTTR~~~V~-----~~-~-~~~~~~~y~v~~L~~~es~~LF  374 (486)
                       +.-+|++||+..-.   .|. .+....-. ...+.++|+||+..-..     .. . .......+++++|+.++-..++
T Consensus        90 -~~~lLvIDdi~~l~~~~~~~~~L~~~l~~~~~~~~~iIits~~~~~~~~~~~~~L~~r~~~~~~i~l~~l~~~e~~~~l  168 (226)
T TIGR03420        90 -QADLVCLDDVEAIAGQPEWQEALFHLYNRVREAGGRLLIAGRAAPAQLPLRLPDLRTRLAWGLVFQLPPLSDEEKIAAL  168 (226)
T ss_pred             -cCCEEEEeChhhhcCChHHHHHHHHHHHHHHHcCCeEEEECCCChHHCCcccHHHHHHHhcCeeEecCCCCHHHHHHHH
Confidence             22478899997432   222 22211000 12345899988753210     00 0 1112357899999999989888


Q ss_pred             ccc
Q 011431          375 SCN  377 (486)
Q Consensus       375 ~~~  377 (486)
                      ...
T Consensus       169 ~~~  171 (226)
T TIGR03420       169 QSR  171 (226)
T ss_pred             HHH
Confidence            654

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.

>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=95.58  E-value=0.0097  Score=56.26  Aligned_cols=26  Identities=8%  Similarity=-0.074  Sum_probs=22.4

Q ss_pred             ceeeeeeeccCccchhHHHHHHHhhhc
Q 011431          227 YRSYRCWLLCPLFSELRVLTNDVHQLM  253 (486)
Q Consensus       227 ~~vi~I~GmGgGvGKTTLa~~vy~~~~  253 (486)
                      .+.+.|+|.. |+|||+|++.+.+...
T Consensus        20 ~~~~~l~G~r-g~GKTsLl~~~~~~~~   45 (234)
T PF01637_consen   20 SQHILLYGPR-GSGKTSLLKEFINELK   45 (234)
T ss_dssp             SSEEEEEEST-TSSHHHHHHHHHHHCT
T ss_pred             CcEEEEEcCC-cCCHHHHHHHHHHHhh
Confidence            4677799999 9999999999988763

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

>PRK08727 hypothetical protein; Validated

Probab=95.15  E-value=0.031  Score=53.79  Aligned_cols=122  Identities=9%  Similarity=-0.146  Sum_probs=68.1

Q ss_pred             eeeeeeeccCccchhHHHHHHHhhhccccccceEEEEeeeccHHHHHHHHhhhhcccccccccccccccccccccccccC
Q 011431          228 RSYRCWLLCPLFSELRVLTNDVHQLMDNYENSDVTLAKFEGEVKKLDQRLLRFLESVDKHVASYDRYGSASFEQPRPQTT  307 (486)
Q Consensus       228 ~vi~I~GmGgGvGKTTLa~~vy~~~~~~F~~~~~~~v~~~~~l~~lqk~ll~~L~~~d~~~~~~~~~g~~s~l~~~L~~t  307 (486)
                      ..+-++|-. |.|||.|++++.+....+...  +......    .....+...+.                    .+.  
T Consensus        42 ~~l~l~G~~-G~GKThL~~a~~~~~~~~~~~--~~y~~~~----~~~~~~~~~~~--------------------~l~--   92 (233)
T PRK08727         42 DWLYLSGPA-GTGKTHLALALCAAAEQAGRS--SAYLPLQ----AAAGRLRDALE--------------------ALE--   92 (233)
T ss_pred             CeEEEECCC-CCCHHHHHHHHHHHHHHcCCc--EEEEeHH----HhhhhHHHHHH--------------------HHh--
Confidence            457799999 999999999998876544211  1222211    11111111110                    111  


Q ss_pred             cceeeceecccCH---HHHHHHhcCCCC--CCCCCEEEeeCCcc---------ccccccccCCCceEecCCCCCchhhhh
Q 011431          308 SAAHPYVEDVIDD---AYMEDITDDSSP--SLNLSRINSTSRFE---------QLWPETISATDTCTEDVTVDNSPSLNL  373 (486)
Q Consensus       308 Kr~LlVLDDVw~~---~~~~~l~~~~~~--~~~GSrIIiTTR~~---------~V~~~~~~~~~~~y~v~~L~~~es~~L  373 (486)
                      +--+|++||+...   ..|...+-...+  ...|..||+||+..         ++..  .......+++++++.++-..+
T Consensus        93 ~~dlLiIDDi~~l~~~~~~~~~lf~l~n~~~~~~~~vI~ts~~~p~~l~~~~~dL~S--Rl~~~~~~~l~~~~~e~~~~i  170 (233)
T PRK08727         93 GRSLVALDGLESIAGQREDEVALFDFHNRARAAGITLLYTARQMPDGLALVLPDLRS--RLAQCIRIGLPVLDDVARAAV  170 (233)
T ss_pred             cCCEEEEeCcccccCChHHHHHHHHHHHHHHHcCCeEEEECCCChhhhhhhhHHHHH--HHhcCceEEecCCCHHHHHHH
Confidence            2347899997621   223221111111  13467799999842         1111  111235789999999999999


Q ss_pred             hcccCCC
Q 011431          374 SSCNSSS  380 (486)
Q Consensus       374 F~~~a~~  380 (486)
                      +.++|..
T Consensus       171 L~~~a~~  177 (233)
T PRK08727        171 LRERAQR  177 (233)
T ss_pred             HHHHHHH
Confidence            9987754

>PRK05564 DNA polymerase III subunit delta'; Validated

Probab=94.99  E-value=0.15  Score=51.25  Aligned_cols=141  Identities=5%  Similarity=-0.088  Sum_probs=73.7

Q ss_pred             HHHHhhcCCCceeeeeeeccCccchhHHHHHHHhhhcccc---ccceE-EEEe-eec--cHHHHHHHHhhhhcccccccc
Q 011431          217 VLSLLRNAEGYRSYRCWLLCPLFSELRVLTNDVHQLMDNY---ENSDV-TLAK-FEG--EVKKLDQRLLRFLESVDKHVA  289 (486)
Q Consensus       217 v~~ll~~~~~~~vi~I~GmGgGvGKTTLa~~vy~~~~~~F---~~~~~-~~v~-~~~--~l~~lqk~ll~~L~~~d~~~~  289 (486)
                      +...+.+..-...+-++|.. |.||||+|+.+...+....   ...++ .+.. .+.  .+..++ .+...+..      
T Consensus        16 l~~~~~~~~~~ha~Lf~G~~-G~Gk~~la~~~a~~l~c~~~~~~h~D~~~~~~~~~~~i~v~~ir-~~~~~~~~------   87 (313)
T PRK05564         16 IKNSIIKNRFSHAHIIVGED-GIGKSLLAKEIALKILGKSQQREYVDIIEFKPINKKSIGVDDIR-NIIEEVNK------   87 (313)
T ss_pred             HHHHHHcCCCCceEEeECCC-CCCHHHHHHHHHHHHcCCCCCCCCCCeEEeccccCCCCCHHHHH-HHHHHHhc------
Confidence            33334433334455688999 9999999999988653211   11122 1111 111  111111 11111100      


Q ss_pred             cccccccccccccccccCcceeecee-cccCHHHHHHHhcCCCCCCCCCEEEeeCCccccccccccCCCceEecCCCCCc
Q 011431          290 SYDRYGSASFEQPRPQTTSAAHPYVE-DVIDDAYMEDITDDSSPSLNLSRINSTSRFEQLWPETISATDTCTEDVTVDNS  368 (486)
Q Consensus       290 ~~~~~g~~s~l~~~L~~tKr~LlVLD-DVw~~~~~~~l~~~~~~~~~GSrIIiTTR~~~V~~~~~~~~~~~y~v~~L~~~  368 (486)
                           .       .....+|+.||-+ |.++...+..++...-+-.+++.+|++|.+.+.+-........++++.+++.+
T Consensus        88 -----~-------p~~~~~kv~iI~~ad~m~~~a~naLLK~LEepp~~t~~il~~~~~~~ll~TI~SRc~~~~~~~~~~~  155 (313)
T PRK05564         88 -----K-------PYEGDKKVIIIYNSEKMTEQAQNAFLKTIEEPPKGVFIILLCENLEQILDTIKSRCQIYKLNRLSKE  155 (313)
T ss_pred             -----C-------cccCCceEEEEechhhcCHHHHHHHHHHhcCCCCCeEEEEEeCChHhCcHHHHhhceeeeCCCcCHH
Confidence                 0       1112155655555 56677778777743322346899998887665431111112357899999999


Q ss_pred             hhhhhhccc
Q 011431          369 PSLNLSSCN  377 (486)
Q Consensus       369 es~~LF~~~  377 (486)
                      +........
T Consensus       156 ~~~~~l~~~  164 (313)
T PRK05564        156 EIEKFISYK  164 (313)
T ss_pred             HHHHHHHHH
Confidence            987666543

>PRK08116 hypothetical protein; Validated

Probab=94.96  E-value=0.024  Score=55.77  Aligned_cols=25  Identities=8%  Similarity=0.062  Sum_probs=21.5

Q ss_pred             eeeeeccCccchhHHHHHHHhhhccc
Q 011431          230 YRCWLLCPLFSELRVLTNDVHQLMDN  255 (486)
Q Consensus       230 i~I~GmGgGvGKTTLa~~vy~~~~~~  255 (486)
                      +-+||-. |.|||.||.++.+.+..+
T Consensus       117 l~l~G~~-GtGKThLa~aia~~l~~~  141 (268)
T PRK08116        117 LLLWGSV-GTGKTYLAACIANELIEK  141 (268)
T ss_pred             EEEECCC-CCCHHHHHHHHHHHHHHc
Confidence            5588988 999999999999987654

>PRK04841 transcriptional regulator MalT; Provisional

Probab=94.96  E-value=0.094  Score=60.41  Aligned_cols=150  Identities=9%  Similarity=-0.041  Sum_probs=78.5

Q ss_pred             HhhcCCCceeeeeeeccCccchhHHHHHHHhhhccccccceEEEEeee---ccHHHHHHHHhhhhcccccc--------c
Q 011431          220 LLRNAEGYRSYRCWLLCPLFSELRVLTNDVHQLMDNYENSDVTLAKFE---GEVKKLDQRLLRFLESVDKH--------V  288 (486)
Q Consensus       220 ll~~~~~~~vi~I~GmGgGvGKTTLa~~vy~~~~~~F~~~~~~~v~~~---~~l~~lqk~ll~~L~~~d~~--------~  288 (486)
                      .+......+++-|.|.+ |.||||++.+...+    +.  .+.|.+..   .+....-..++..|......        .
T Consensus        25 ~l~~~~~~~~~~v~apa-G~GKTtl~~~~~~~----~~--~~~w~~l~~~d~~~~~f~~~l~~~l~~~~~~~~~~~~~~~   97 (903)
T PRK04841         25 KLSGANNYRLVLVTSPA-GYGKTTLISQWAAG----KN--NLGWYSLDESDNQPERFASYLIAALQQATNGHCSKSEALA   97 (903)
T ss_pred             HHhcccCCCeEEEECCC-CCCHHHHHHHHHHh----CC--CeEEEecCcccCCHHHHHHHHHHHHHHhcCcccchhhhhh
Confidence            33444467788899999 99999999887643    22  35666654   22322333444444211100        0


Q ss_pred             ccccccccc---ccccccccc-CcceeeceecccCH---H---HHHHHhcCCCCCCCCCEEEeeCCcccccccccc-CCC
Q 011431          289 ASYDRYGSA---SFEQPRPQT-TSAAHPYVEDVIDD---A---YMEDITDDSSPSLNLSRINSTSRFEQLWPETIS-ATD  357 (486)
Q Consensus       289 ~~~~~~g~~---s~l~~~L~~-tKr~LlVLDDVw~~---~---~~~~l~~~~~~~~~GSrIIiTTR~~~V~~~~~~-~~~  357 (486)
                      .........   +.+-..|.. .+.++||+||+-..   .   .+..+...   ...+-++|||||..--+.-... ...
T Consensus        98 ~~~~~~~~~~~~~~~~~~l~~~~~~~~lvlDD~h~~~~~~~~~~l~~l~~~---~~~~~~lv~~sR~~~~~~~~~l~~~~  174 (903)
T PRK04841         98 QKRQYASLSSLFAQLFIELADWHQPLYLVIDDYHLITNPEIHEAMRFFLRH---QPENLTLVVLSRNLPPLGIANLRVRD  174 (903)
T ss_pred             ccCCcCCHHHHHHHHHHHHhcCCCCEEEEEeCcCcCCChHHHHHHHHHHHh---CCCCeEEEEEeCCCCCCchHhHHhcC
Confidence            000000000   111111111 26899999998542   1   22222321   2346788899998532210000 122


Q ss_pred             ceEecC----CCCCchhhhhhcccCC
Q 011431          358 TCTEDV----TVDNSPSLNLSSCNSS  379 (486)
Q Consensus       358 ~~y~v~----~L~~~es~~LF~~~a~  379 (486)
                      ...++.    +|+.+|+-+||.....
T Consensus       175 ~~~~l~~~~l~f~~~e~~~ll~~~~~  200 (903)
T PRK04841        175 QLLEIGSQQLAFDHQEAQQFFDQRLS  200 (903)
T ss_pred             cceecCHHhCCCCHHHHHHHHHhccC
Confidence            345566    8999999999976544

>PF10137 TIR-like: Predicted nucleotide-binding protein containing TIR-like domain; InterPro: IPR019302 This entry represents a TIR-like domain found in a family of prokaryotic predicted nucleotide-binding proteins

Probab=94.90  E-value=0.069  Score=46.08  Aligned_cols=60  Identities=18%  Similarity=0.264  Sum_probs=51.1

Q ss_pred             ceEEecccCccCcChHHHHHHHHhcCCCeEEEeC-CcCCCCCchHHHHHHHhhccceEEEeecc
Q 011431           23 DVFVTFSGEDIRENFGSYLFAALFRESVKTFRDE-QIRRGDEIMPALLQAIEESKISLVIFSKR   85 (486)
Q Consensus        23 dVFis~~~~D~~~~f~~~L~~~L~~~gi~~~~d~-~~~~g~~i~~~i~~~I~~s~~~ivv~S~~   85 (486)
                      .|||.|. +|.  .....+...|+..|+.+..-. ....|..+.+.|.+...++..+|++|+|+
T Consensus         1 kVFIvhg-~~~--~~~~~v~~~L~~~~~ep~i~~~~~~~g~tiie~le~~~~~~~faIvl~TpD   61 (125)
T PF10137_consen    1 KVFIVHG-RDL--AAAEAVERFLEKLGLEPIIWHEQPNLGQTIIEKLEEAADSVDFAIVLFTPD   61 (125)
T ss_pred             CEEEEeC-CCH--HHHHHHHHHHHhCCCceEEeecCCCCCCchHHHHHHHhccCCEEEEEEccc
Confidence            4899996 663  678889999998898877655 66889999999999999999999999984

Their exact function has not, as yet, been defined.

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

Probab=94.70  E-value=0.015  Score=49.89  Aligned_cols=113  Identities=11%  Similarity=-0.033  Sum_probs=60.0

Q ss_pred             eeeeeeeccCccchhHHHHHHHhhhccccc---cceEEEEeee--ccHHHHHHHHhhhhccccccccccccccccccccc
Q 011431          228 RSYRCWLLCPLFSELRVLTNDVHQLMDNYE---NSDVTLAKFE--GEVKKLDQRLLRFLESVDKHVASYDRYGSASFEQP  302 (486)
Q Consensus       228 ~vi~I~GmGgGvGKTTLa~~vy~~~~~~F~---~~~~~~v~~~--~~l~~lqk~ll~~L~~~d~~~~~~~~~g~~s~l~~  302 (486)
                      +++-|+|-. |.|||++++.+.+.....+.   ...+.++...  .....+...++..+.........  ...+.+.+.+
T Consensus         5 ~~~~i~G~~-G~GKT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~~~~~~~~--~~~l~~~~~~   81 (131)
T PF13401_consen    5 RILVISGPP-GSGKTTLIKRLARQLNAEAEIKNHPDVIYVNCPSSRTPRDFAQEILEALGLPLKSRQT--SDELRSLLID   81 (131)
T ss_dssp             --EEEEE-T-TSSHHHHHHHHHHHHHHHHHHCCCEEEEEEEHHHHSSHHHHHHHHHHHHT-SSSSTS---HHHHHHHHHH
T ss_pred             cccEEEcCC-CCCHHHHHHHHHHHhHHhhhccCCCcEEEEEeCCCCCHHHHHHHHHHHhCccccccCC--HHHHHHHHHH
Confidence            456689999 99999999999887643221   1122233222  33555677777777642211001  1112244555


Q ss_pred             ccccCcceeeceecccCH---HHHHHHhcCCCCCCCCCEEEeeCCc
Q 011431          303 RPQTTSAAHPYVEDVIDD---AYMEDITDDSSPSLNLSRINSTSRF  345 (486)
Q Consensus       303 ~L~~tKr~LlVLDDVw~~---~~~~~l~~~~~~~~~GSrIIiTTR~  345 (486)
                      .+...+..+||+|+...-   ..++.+.. .. ...+.++|+..+.
T Consensus        82 ~l~~~~~~~lviDe~~~l~~~~~l~~l~~-l~-~~~~~~vvl~G~~  125 (131)
T PF13401_consen   82 ALDRRRVVLLVIDEADHLFSDEFLEFLRS-LL-NESNIKVVLVGTP  125 (131)
T ss_dssp             HHHHCTEEEEEEETTHHHHTHHHHHHHHH-HT-CSCBEEEEEEESS
T ss_pred             HHHhcCCeEEEEeChHhcCCHHHHHHHHH-HH-hCCCCeEEEEECh
Confidence            666634569999998653   22333332 11 2446677766554

>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=94.68  E-value=0.02  Score=54.56  Aligned_cols=133  Identities=9%  Similarity=-0.029  Sum_probs=71.3

Q ss_pred             eeeeeeeccCccchhHHHHHHHhhhccccccceEEEEeeeccHHHHHHHHhhhhcccccccccccccccccccccccccC
Q 011431          228 RSYRCWLLCPLFSELRVLTNDVHQLMDNYENSDVTLAKFEGEVKKLDQRLLRFLESVDKHVASYDRYGSASFEQPRPQTT  307 (486)
Q Consensus       228 ~vi~I~GmGgGvGKTTLa~~vy~~~~~~F~~~~~~~v~~~~~l~~lqk~ll~~L~~~d~~~~~~~~~g~~s~l~~~L~~t  307 (486)
                      .-+-|||-. |.|||.|++++++.+........+..... ..+   ...+...+..           +..+.+++.++. 
T Consensus        35 ~~l~l~G~~-G~GKTHLL~Ai~~~~~~~~~~~~v~y~~~-~~f---~~~~~~~~~~-----------~~~~~~~~~~~~-   97 (219)
T PF00308_consen   35 NPLFLYGPS-GLGKTHLLQAIANEAQKQHPGKRVVYLSA-EEF---IREFADALRD-----------GEIEEFKDRLRS-   97 (219)
T ss_dssp             SEEEEEEST-TSSHHHHHHHHHHHHHHHCTTS-EEEEEH-HHH---HHHHHHHHHT-----------TSHHHHHHHHCT-
T ss_pred             CceEEECCC-CCCHHHHHHHHHHHHHhccccccceeecH-HHH---HHHHHHHHHc-----------ccchhhhhhhhc-
Confidence            345689999 99999999999998765544332333321 122   2223222221           001223333433 


Q ss_pred             cceeeceecccCH---HHHHH----HhcCCCCCCCCCEEEeeCCcc-ccccc------cccCCCceEecCCCCCchhhhh
Q 011431          308 SAAHPYVEDVIDD---AYMED----ITDDSSPSLNLSRINSTSRFE-QLWPE------TISATDTCTEDVTVDNSPSLNL  373 (486)
Q Consensus       308 Kr~LlVLDDVw~~---~~~~~----l~~~~~~~~~GSrIIiTTR~~-~V~~~------~~~~~~~~y~v~~L~~~es~~L  373 (486)
                       --+|++||+..-   ..|..    +.+..  ...|-+||+|++.. .-+..      .......+++++++++++-.++
T Consensus        98 -~DlL~iDDi~~l~~~~~~q~~lf~l~n~~--~~~~k~li~ts~~~P~~l~~~~~~L~SRl~~Gl~~~l~~pd~~~r~~i  174 (219)
T PF00308_consen   98 -ADLLIIDDIQFLAGKQRTQEELFHLFNRL--IESGKQLILTSDRPPSELSGLLPDLRSRLSWGLVVELQPPDDEDRRRI  174 (219)
T ss_dssp             -SSEEEEETGGGGTTHHHHHHHHHHHHHHH--HHTTSEEEEEESS-TTTTTTS-HHHHHHHHCSEEEEE----HHHHHHH
T ss_pred             -CCEEEEecchhhcCchHHHHHHHHHHHHH--HhhCCeEEEEeCCCCccccccChhhhhhHhhcchhhcCCCCHHHHHHH
Confidence             357889998742   22322    22221  23477999999543 11110      0112345899999999999999


Q ss_pred             hcccCCC
Q 011431          374 SSCNSSS  380 (486)
Q Consensus       374 F~~~a~~  380 (486)
                      +.+.|..
T Consensus       175 l~~~a~~  181 (219)
T PF00308_consen  175 LQKKAKE  181 (219)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            9887765

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.

>TIGR02928 orc1/cdc6 family replication initiation protein

Probab=94.56  E-value=0.12  Score=52.87  Aligned_cols=151  Identities=7%  Similarity=-0.061  Sum_probs=73.4

Q ss_pred             eeeeeeeccCccchhHHHHHHHhhhcccccc----ceEEEEeee--ccHHHHHHHHhhhhcc--cccccccccccccccc
Q 011431          228 RSYRCWLLCPLFSELRVLTNDVHQLMDNYEN----SDVTLAKFE--GEVKKLDQRLLRFLES--VDKHVASYDRYGSASF  299 (486)
Q Consensus       228 ~vi~I~GmGgGvGKTTLa~~vy~~~~~~F~~----~~~~~v~~~--~~l~~lqk~ll~~L~~--~d~~~~~~~~~g~~s~  299 (486)
                      ..+-|+|.. |.|||++++.+++++......    ..+..+...  .....+...++..|..  .............-..
T Consensus        41 ~~i~I~G~~-GtGKT~l~~~~~~~l~~~~~~~~~~~~~v~in~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~  119 (365)
T TIGR02928        41 SNVFIYGKT-GTGKTAVTKYVMKELEEAAEDRDVRVVTVYVNCQILDTLYQVLVELANQLRGSGEEVPTTGLSTSEVFRR  119 (365)
T ss_pred             CcEEEECCC-CCCHHHHHHHHHHHHHHHhhccCCceEEEEEECCCCCCHHHHHHHHHHHHhhcCCCCCCCCCCHHHHHHH
Confidence            456789999 999999999999876432211    111222111  1223345566666631  1100000000000022


Q ss_pred             cccccc-cCcceeeceecccCHH-----HHHHHhcC-CCCCCCCC--EEEeeCCccccccc----c-ccCCCceEecCCC
Q 011431          300 EQPRPQ-TTSAAHPYVEDVIDDA-----YMEDITDD-SSPSLNLS--RINSTSRFEQLWPE----T-ISATDTCTEDVTV  365 (486)
Q Consensus       300 l~~~L~-~tKr~LlVLDDVw~~~-----~~~~l~~~-~~~~~~GS--rIIiTTR~~~V~~~----~-~~~~~~~y~v~~L  365 (486)
                      +.+.+. ..+.++||||+++.-.     .+..+... .+...+++  .+|.+|...+....    . .......++++++
T Consensus       120 l~~~l~~~~~~~vlvIDE~d~L~~~~~~~L~~l~~~~~~~~~~~~~v~lI~i~n~~~~~~~l~~~~~s~~~~~~i~f~p~  199 (365)
T TIGR02928       120 LYKELNERGDSLIIVLDEIDYLVGDDDDLLYQLSRARSNGDLDNAKVGVIGISNDLKFRENLDPRVKSSLCEEEIIFPPY  199 (365)
T ss_pred             HHHHHHhcCCeEEEEECchhhhccCCcHHHHhHhccccccCCCCCeEEEEEEECCcchHhhcCHHHhccCCcceeeeCCC
Confidence            233332 2256889999988551     12222221 01122222  34445543432110    0 0001245789999


Q ss_pred             CCchhhhhhcccCC
Q 011431          366 DNSPSLNLSSCNSS  379 (486)
Q Consensus       366 ~~~es~~LF~~~a~  379 (486)
                      +.++-.+++..++.
T Consensus       200 ~~~e~~~il~~r~~  213 (365)
T TIGR02928       200 DAEELRDILENRAE  213 (365)
T ss_pred             CHHHHHHHHHHHHH
Confidence            99999999887653

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.

>PRK05642 DNA replication initiation factor; Validated

Probab=94.53  E-value=0.065  Score=51.56  Aligned_cols=122  Identities=9%  Similarity=-0.031  Sum_probs=66.3

Q ss_pred             eeeeeeeccCccchhHHHHHHHhhhccccccceEEEEeeeccHHHHHHHHhhhhcccccccccccccccccccccccccC
Q 011431          228 RSYRCWLLCPLFSELRVLTNDVHQLMDNYENSDVTLAKFEGEVKKLDQRLLRFLESVDKHVASYDRYGSASFEQPRPQTT  307 (486)
Q Consensus       228 ~vi~I~GmGgGvGKTTLa~~vy~~~~~~F~~~~~~~v~~~~~l~~lqk~ll~~L~~~d~~~~~~~~~g~~s~l~~~L~~t  307 (486)
                      .-+-|||-. |.|||.|++++.+....+  ...+..+.. ..+   ...    .                ..+.+.+.. 
T Consensus        46 ~~l~l~G~~-G~GKTHLl~a~~~~~~~~--~~~v~y~~~-~~~---~~~----~----------------~~~~~~~~~-   97 (234)
T PRK05642         46 SLIYLWGKD-GVGRSHLLQAACLRFEQR--GEPAVYLPL-AEL---LDR----G----------------PELLDNLEQ-   97 (234)
T ss_pred             CeEEEECCC-CCCHHHHHHHHHHHHHhC--CCcEEEeeH-HHH---Hhh----h----------------HHHHHhhhh-
Confidence            456789999 999999999998865432  111222221 111   100    0                011112222 


Q ss_pred             cceeeceecccC---HHHHHH-H---hcCCCCCCCCCEEEeeCCcccc-ccc------cccCCCceEecCCCCCchhhhh
Q 011431          308 SAAHPYVEDVID---DAYMED-I---TDDSSPSLNLSRINSTSRFEQL-WPE------TISATDTCTEDVTVDNSPSLNL  373 (486)
Q Consensus       308 Kr~LlVLDDVw~---~~~~~~-l---~~~~~~~~~GSrIIiTTR~~~V-~~~------~~~~~~~~y~v~~L~~~es~~L  373 (486)
                      - -+|++||+.-   ...|.. +   .+..  ...|.+||+||+...- +..      .......+++++++++++-..+
T Consensus        98 ~-d~LiiDDi~~~~~~~~~~~~Lf~l~n~~--~~~g~~ilits~~~p~~l~~~~~~L~SRl~~gl~~~l~~~~~e~~~~i  174 (234)
T PRK05642         98 Y-ELVCLDDLDVIAGKADWEEALFHLFNRL--RDSGRRLLLAASKSPRELPIKLPDLKSRLTLALVFQMRGLSDEDKLRA  174 (234)
T ss_pred             C-CEEEEechhhhcCChHHHHHHHHHHHHH--HhcCCEEEEeCCCCHHHcCccCccHHHHHhcCeeeecCCCCHHHHHHH
Confidence            1 2578899852   233333 2   2221  2347789998874321 100      0011235789999999999999


Q ss_pred             hcccCCC
Q 011431          374 SSCNSSS  380 (486)
Q Consensus       374 F~~~a~~  380 (486)
                      ...+|..
T Consensus       175 l~~ka~~  181 (234)
T PRK05642        175 LQLRASR  181 (234)
T ss_pred             HHHHHHH
Confidence            8866544

>PLN03025 replication factor C subunit; Provisional

Probab=94.43  E-value=0.22  Score=50.24  Aligned_cols=132  Identities=8%  Similarity=-0.005  Sum_probs=66.1

Q ss_pred             eeeeeeeccCccchhHHHHHHHhhhcc-ccccceEEEEee--eccHHHHHHHHhhhhccccccccccccccccccccccc
Q 011431          228 RSYRCWLLCPLFSELRVLTNDVHQLMD-NYENSDVTLAKF--EGEVKKLDQRLLRFLESVDKHVASYDRYGSASFEQPRP  304 (486)
Q Consensus       228 ~vi~I~GmGgGvGKTTLa~~vy~~~~~-~F~~~~~~~v~~--~~~l~~lqk~ll~~L~~~d~~~~~~~~~g~~s~l~~~L  304 (486)
                      ..+=++|-. |.||||+|+.+-+.+.. .|... +.....  ..+...++..+- ....      .    ..  .   .-
T Consensus        35 ~~lll~Gp~-G~GKTtla~~la~~l~~~~~~~~-~~eln~sd~~~~~~vr~~i~-~~~~------~----~~--~---~~   96 (319)
T PLN03025         35 PNLILSGPP-GTGKTTSILALAHELLGPNYKEA-VLELNASDDRGIDVVRNKIK-MFAQ------K----KV--T---LP   96 (319)
T ss_pred             ceEEEECCC-CCCHHHHHHHHHHHHhcccCccc-eeeecccccccHHHHHHHHH-HHHh------c----cc--c---CC
Confidence            335589999 99999999998876532 22211 111111  112222222211 1100      0    00  0   00


Q ss_pred             ccCcceeeceecccCH--HHHHHHhcCCCCCCCCCEEEeeCCccc-cccccccCCCceEecCCCCCchhhhhhcccCC
Q 011431          305 QTTSAAHPYVEDVIDD--AYMEDITDDSSPSLNLSRINSTSRFEQ-LWPETISATDTCTEDVTVDNSPSLNLSSCNSS  379 (486)
Q Consensus       305 ~~tKr~LlVLDDVw~~--~~~~~l~~~~~~~~~GSrIIiTTR~~~-V~~~~~~~~~~~y~v~~L~~~es~~LF~~~a~  379 (486)
                      .. +..++++|++..-  .....+....-.....+++|+||.... +... ......++++++|++++-...+.+.|.
T Consensus        97 ~~-~~kviiiDE~d~lt~~aq~aL~~~lE~~~~~t~~il~~n~~~~i~~~-L~SRc~~i~f~~l~~~~l~~~L~~i~~  172 (319)
T PLN03025         97 PG-RHKIVILDEADSMTSGAQQALRRTMEIYSNTTRFALACNTSSKIIEP-IQSRCAIVRFSRLSDQEILGRLMKVVE  172 (319)
T ss_pred             CC-CeEEEEEechhhcCHHHHHHHHHHHhcccCCceEEEEeCCccccchh-HHHhhhcccCCCCCHHHHHHHHHHHHH
Confidence            12 4568999998742  222333311101244677777774432 3210 001124789999999998877776554

>PRK08084 DNA replication initiation factor; Provisional

Probab=94.39  E-value=0.05  Score=52.38  Aligned_cols=121  Identities=7%  Similarity=-0.059  Sum_probs=66.8

Q ss_pred             ceeeeeeeccCccchhHHHHHHHhhhccccccceEEEEeeeccHHHHHHHHhhhhccccccccccccccccccccccccc
Q 011431          227 YRSYRCWLLCPLFSELRVLTNDVHQLMDNYENSDVTLAKFEGEVKKLDQRLLRFLESVDKHVASYDRYGSASFEQPRPQT  306 (486)
Q Consensus       227 ~~vi~I~GmGgGvGKTTLa~~vy~~~~~~F~~~~~~~v~~~~~l~~lqk~ll~~L~~~d~~~~~~~~~g~~s~l~~~L~~  306 (486)
                      .+.+-+||.. |.|||+|++++.+....+  ...+......... .....                       +.+.+..
T Consensus        45 ~~~l~l~Gp~-G~GKThLl~a~~~~~~~~--~~~v~y~~~~~~~-~~~~~-----------------------~~~~~~~   97 (235)
T PRK08084         45 SGYIYLWSRE-GAGRSHLLHAACAELSQR--GRAVGYVPLDKRA-WFVPE-----------------------VLEGMEQ   97 (235)
T ss_pred             CCeEEEECCC-CCCHHHHHHHHHHHHHhC--CCeEEEEEHHHHh-hhhHH-----------------------HHHHhhh
Confidence            3466799999 999999999998876432  1112222211100 00000                       0111111


Q ss_pred             CcceeeceecccCH---HHHHHH----hcCCCCCCCC-CEEEeeCCcc---------ccccccccCCCceEecCCCCCch
Q 011431          307 TSAAHPYVEDVIDD---AYMEDI----TDDSSPSLNL-SRINSTSRFE---------QLWPETISATDTCTEDVTVDNSP  369 (486)
Q Consensus       307 tKr~LlVLDDVw~~---~~~~~l----~~~~~~~~~G-SrIIiTTR~~---------~V~~~~~~~~~~~y~v~~L~~~e  369 (486)
                        --+|++||+...   ..|+..    .+...  ..| .++|+||+.-         ++..+  .....+++++++++++
T Consensus        98 --~dlliiDdi~~~~~~~~~~~~lf~l~n~~~--e~g~~~li~ts~~~p~~l~~~~~~L~SR--l~~g~~~~l~~~~~~~  171 (235)
T PRK08084         98 --LSLVCIDNIECIAGDELWEMAIFDLYNRIL--ESGRTRLLITGDRPPRQLNLGLPDLASR--LDWGQIYKLQPLSDEE  171 (235)
T ss_pred             --CCEEEEeChhhhcCCHHHHHHHHHHHHHHH--HcCCCeEEEeCCCChHHcCcccHHHHHH--HhCCceeeecCCCHHH
Confidence              237889998532   334322    22221  124 4789999743         22211  1234689999999999


Q ss_pred             hhhhhcccCCC
Q 011431          370 SLNLSSCNSSS  380 (486)
Q Consensus       370 s~~LF~~~a~~  380 (486)
                      -.+++.++|..
T Consensus       172 ~~~~l~~~a~~  182 (235)
T PRK08084        172 KLQALQLRARL  182 (235)
T ss_pred             HHHHHHHHHHH
Confidence            99998776654

>PF05673 DUF815: Protein of unknown function (DUF815); InterPro: IPR008533 This domain consists of several bacterial proteins of unknown function

Probab=94.15  E-value=0.39  Score=46.22  Aligned_cols=51  Identities=8%  Similarity=0.121  Sum_probs=34.1

Q ss_pred             HHHHHHhhhhhhccchhhhhhHHHHHHHhhcCCCceeeeeeeccCccchhHHHHHHHhhhc
Q 011431          193 KELVVLFNRARDKLDNHASSLLDEVLSLLRNAEGYRSYRCWLLCPLFSELRVLTNDVHQLM  253 (486)
Q Consensus       193 ~~lVgi~~~~~~~~~~~~~~~l~~v~~ll~~~~~~~vi~I~GmGgGvGKTTLa~~vy~~~~  253 (486)
                      ++++|+..+        ...++++...++... ...-+=+||.- |.|||+|++++.+...
T Consensus        27 ~~L~Gie~Q--------k~~l~~Nt~~Fl~G~-pannvLL~G~r-GtGKSSlVkall~~y~   77 (249)
T PF05673_consen   27 DDLIGIERQ--------KEALIENTEQFLQGL-PANNVLLWGAR-GTGKSSLVKALLNEYA   77 (249)
T ss_pred             HHhcCHHHH--------HHHHHHHHHHHHcCC-CCcceEEecCC-CCCHHHHHHHHHHHHh
Confidence            567787432        234556666666543 22334479999 9999999999988653

>PRK06620 hypothetical protein; Validated

Probab=94.07  E-value=0.05  Score=51.65  Aligned_cols=110  Identities=9%  Similarity=-0.190  Sum_probs=62.4

Q ss_pred             eeeeeeeccCccchhHHHHHHHhhhccccccceEEEEeeeccHHHHHHHHhhhhcccccccccccccccccccccccccC
Q 011431          228 RSYRCWLLCPLFSELRVLTNDVHQLMDNYENSDVTLAKFEGEVKKLDQRLLRFLESVDKHVASYDRYGSASFEQPRPQTT  307 (486)
Q Consensus       228 ~vi~I~GmGgGvGKTTLa~~vy~~~~~~F~~~~~~~v~~~~~l~~lqk~ll~~L~~~d~~~~~~~~~g~~s~l~~~L~~t  307 (486)
                      +.+-+||.. |.|||+|++++.+.....|       ..  . .           ...+       .         .+.  
T Consensus        45 ~~l~l~Gp~-G~GKThLl~a~~~~~~~~~-------~~--~-~-----------~~~~-------~---------~~~--   84 (214)
T PRK06620         45 FTLLIKGPS-SSGKTYLTKIWQNLSNAYI-------IK--D-I-----------FFNE-------E---------ILE--   84 (214)
T ss_pred             ceEEEECCC-CCCHHHHHHHHHhccCCEE-------cc--h-h-----------hhch-------h---------HHh--
Confidence            456799999 9999999998766542111       00  0 0           0000       0         111  


Q ss_pred             cceeeceecccCH--HHHHHHhcCCCCCCCCCEEEeeCCccccc---cc--cccCCCceEecCCCCCchhhhhhcccCC
Q 011431          308 SAAHPYVEDVIDD--AYMEDITDDSSPSLNLSRINSTSRFEQLW---PE--TISATDTCTEDVTVDNSPSLNLSSCNSS  379 (486)
Q Consensus       308 Kr~LlVLDDVw~~--~~~~~l~~~~~~~~~GSrIIiTTR~~~V~---~~--~~~~~~~~y~v~~L~~~es~~LF~~~a~  379 (486)
                      ..-+|++||+...  ..+-.+.+..  ...|..||+|++...-.   ..  .......+++++++++++-..+..+++.
T Consensus        85 ~~d~lliDdi~~~~~~~lf~l~N~~--~e~g~~ilits~~~p~~l~l~~L~SRl~~gl~~~l~~pd~~~~~~~l~k~~~  161 (214)
T PRK06620         85 KYNAFIIEDIENWQEPALLHIFNII--NEKQKYLLLTSSDKSRNFTLPDLSSRIKSVLSILLNSPDDELIKILIFKHFS  161 (214)
T ss_pred             cCCEEEEeccccchHHHHHHHHHHH--HhcCCEEEEEcCCCccccchHHHHHHHhCCceEeeCCCCHHHHHHHHHHHHH
Confidence            2246788999532  2222232222  13477999999744321   00  1112335899999999998888877665

>TIGR00362 DnaA chromosomal replication initiator protein DnaA

Probab=94.03  E-value=0.067  Score=55.86  Aligned_cols=133  Identities=11%  Similarity=0.012  Sum_probs=70.2

Q ss_pred             eeeeeeeccCccchhHHHHHHHhhhccccccceEEEEeeeccHHHHHHHHhhhhcccccccccccccccccccccccccC
Q 011431          228 RSYRCWLLCPLFSELRVLTNDVHQLMDNYENSDVTLAKFEGEVKKLDQRLLRFLESVDKHVASYDRYGSASFEQPRPQTT  307 (486)
Q Consensus       228 ~vi~I~GmGgGvGKTTLa~~vy~~~~~~F~~~~~~~v~~~~~l~~lqk~ll~~L~~~d~~~~~~~~~g~~s~l~~~L~~t  307 (486)
                      .-+-++|.. |.|||.|++++.+.+..+.....+..+..    ..+...+...+...     .      ...+++.+.. 
T Consensus       137 n~l~l~G~~-G~GKThL~~ai~~~l~~~~~~~~v~yi~~----~~~~~~~~~~~~~~-----~------~~~~~~~~~~-  199 (405)
T TIGR00362       137 NPLFIYGGV-GLGKTHLLHAIGNEILENNPNAKVVYVSS----EKFTNDFVNALRNN-----K------MEEFKEKYRS-  199 (405)
T ss_pred             CeEEEECCC-CCcHHHHHHHHHHHHHHhCCCCcEEEEEH----HHHHHHHHHHHHcC-----C------HHHHHHHHHh-
Confidence            345689999 99999999999998765433222233321    11222333333210     0      0122223332 


Q ss_pred             cceeeceecccCH---HHH-H---HHhcCCCCCCCCCEEEeeCCcc--ccc---cc--cccCCCceEecCCCCCchhhhh
Q 011431          308 SAAHPYVEDVIDD---AYM-E---DITDDSSPSLNLSRINSTSRFE--QLW---PE--TISATDTCTEDVTVDNSPSLNL  373 (486)
Q Consensus       308 Kr~LlVLDDVw~~---~~~-~---~l~~~~~~~~~GSrIIiTTR~~--~V~---~~--~~~~~~~~y~v~~L~~~es~~L  373 (486)
                       --+|++||+...   ..+ +   .+.+..  ...|..||+||...  ++-   ..  .......+.++++.+.++-..+
T Consensus       200 -~dlLiiDDi~~l~~~~~~~~~l~~~~n~~--~~~~~~iiits~~~p~~l~~l~~~l~SRl~~g~~v~i~~pd~~~r~~i  276 (405)
T TIGR00362       200 -VDLLLIDDIQFLAGKERTQEEFFHTFNAL--HENGKQIVLTSDRPPKELPGLEERLRSRFEWGLVVDIEPPDLETRLAI  276 (405)
T ss_pred             -CCEEEEehhhhhcCCHHHHHHHHHHHHHH--HHCCCCEEEecCCCHHHHhhhhhhhhhhccCCeEEEeCCCCHHHHHHH
Confidence             247889999631   111 1   122211  12356678877531  110   00  1111234688999999988888


Q ss_pred             hcccCCC
Q 011431          374 SSCNSSS  380 (486)
Q Consensus       374 F~~~a~~  380 (486)
                      +...+..
T Consensus       277 l~~~~~~  283 (405)
T TIGR00362       277 LQKKAEE  283 (405)
T ss_pred             HHHHHHH
Confidence            8877654

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).

>TIGR00767 rho transcription termination factor Rho

Probab=93.80  E-value=0.079  Score=54.64  Aligned_cols=52  Identities=13%  Similarity=-0.047  Sum_probs=38.8

Q ss_pred             eeeeeeeccCccchhHHHHHHHhhhccc-cccceEEEEeee--ccHHHHHHHHhhh
Q 011431          228 RSYRCWLLCPLFSELRVLTNDVHQLMDN-YENSDVTLAKFE--GEVKKLDQRLLRF  280 (486)
Q Consensus       228 ~vi~I~GmGgGvGKTTLa~~vy~~~~~~-F~~~~~~~v~~~--~~l~~lqk~ll~~  280 (486)
                      +.++|+|.. |.|||||++.+++.+..+ |+..+|+.+.-.  ..+..+++.++..
T Consensus       169 q~~~IvG~~-g~GKTtL~~~i~~~I~~nhfdv~v~VlLIgER~~EVtDLqrsIlg~  223 (415)
T TIGR00767       169 QRGLIVAPP-KAGKTVLLQKIAQAITRNHPEVELIVLLIDERPEEVTDMQRSVKGE  223 (415)
T ss_pred             CEEEEECCC-CCChhHHHHHHHHhhcccCCceEEEEEEcCCCCccHHHHHHHhhce
Confidence            456799999 999999999999987665 776665555433  4666778887543

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

>PRK14963 DNA polymerase III subunits gamma and tau; Provisional

Probab=93.70  E-value=0.36  Score=51.80  Aligned_cols=71  Identities=4%  Similarity=-0.117  Sum_probs=40.8

Q ss_pred             cceeeceecccC--HHHHHHHhcCCCCCCCCCEEEe-eCCccccccccccCCCceEecCCCCCchhhhhhcccCC
Q 011431          308 SAAHPYVEDVID--DAYMEDITDDSSPSLNLSRINS-TSRFEQLWPETISATDTCTEDVTVDNSPSLNLSSCNSS  379 (486)
Q Consensus       308 Kr~LlVLDDVw~--~~~~~~l~~~~~~~~~GSrIIi-TTR~~~V~~~~~~~~~~~y~v~~L~~~es~~LF~~~a~  379 (486)
                      ++.++|+|+++.  ...+..++...-+......+|+ |++...+.... ......|++.+|+.++....+.+.+.
T Consensus       116 ~~kVVIIDEad~ls~~a~naLLk~LEep~~~t~~Il~t~~~~kl~~~I-~SRc~~~~f~~ls~~el~~~L~~i~~  189 (504)
T PRK14963        116 GRKVYILDEAHMMSKSAFNALLKTLEEPPEHVIFILATTEPEKMPPTI-LSRTQHFRFRRLTEEEIAGKLRRLLE  189 (504)
T ss_pred             CCeEEEEECccccCHHHHHHHHHHHHhCCCCEEEEEEcCChhhCChHH-hcceEEEEecCCCHHHHHHHHHHHHH
Confidence            566888999874  3445555532211123445444 44444443111 11235789999999999888876543

>PRK07003 DNA polymerase III subunits gamma and tau; Validated

Probab=93.67  E-value=0.4  Score=53.36  Aligned_cols=71  Identities=6%  Similarity=-0.119  Sum_probs=42.8

Q ss_pred             cceeeceecccC--HHHHHHHhcCCCCCCCCCEEEeeCCccccccccccCCCceEecCCCCCchhhhhhcccC
Q 011431          308 SAAHPYVEDVID--DAYMEDITDDSSPSLNLSRINSTSRFEQLWPETISATDTCTEDVTVDNSPSLNLSSCNS  378 (486)
Q Consensus       308 Kr~LlVLDDVw~--~~~~~~l~~~~~~~~~GSrIIiTTR~~~V~~~~~~~~~~~y~v~~L~~~es~~LF~~~a  378 (486)
                      +..++|+|++..  ...+..|+...-+.....++|+||.+.+-+......-...|+++.|+.++-.+.+.+.+
T Consensus       119 r~KVIIIDEah~LT~~A~NALLKtLEEPP~~v~FILaTtd~~KIp~TIrSRCq~f~Fk~Ls~eeIv~~L~~Il  191 (830)
T PRK07003        119 RFKVYMIDEVHMLTNHAFNAMLKTLEEPPPHVKFILATTDPQKIPVTVLSRCLQFNLKQMPAGHIVSHLERIL  191 (830)
T ss_pred             CceEEEEeChhhCCHHHHHHHHHHHHhcCCCeEEEEEECChhhccchhhhheEEEecCCcCHHHHHHHHHHHH
Confidence            556788999874  34455555322122346777777766553211111122578999999999887776654

>PHA02544 44 clamp loader, small subunit; Provisional

Probab=93.51  E-value=0.35  Score=48.49  Aligned_cols=124  Identities=6%  Similarity=-0.101  Sum_probs=60.7

Q ss_pred             ceeeeeeeccCccchhHHHHHHHhhhccccccceEEEEeee-ccHHHHHHHHhhhhcccccccccccccccccccccccc
Q 011431          227 YRSYRCWLLCPLFSELRVLTNDVHQLMDNYENSDVTLAKFE-GEVKKLDQRLLRFLESVDKHVASYDRYGSASFEQPRPQ  305 (486)
Q Consensus       227 ~~vi~I~GmGgGvGKTTLa~~vy~~~~~~F~~~~~~~v~~~-~~l~~lqk~ll~~L~~~d~~~~~~~~~g~~s~l~~~L~  305 (486)
                      ...+=++|.. |.||||+|+.+++.....+.     ..... .....++..+......       .           .+.
T Consensus        43 ~~~lll~G~~-G~GKT~la~~l~~~~~~~~~-----~i~~~~~~~~~i~~~l~~~~~~-------~-----------~~~   98 (316)
T PHA02544         43 PNMLLHSPSP-GTGKTTVAKALCNEVGAEVL-----FVNGSDCRIDFVRNRLTRFAST-------V-----------SLT   98 (316)
T ss_pred             CeEEEeeCcC-CCCHHHHHHHHHHHhCccce-----EeccCcccHHHHHHHHHHHHHh-------h-----------ccc
Confidence            3455568999 99999999999887633221     11111 1122222222111100       0           011


Q ss_pred             cCcceeeceecccCH---HHHHHHhcCCCCCCCCCEEEeeCCccccccccccCCCceEecCCCCCchhhhhhc
Q 011431          306 TTSAAHPYVEDVIDD---AYMEDITDDSSPSLNLSRINSTSRFEQLWPETISATDTCTEDVTVDNSPSLNLSS  375 (486)
Q Consensus       306 ~tKr~LlVLDDVw~~---~~~~~l~~~~~~~~~GSrIIiTTR~~~V~~~~~~~~~~~y~v~~L~~~es~~LF~  375 (486)
                      . ...+|++||+...   .....+..-.-....+.++|+||...+-+..........++++..+.++...++.
T Consensus        99 ~-~~~vliiDe~d~l~~~~~~~~L~~~le~~~~~~~~Ilt~n~~~~l~~~l~sR~~~i~~~~p~~~~~~~il~  170 (316)
T PHA02544         99 G-GGKVIIIDEFDRLGLADAQRHLRSFMEAYSKNCSFIITANNKNGIIEPLRSRCRVIDFGVPTKEEQIEMMK  170 (316)
T ss_pred             C-CCeEEEEECcccccCHHHHHHHHHHHHhcCCCceEEEEcCChhhchHHHHhhceEEEeCCCCHHHHHHHHH
Confidence            2 3457889998643   1222222101012356789999865543211111112356777777777665543

>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=93.43  E-value=0.06  Score=45.60  Aligned_cols=23  Identities=4%  Similarity=-0.324  Sum_probs=20.1

Q ss_pred             eeeeeeccCccchhHHHHHHHhhh
Q 011431          229 SYRCWLLCPLFSELRVLTNDVHQL  252 (486)
Q Consensus       229 vi~I~GmGgGvGKTTLa~~vy~~~  252 (486)
                      +|.|.|.. |.||||+|+.+-+++
T Consensus         1 vI~I~G~~-gsGKST~a~~La~~~   23 (121)
T PF13207_consen    1 VIIISGPP-GSGKSTLAKELAERL   23 (121)
T ss_dssp             EEEEEEST-TSSHHHHHHHHHHHH
T ss_pred             CEEEECCC-CCCHHHHHHHHHHHH
Confidence            57899999 999999999986654

...

>PRK08118 topology modulation protein; Reviewed

Probab=93.42  E-value=0.058  Score=49.05  Aligned_cols=26  Identities=4%  Similarity=-0.379  Sum_probs=22.1

Q ss_pred             eeeeeeccCccchhHHHHHHHhhhccc
Q 011431          229 SYRCWLLCPLFSELRVLTNDVHQLMDN  255 (486)
Q Consensus       229 vi~I~GmGgGvGKTTLa~~vy~~~~~~  255 (486)
                      .|-|+|.+ |.||||||+.+++.+...
T Consensus         3 rI~I~G~~-GsGKSTlak~L~~~l~~~   28 (167)
T PRK08118          3 KIILIGSG-GSGKSTLARQLGEKLNIP   28 (167)
T ss_pred             EEEEECCC-CCCHHHHHHHHHHHhCCC
Confidence            46799999 999999999999876543

>PRK14088 dnaA chromosomal replication initiation protein; Provisional

Probab=93.17  E-value=0.2  Score=52.97  Aligned_cols=134  Identities=8%  Similarity=-0.062  Sum_probs=71.2

Q ss_pred             eeeeeeeccCccchhHHHHHHHhhhccccccceEEEEeeeccHHHHHHHHhhhhcccccccccccccccccccccccccC
Q 011431          228 RSYRCWLLCPLFSELRVLTNDVHQLMDNYENSDVTLAKFEGEVKKLDQRLLRFLESVDKHVASYDRYGSASFEQPRPQTT  307 (486)
Q Consensus       228 ~vi~I~GmGgGvGKTTLa~~vy~~~~~~F~~~~~~~v~~~~~l~~lqk~ll~~L~~~d~~~~~~~~~g~~s~l~~~L~~t  307 (486)
                      .-+-+||-. |.|||+|++++.+.+........+..+.. ..   +...+...+..     +..      ..+++.+.. 
T Consensus       131 n~l~lyG~~-G~GKTHLl~ai~~~l~~~~~~~~v~yi~~-~~---f~~~~~~~~~~-----~~~------~~f~~~~~~-  193 (440)
T PRK14088        131 NPLFIYGGV-GLGKTHLLQSIGNYVVQNEPDLRVMYITS-EK---FLNDLVDSMKE-----GKL------NEFREKYRK-  193 (440)
T ss_pred             CeEEEEcCC-CCcHHHHHHHHHHHHHHhCCCCeEEEEEH-HH---HHHHHHHHHhc-----ccH------HHHHHHHHh-
Confidence            346689988 99999999999998765443322333322 11   22233322221     000      112222222 


Q ss_pred             cceeeceecccCH---H----HHHHHhcCCCCCCCCCEEEeeCC-ccccccc------cccCCCceEecCCCCCchhhhh
Q 011431          308 SAAHPYVEDVIDD---A----YMEDITDDSSPSLNLSRINSTSR-FEQLWPE------TISATDTCTEDVTVDNSPSLNL  373 (486)
Q Consensus       308 Kr~LlVLDDVw~~---~----~~~~l~~~~~~~~~GSrIIiTTR-~~~V~~~------~~~~~~~~y~v~~L~~~es~~L  373 (486)
                      .--+|++||+...   .    .+-.+.+..  ...|..||+||. .-.-+..      .......+.++++.+.+.-..+
T Consensus       194 ~~dvLlIDDi~~l~~~~~~q~elf~~~n~l--~~~~k~iIitsd~~p~~l~~l~~rL~SR~~~gl~v~i~~pd~e~r~~I  271 (440)
T PRK14088        194 KVDVLLIDDVQFLIGKTGVQTELFHTFNEL--HDSGKQIVICSDREPQKLSEFQDRLVSRFQMGLVAKLEPPDEETRKKI  271 (440)
T ss_pred             cCCEEEEechhhhcCcHHHHHHHHHHHHHH--HHcCCeEEEECCCCHHHHHHHHHHHhhHHhcCceEeeCCCCHHHHHHH
Confidence            2357889999732   1    121222221  123557888885 2211110      0112235788999999998888


Q ss_pred             hcccCCC
Q 011431          374 SSCNSSS  380 (486)
Q Consensus       374 F~~~a~~  380 (486)
                      +.+.+..
T Consensus       272 L~~~~~~  278 (440)
T PRK14088        272 ARKMLEI  278 (440)
T ss_pred             HHHHHHh
Confidence            8877653

>PRK12402 replication factor C small subunit 2; Reviewed

Probab=93.07  E-value=0.64  Score=46.86  Aligned_cols=70  Identities=7%  Similarity=-0.057  Sum_probs=37.2

Q ss_pred             ceeeceecccCH--HHHHHHhcCCCCCCCCCEEEeeCCcc-ccccccccCCCceEecCCCCCchhhhhhcccCC
Q 011431          309 AAHPYVEDVIDD--AYMEDITDDSSPSLNLSRINSTSRFE-QLWPETISATDTCTEDVTVDNSPSLNLSSCNSS  379 (486)
Q Consensus       309 r~LlVLDDVw~~--~~~~~l~~~~~~~~~GSrIIiTTR~~-~V~~~~~~~~~~~y~v~~L~~~es~~LF~~~a~  379 (486)
                      +.+|++||+..-  .....+....-......++|+||.+. .+.. ........+++.+++.++...++...+.
T Consensus       126 ~~vlilDe~~~l~~~~~~~L~~~le~~~~~~~~Il~~~~~~~~~~-~L~sr~~~v~~~~~~~~~~~~~l~~~~~  198 (337)
T PRK12402        126 YKTILLDNAEALREDAQQALRRIMEQYSRTCRFIIATRQPSKLIP-PIRSRCLPLFFRAPTDDELVDVLESIAE  198 (337)
T ss_pred             CcEEEEeCcccCCHHHHHHHHHHHHhccCCCeEEEEeCChhhCch-hhcCCceEEEecCCCHHHHHHHHHHHHH
Confidence            457999998632  22222221110123356788777443 2221 1111224678889999888777766543

>PRK12422 chromosomal replication initiation protein; Provisional

Probab=92.97  E-value=0.17  Score=53.53  Aligned_cols=131  Identities=8%  Similarity=0.001  Sum_probs=69.3

Q ss_pred             eeeeeeeccCccchhHHHHHHHhhhccccccceEEEEeeeccHHHHHHHHhhhhcccccccccccccccccccccccccC
Q 011431          228 RSYRCWLLCPLFSELRVLTNDVHQLMDNYENSDVTLAKFEGEVKKLDQRLLRFLESVDKHVASYDRYGSASFEQPRPQTT  307 (486)
Q Consensus       228 ~vi~I~GmGgGvGKTTLa~~vy~~~~~~F~~~~~~~v~~~~~l~~lqk~ll~~L~~~d~~~~~~~~~g~~s~l~~~L~~t  307 (486)
                      .-+-|+|.. |+|||+|++++.+.+...  ...+..+.. .   .+...+...+..           +....++..+.. 
T Consensus       142 npl~L~G~~-G~GKTHLl~Ai~~~l~~~--~~~v~yi~~-~---~f~~~~~~~l~~-----------~~~~~f~~~~~~-  202 (445)
T PRK12422        142 NPIYLFGPE-GSGKTHLMQAAVHALRES--GGKILYVRS-E---LFTEHLVSAIRS-----------GEMQRFRQFYRN-  202 (445)
T ss_pred             ceEEEEcCC-CCCHHHHHHHHHHHHHHc--CCCEEEeeH-H---HHHHHHHHHHhc-----------chHHHHHHHccc-
Confidence            345689988 999999999999877532  111222221 1   122233333321           001123333333 


Q ss_pred             cceeeceecccCHH---H-HHH---HhcCCCCCCCCCEEEeeCCcc-----ccccc--cccCCCceEecCCCCCchhhhh
Q 011431          308 SAAHPYVEDVIDDA---Y-MED---ITDDSSPSLNLSRINSTSRFE-----QLWPE--TISATDTCTEDVTVDNSPSLNL  373 (486)
Q Consensus       308 Kr~LlVLDDVw~~~---~-~~~---l~~~~~~~~~GSrIIiTTR~~-----~V~~~--~~~~~~~~y~v~~L~~~es~~L  373 (486)
                       --+|++||+....   . .+.   +.+..  ...|-.||+||...     .+...  .......++++++++.++-..+
T Consensus       203 -~dvLiIDDiq~l~~k~~~qeelf~l~N~l--~~~~k~IIlts~~~p~~l~~l~~rL~SR~~~Gl~~~l~~pd~e~r~~i  279 (445)
T PRK12422        203 -VDALFIEDIEVFSGKGATQEEFFHTFNSL--HTEGKLIVISSTCAPQDLKAMEERLISRFEWGIAIPLHPLTKEGLRSF  279 (445)
T ss_pred             -CCEEEEcchhhhcCChhhHHHHHHHHHHH--HHCCCcEEEecCCCHHHHhhhHHHHHhhhcCCeEEecCCCCHHHHHHH
Confidence             3477889975321   1 111   21211  12366788888542     11110  1112235789999999999999


Q ss_pred             hcccCCC
Q 011431          374 SSCNSSS  380 (486)
Q Consensus       374 F~~~a~~  380 (486)
                      +.+++-.
T Consensus       280 L~~k~~~  286 (445)
T PRK12422        280 LERKAEA  286 (445)
T ss_pred             HHHHHHH
Confidence            8877654

>PRK14961 DNA polymerase III subunits gamma and tau; Provisional

Probab=92.95  E-value=0.61  Score=47.97  Aligned_cols=69  Identities=6%  Similarity=-0.103  Sum_probs=39.6

Q ss_pred             cceeeceecccCH--HHHHHHhcCCCCCCCCCEEEeeCCccc-cccccccCCCceEecCCCCCchhhhhhccc
Q 011431          308 SAAHPYVEDVIDD--AYMEDITDDSSPSLNLSRINSTSRFEQ-LWPETISATDTCTEDVTVDNSPSLNLSSCN  377 (486)
Q Consensus       308 Kr~LlVLDDVw~~--~~~~~l~~~~~~~~~GSrIIiTTR~~~-V~~~~~~~~~~~y~v~~L~~~es~~LF~~~  377 (486)
                      ++.++++|++..-  ..+..++...-+.....++|++|.+.+ +.. ........+++++|+.++-.......
T Consensus       119 ~~kviIIDEa~~l~~~a~naLLk~lEe~~~~~~fIl~t~~~~~l~~-tI~SRc~~~~~~~l~~~el~~~L~~~  190 (363)
T PRK14961        119 RFKVYLIDEVHMLSRHSFNALLKTLEEPPQHIKFILATTDVEKIPK-TILSRCLQFKLKIISEEKIFNFLKYI  190 (363)
T ss_pred             CceEEEEEChhhcCHHHHHHHHHHHhcCCCCeEEEEEcCChHhhhH-HHHhhceEEeCCCCCHHHHHHHHHHH
Confidence            4568999998743  345555532211233567777665433 321 11112357899999999877666543

>PRK00149 dnaA chromosomal replication initiation protein; Reviewed

Probab=92.70  E-value=0.14  Score=54.22  Aligned_cols=133  Identities=9%  Similarity=-0.008  Sum_probs=71.8

Q ss_pred             eeeeeeeccCccchhHHHHHHHhhhccccccceEEEEeeeccHHHHHHHHhhhhcccccccccccccccccccccccccC
Q 011431          228 RSYRCWLLCPLFSELRVLTNDVHQLMDNYENSDVTLAKFEGEVKKLDQRLLRFLESVDKHVASYDRYGSASFEQPRPQTT  307 (486)
Q Consensus       228 ~vi~I~GmGgGvGKTTLa~~vy~~~~~~F~~~~~~~v~~~~~l~~lqk~ll~~L~~~d~~~~~~~~~g~~s~l~~~L~~t  307 (486)
                      .-+-|+|-. |.|||+|++++.+.+..++....+..+... .   +...+...+.+.     .      ...+++.++. 
T Consensus       149 ~~l~l~G~~-G~GKThL~~ai~~~~~~~~~~~~v~yi~~~-~---~~~~~~~~~~~~-----~------~~~~~~~~~~-  211 (450)
T PRK00149        149 NPLFIYGGV-GLGKTHLLHAIGNYILEKNPNAKVVYVTSE-K---FTNDFVNALRNN-----T------MEEFKEKYRS-  211 (450)
T ss_pred             CeEEEECCC-CCCHHHHHHHHHHHHHHhCCCCeEEEEEHH-H---HHHHHHHHHHcC-----c------HHHHHHHHhc-
Confidence            445689999 999999999999987665433222332221 1   222333333210     0      0112223332 


Q ss_pred             cceeeceecccCH---HHH-HH---HhcCCCCCCCCCEEEeeCCcc--ccc---cc--cccCCCceEecCCCCCchhhhh
Q 011431          308 SAAHPYVEDVIDD---AYM-ED---ITDDSSPSLNLSRINSTSRFE--QLW---PE--TISATDTCTEDVTVDNSPSLNL  373 (486)
Q Consensus       308 Kr~LlVLDDVw~~---~~~-~~---l~~~~~~~~~GSrIIiTTR~~--~V~---~~--~~~~~~~~y~v~~L~~~es~~L  373 (486)
                       --+|++||+...   ..+ +.   +.+..  ...|..||+||...  ++.   ..  .......++++++++.++-..+
T Consensus       212 -~dlLiiDDi~~l~~~~~~~~~l~~~~n~l--~~~~~~iiits~~~p~~l~~l~~~l~SRl~~gl~v~i~~pd~~~r~~i  288 (450)
T PRK00149        212 -VDVLLIDDIQFLAGKERTQEEFFHTFNAL--HEAGKQIVLTSDRPPKELPGLEERLRSRFEWGLTVDIEPPDLETRIAI  288 (450)
T ss_pred             -CCEEEEehhhhhcCCHHHHHHHHHHHHHH--HHCCCcEEEECCCCHHHHHHHHHHHHhHhcCCeeEEecCCCHHHHHHH
Confidence             347889999531   111 12   22221  12355688887643  110   00  1112335789999999999999


Q ss_pred             hcccCCC
Q 011431          374 SSCNSSS  380 (486)
Q Consensus       374 F~~~a~~  380 (486)
                      +..++..
T Consensus       289 l~~~~~~  295 (450)
T PRK00149        289 LKKKAEE  295 (450)
T ss_pred             HHHHHHH
Confidence            9887753

>PRK09270 nucleoside triphosphate hydrolase domain-containing protein; Reviewed

Probab=92.63  E-value=0.16  Score=48.56  Aligned_cols=35  Identities=6%  Similarity=-0.282  Sum_probs=27.4

Q ss_pred             HHhhcCCCceeeeeeeccCccchhHHHHHHHhhhcc
Q 011431          219 SLLRNAEGYRSYRCWLLCPLFSELRVLTNDVHQLMD  254 (486)
Q Consensus       219 ~ll~~~~~~~vi~I~GmGgGvGKTTLa~~vy~~~~~  254 (486)
                      .+........++||.|.. |.|||||++.+...+..
T Consensus        25 ~~~~~~~~~~iigi~G~~-GsGKTTl~~~L~~~l~~   59 (229)
T PRK09270         25 ALQAEPQRRTIVGIAGPP-GAGKSTLAEFLEALLQQ   59 (229)
T ss_pred             HHHhcCCCCEEEEEECCC-CCCHHHHHHHHHHHhhh
Confidence            333445678899999999 99999999998776543

>PRK07667 uridine kinase; Provisional

Probab=92.57  E-value=0.15  Score=47.39  Aligned_cols=29  Identities=10%  Similarity=-0.142  Sum_probs=24.3

Q ss_pred             CCCceeeeeeeccCccchhHHHHHHHhhhc
Q 011431          224 AEGYRSYRCWLLCPLFSELRVLTNDVHQLM  253 (486)
Q Consensus       224 ~~~~~vi~I~GmGgGvGKTTLa~~vy~~~~  253 (486)
                      .....+|||-|.. |.||||+|+.+...+.
T Consensus        14 ~~~~~iIgI~G~~-gsGKStla~~L~~~l~   42 (193)
T PRK07667         14 KENRFILGIDGLS-RSGKTTFVANLKENMK   42 (193)
T ss_pred             CCCCEEEEEECCC-CCCHHHHHHHHHHHHH
Confidence            3455899999999 9999999999987654

>PRK14086 dnaA chromosomal replication initiation protein; Provisional

Probab=92.51  E-value=0.17  Score=55.06  Aligned_cols=133  Identities=11%  Similarity=-0.004  Sum_probs=73.3

Q ss_pred             eeeeeeeccCccchhHHHHHHHhhhccccccceEEEEeeeccHHHHHHHHhhhhcccccccccccccccccccccccccC
Q 011431          228 RSYRCWLLCPLFSELRVLTNDVHQLMDNYENSDVTLAKFEGEVKKLDQRLLRFLESVDKHVASYDRYGSASFEQPRPQTT  307 (486)
Q Consensus       228 ~vi~I~GmGgGvGKTTLa~~vy~~~~~~F~~~~~~~v~~~~~l~~lqk~ll~~L~~~d~~~~~~~~~g~~s~l~~~L~~t  307 (486)
                      .-+-|||-. |.|||-|++++.+.....+....+..+...    .+...+...+.+           +....+++.+.. 
T Consensus       315 NpL~LyG~s-GsGKTHLL~AIa~~a~~~~~g~~V~Yitae----ef~~el~~al~~-----------~~~~~f~~~y~~-  377 (617)
T PRK14086        315 NPLFIYGES-GLGKTHLLHAIGHYARRLYPGTRVRYVSSE----EFTNEFINSIRD-----------GKGDSFRRRYRE-  377 (617)
T ss_pred             CcEEEECCC-CCCHHHHHHHHHHHHHHhCCCCeEEEeeHH----HHHHHHHHHHHh-----------ccHHHHHHHhhc-
Confidence            346689988 999999999999987654433323333221    122223222221           000112223333 


Q ss_pred             cceeeceecccCH---HHHH----HHhcCCCCCCCCCEEEeeCCcc--c---cccc--cccCCCceEecCCCCCchhhhh
Q 011431          308 SAAHPYVEDVIDD---AYME----DITDDSSPSLNLSRINSTSRFE--Q---LWPE--TISATDTCTEDVTVDNSPSLNL  373 (486)
Q Consensus       308 Kr~LlVLDDVw~~---~~~~----~l~~~~~~~~~GSrIIiTTR~~--~---V~~~--~~~~~~~~y~v~~L~~~es~~L  373 (486)
                       --+|++||+...   ..|.    .+.+..  ...|..|||||+.-  +   +...  .......+++++.++.+.-..+
T Consensus       378 -~DLLlIDDIq~l~gke~tqeeLF~l~N~l--~e~gk~IIITSd~~P~eL~~l~~rL~SRf~~GLvv~I~~PD~EtR~aI  454 (617)
T PRK14086        378 -MDILLVDDIQFLEDKESTQEEFFHTFNTL--HNANKQIVLSSDRPPKQLVTLEDRLRNRFEWGLITDVQPPELETRIAI  454 (617)
T ss_pred             -CCEEEEehhccccCCHHHHHHHHHHHHHH--HhcCCCEEEecCCChHhhhhccHHHHhhhhcCceEEcCCCCHHHHHHH
Confidence             246888998632   2222    222221  23366788888752  1   1110  1122346899999999999999


Q ss_pred             hcccCCC
Q 011431          374 SSCNSSS  380 (486)
Q Consensus       374 F~~~a~~  380 (486)
                      +.++|..
T Consensus       455 L~kka~~  461 (617)
T PRK14086        455 LRKKAVQ  461 (617)
T ss_pred             HHHHHHh
Confidence            9888765

>PRK14087 dnaA chromosomal replication initiation protein; Provisional

Probab=92.38  E-value=0.12  Score=54.64  Aligned_cols=134  Identities=10%  Similarity=0.002  Sum_probs=71.5

Q ss_pred             eeeeeeccCccchhHHHHHHHhhhccccccceEEEEeeeccHHHHHHHHhhhhcccccccccccccccccccccccccCc
Q 011431          229 SYRCWLLCPLFSELRVLTNDVHQLMDNYENSDVTLAKFEGEVKKLDQRLLRFLESVDKHVASYDRYGSASFEQPRPQTTS  308 (486)
Q Consensus       229 vi~I~GmGgGvGKTTLa~~vy~~~~~~F~~~~~~~v~~~~~l~~lqk~ll~~L~~~d~~~~~~~~~g~~s~l~~~L~~tK  308 (486)
                      -+-|+|-. |.|||.|++++.+.+........+..+.. .   .+...+...+.....        .. ..+++.++.  
T Consensus       143 pl~i~G~~-G~GKTHLl~Ai~~~l~~~~~~~~v~yv~~-~---~f~~~~~~~l~~~~~--------~~-~~~~~~~~~--  206 (450)
T PRK14087        143 PLFIYGES-GMGKTHLLKAAKNYIESNFSDLKVSYMSG-D---EFARKAVDILQKTHK--------EI-EQFKNEICQ--  206 (450)
T ss_pred             ceEEECCC-CCcHHHHHHHHHHHHHHhCCCCeEEEEEH-H---HHHHHHHHHHHHhhh--------HH-HHHHHHhcc--
Confidence            35588988 99999999999987654332222233222 1   223333333321000        01 112223332  


Q ss_pred             ceeeceecccCH---HHH-HHH---hcCCCCCCCCCEEEeeCCccc-ccc---c---cccCCCceEecCCCCCchhhhhh
Q 011431          309 AAHPYVEDVIDD---AYM-EDI---TDDSSPSLNLSRINSTSRFEQ-LWP---E---TISATDTCTEDVTVDNSPSLNLS  374 (486)
Q Consensus       309 r~LlVLDDVw~~---~~~-~~l---~~~~~~~~~GSrIIiTTR~~~-V~~---~---~~~~~~~~y~v~~L~~~es~~LF  374 (486)
                      --+|++||+...   ..+ +.+   .+..  ...|..||+|+...- .+.   .   .......+.++++++.++-..++
T Consensus       207 ~dvLiIDDiq~l~~k~~~~e~lf~l~N~~--~~~~k~iIltsd~~P~~l~~l~~rL~SR~~~Gl~~~L~~pd~e~r~~iL  284 (450)
T PRK14087        207 NDVLIIDDVQFLSYKEKTNEIFFTIFNNF--IENDKQLFFSSDKSPELLNGFDNRLITRFNMGLSIAIQKLDNKTATAII  284 (450)
T ss_pred             CCEEEEeccccccCCHHHHHHHHHHHHHH--HHcCCcEEEECCCCHHHHhhccHHHHHHHhCCceeccCCcCHHHHHHHH
Confidence            347889998531   222 222   2322  234667888865321 110   0   01123457889999999999999


Q ss_pred             cccCCC
Q 011431          375 SCNSSS  380 (486)
Q Consensus       375 ~~~a~~  380 (486)
                      .+++-.
T Consensus       285 ~~~~~~  290 (450)
T PRK14087        285 KKEIKN  290 (450)
T ss_pred             HHHHHh
Confidence            887754

>PRK04195 replication factor C large subunit; Provisional

Probab=92.33  E-value=0.88  Score=48.70  Aligned_cols=25  Identities=0%  Similarity=-0.180  Sum_probs=21.8

Q ss_pred             ceeeeeeeccCccchhHHHHHHHhhh
Q 011431          227 YRSYRCWLLCPLFSELRVLTNDVHQL  252 (486)
Q Consensus       227 ~~vi~I~GmGgGvGKTTLa~~vy~~~  252 (486)
                      .+.+=++|.. |+||||+|+++.+.+
T Consensus        39 ~~~lLL~Gpp-G~GKTtla~ala~el   63 (482)
T PRK04195         39 KKALLLYGPP-GVGKTSLAHALANDY   63 (482)
T ss_pred             CCeEEEECCC-CCCHHHHHHHHHHHc
Confidence            5567789999 999999999998876

>PRK07261 topology modulation protein; Provisional

Probab=92.16  E-value=0.092  Score=47.92  Aligned_cols=23  Identities=0%  Similarity=-0.253  Sum_probs=19.7

Q ss_pred             eeeeeeccCccchhHHHHHHHhhh
Q 011431          229 SYRCWLLCPLFSELRVLTNDVHQL  252 (486)
Q Consensus       229 vi~I~GmGgGvGKTTLa~~vy~~~  252 (486)
                      .|.|+|++ |.||||||+.+-...
T Consensus         2 ri~i~G~~-GsGKSTla~~l~~~~   24 (171)
T PRK07261          2 KIAIIGYS-GSGKSTLARKLSQHY   24 (171)
T ss_pred             EEEEEcCC-CCCHHHHHHHHHHHh
Confidence            47899999 999999999986553

>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=92.04  E-value=0.11  Score=44.08  Aligned_cols=22  Identities=5%  Similarity=-0.194  Sum_probs=19.3

Q ss_pred             eeeeeccCccchhHHHHHHHhhh
Q 011431          230 YRCWLLCPLFSELRVLTNDVHQL  252 (486)
Q Consensus       230 i~I~GmGgGvGKTTLa~~vy~~~  252 (486)
                      |+|.|.. |.||||||+.+..++
T Consensus         1 I~i~G~~-GsGKtTia~~L~~~~   22 (129)
T PF13238_consen    1 IGISGIP-GSGKTTIAKELAERL   22 (129)
T ss_dssp             EEEEEST-TSSHHHHHHHHHHHH
T ss_pred             CEEECCC-CCCHHHHHHHHHHHH
Confidence            5788999 999999999997765

...

>TIGR02881 spore_V_K stage V sporulation protein K

Probab=92.03  E-value=0.27  Score=48.06  Aligned_cols=25  Identities=4%  Similarity=-0.456  Sum_probs=20.0

Q ss_pred             ceeeeeeeccCccchhHHHHHHHhhh
Q 011431          227 YRSYRCWLLCPLFSELRVLTNDVHQL  252 (486)
Q Consensus       227 ~~vi~I~GmGgGvGKTTLa~~vy~~~  252 (486)
                      ..-+-++|-. |.||||+|+.+.+.+
T Consensus        42 ~~~vll~Gpp-GtGKTtlA~~ia~~l   66 (261)
T TIGR02881        42 VLHMIFKGNP-GTGKTTVARILGKLF   66 (261)
T ss_pred             cceEEEEcCC-CCCHHHHHHHHHHHH
Confidence            3445578998 999999999997754

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.

>PRK06696 uridine kinase; Validated

Probab=91.99  E-value=0.21  Score=47.60  Aligned_cols=29  Identities=0%  Similarity=-0.254  Sum_probs=24.9

Q ss_pred             CCCceeeeeeeccCccchhHHHHHHHhhhc
Q 011431          224 AEGYRSYRCWLLCPLFSELRVLTNDVHQLM  253 (486)
Q Consensus       224 ~~~~~vi~I~GmGgGvGKTTLa~~vy~~~~  253 (486)
                      ..+..+|+|-|.+ |.||||||+.+-..+.
T Consensus        19 ~~~~~iI~I~G~s-gsGKSTlA~~L~~~l~   47 (223)
T PRK06696         19 LTRPLRVAIDGIT-ASGKTTFADELAEEIK   47 (223)
T ss_pred             CCCceEEEEECCC-CCCHHHHHHHHHHHHH
Confidence            4567899999999 9999999999977663

>PRK05480 uridine/cytidine kinase; Provisional

Probab=91.93  E-value=0.13  Score=48.36  Aligned_cols=27  Identities=7%  Similarity=-0.293  Sum_probs=23.8

Q ss_pred             CCceeeeeeeccCccchhHHHHHHHhhh
Q 011431          225 EGYRSYRCWLLCPLFSELRVLTNDVHQL  252 (486)
Q Consensus       225 ~~~~vi~I~GmGgGvGKTTLa~~vy~~~  252 (486)
                      ....+|+|.|.. |.|||||++.+...+
T Consensus         4 ~~~~iI~I~G~s-GsGKTTl~~~l~~~l   30 (209)
T PRK05480          4 KKPIIIGIAGGS-GSGKTTVASTIYEEL   30 (209)
T ss_pred             CCCEEEEEECCC-CCCHHHHHHHHHHHh
Confidence            356799999999 999999999998765

>TIGR00678 holB DNA polymerase III, delta' subunit

Probab=91.89  E-value=1.3  Score=40.82  Aligned_cols=69  Identities=10%  Similarity=-0.008  Sum_probs=39.3

Q ss_pred             cceeeceecccC--HHHHHHHhcCCCCCCCCCEEEeeCCcc-ccccccccCCCceEecCCCCCchhhhhhccc
Q 011431          308 SAAHPYVEDVID--DAYMEDITDDSSPSLNLSRINSTSRFE-QLWPETISATDTCTEDVTVDNSPSLNLSSCN  377 (486)
Q Consensus       308 Kr~LlVLDDVw~--~~~~~~l~~~~~~~~~GSrIIiTTR~~-~V~~~~~~~~~~~y~v~~L~~~es~~LF~~~  377 (486)
                      .+.++|+|++..  ....+.++...-+..+.+.+|++|++. .+... .......+++.+++.++..+....+
T Consensus        96 ~~kviiide~~~l~~~~~~~Ll~~le~~~~~~~~il~~~~~~~l~~~-i~sr~~~~~~~~~~~~~~~~~l~~~  167 (188)
T TIGR00678        96 GRRVVIIEDAERMNEAAANALLKTLEEPPPNTLFILITPSPEKLLPT-IRSRCQVLPFPPLSEEALLQWLIRQ  167 (188)
T ss_pred             CeEEEEEechhhhCHHHHHHHHHHhcCCCCCeEEEEEECChHhChHH-HHhhcEEeeCCCCCHHHHHHHHHHc
Confidence            456788998764  333444553211123456677766654 33211 1112357899999999887776654

At position 126-127 of the seed alignment, this family lacks the HM motif of gamma/tau; at 132 it has a near-invariant A vs. an invariant F in gamma/tau.

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

Probab=91.82  E-value=0.13  Score=47.82  Aligned_cols=25  Identities=4%  Similarity=-0.306  Sum_probs=22.0

Q ss_pred             eeeeeeccCccchhHHHHHHHhhhcc
Q 011431          229 SYRCWLLCPLFSELRVLTNDVHQLMD  254 (486)
Q Consensus       229 vi~I~GmGgGvGKTTLa~~vy~~~~~  254 (486)
                      +|||.|.+ |.||||+|+.+...+..
T Consensus         1 IIgI~G~s-gSGKTTla~~L~~~L~~   25 (194)
T PF00485_consen    1 IIGIAGPS-GSGKTTLAKRLAQILNK   25 (194)
T ss_dssp             EEEEEEST-TSSHHHHHHHHHHHHTT
T ss_pred             CEEEECCC-CCCHHHHHHHHHHHhCc
Confidence            68999999 99999999999877653

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 ....

>PRK12377 putative replication protein; Provisional

Probab=91.79  E-value=0.3  Score=47.39  Aligned_cols=27  Identities=4%  Similarity=-0.164  Sum_probs=22.3

Q ss_pred             eeeeeeeccCccchhHHHHHHHhhhccc
Q 011431          228 RSYRCWLLCPLFSELRVLTNDVHQLMDN  255 (486)
Q Consensus       228 ~vi~I~GmGgGvGKTTLa~~vy~~~~~~  255 (486)
                      .-+-++|-. |.|||.||.++.+.+..+
T Consensus       102 ~~l~l~G~~-GtGKThLa~AIa~~l~~~  128 (248)
T PRK12377        102 TNFVFSGKP-GTGKNHLAAAIGNRLLAK  128 (248)
T ss_pred             CeEEEECCC-CCCHHHHHHHHHHHHHHc
Confidence            456688888 999999999999987644

>PRK06645 DNA polymerase III subunits gamma and tau; Validated

Probab=91.76  E-value=0.97  Score=48.55  Aligned_cols=72  Identities=6%  Similarity=-0.051  Sum_probs=44.2

Q ss_pred             cceeeceecccC--HHHHHHHhcCCCCCCCCCEEE-eeCCccccccccccCCCceEecCCCCCchhhhhhcccCCC
Q 011431          308 SAAHPYVEDVID--DAYMEDITDDSSPSLNLSRIN-STSRFEQLWPETISATDTCTEDVTVDNSPSLNLSSCNSSS  380 (486)
Q Consensus       308 Kr~LlVLDDVw~--~~~~~~l~~~~~~~~~GSrII-iTTR~~~V~~~~~~~~~~~y~v~~L~~~es~~LF~~~a~~  380 (486)
                      ++.++++|+++.  ...+..++...-+....+++| .||+...+... .......+++++++.++....+...+..
T Consensus       128 ~~KVvIIDEa~~Ls~~a~naLLk~LEepp~~~vfI~aTte~~kI~~t-I~SRc~~~ef~~ls~~el~~~L~~i~~~  202 (507)
T PRK06645        128 KHKIFIIDEVHMLSKGAFNALLKTLEEPPPHIIFIFATTEVQKIPAT-IISRCQRYDLRRLSFEEIFKLLEYITKQ  202 (507)
T ss_pred             CcEEEEEEChhhcCHHHHHHHHHHHhhcCCCEEEEEEeCChHHhhHH-HHhcceEEEccCCCHHHHHHHHHHHHHH
Confidence            567899999985  445666663221122345554 45555555421 1112347899999999999888766543

>PRK10671 copA copper exporting ATPase; Provisional

Probab=91.73  E-value=0.36  Score=55.33  Aligned_cols=63  Identities=5%  Similarity=0.043  Sum_probs=54.3

Q ss_pred             eeeeeecc-ccccchhhHHHHHHHhhcCCCeeEEEeecCCCeEEEEeeccCHHHHHHHhhccc-ceeEEe
Q 011431          383 KEAIFKLE-IHHDNLEAWRAAFSIVSEFIGITKISFDFKVKKMTVVGDNFDVLSAGTKLNGLC-RTELVS  450 (486)
Q Consensus       383 ~~~v~kv~-~~~~~~~~~~~a~k~~~~~~Gv~~v~~d~~~~~~~V~G~~~d~~~~~~~l~k~~-~~~~~~  450 (486)
                      +++.++|. |+|..|.  ..+.+.+.+.+||.++.+|.+  +.+|.+. .++..+...+++.| .+++.+
T Consensus         3 ~~~~l~V~gmtC~~C~--~~i~~al~~~~gv~~v~v~~~--~~~v~~~-~~~~~i~~~i~~~Gy~~~~~~   67 (834)
T PRK10671          3 QTIDLTLDGLSCGHCV--KRVKESLEQRPDVEQADVSIT--EAHVTGT-ASAEALIETIKQAGYDASVSH   67 (834)
T ss_pred             eEEEEEECCcccHHHH--HHHHHHHhcCCCcceEEEeee--EEEEEec-CCHHHHHHHHHhcCCcccccc
Confidence            46677774 9999999  999999999999999999984  6677787 89999999999988 677765

>PRK03992 proteasome-activating nucleotidase; Provisional

Probab=91.68  E-value=0.42  Score=49.66  Aligned_cols=46  Identities=13%  Similarity=0.069  Sum_probs=31.7

Q ss_pred             CCCEEEeeCCcccccccccc---CCCceEecCCCCCchhhhhhcccCCC
Q 011431          335 NLSRINSTSRFEQLWPETIS---ATDTCTEDVTVDNSPSLNLSSCNSSS  380 (486)
Q Consensus       335 ~GSrIIiTTR~~~V~~~~~~---~~~~~y~v~~L~~~es~~LF~~~a~~  380 (486)
                      .+.+||.||...+.+.....   .-+..++++..+.++-.++|..++..
T Consensus       269 ~~v~VI~aTn~~~~ld~allRpgRfd~~I~v~~P~~~~R~~Il~~~~~~  317 (389)
T PRK03992        269 GNVKIIAATNRIDILDPAILRPGRFDRIIEVPLPDEEGRLEILKIHTRK  317 (389)
T ss_pred             CCEEEEEecCChhhCCHHHcCCccCceEEEECCCCHHHHHHHHHHHhcc
Confidence            35678888876554422111   23567899999999999999987654

>TIGR01425 SRP54_euk signal recognition particle protein SRP54

Probab=91.38  E-value=0.53  Score=49.30  Aligned_cols=25  Identities=8%  Similarity=-0.332  Sum_probs=20.5

Q ss_pred             CceeeeeeeccCccchhHHHHHHHhh
Q 011431          226 GYRSYRCWLLCPLFSELRVLTNDVHQ  251 (486)
Q Consensus       226 ~~~vi~I~GmGgGvGKTTLa~~vy~~  251 (486)
                      ...+|.++|.. |+||||++..+-..
T Consensus        99 ~~~vi~lvG~~-GvGKTTtaaKLA~~  123 (429)
T TIGR01425        99 KQNVIMFVGLQ-GSGKTTTCTKLAYY  123 (429)
T ss_pred             CCeEEEEECCC-CCCHHHHHHHHHHH
Confidence            36799999999 99999988776443

This model represents examples from the eukaryotic cytosol of the signal recognition particle protein component, SRP54. This GTP-binding protein is a component of the eukaryotic signal recognition particle, along with several other protein subunits and a 7S RNA. Some species, including Arabidopsis, have several closely related forms. The extreme C-terminal region is glycine-rich and lower in complexity, poorly conserved between species, and excluded from this model.

>PRK14949 DNA polymerase III subunits gamma and tau; Provisional

Probab=91.19  E-value=1.4  Score=50.13  Aligned_cols=70  Identities=4%  Similarity=-0.115  Sum_probs=41.4

Q ss_pred             cceeeceeccc--CHHHHHHHhcCCCCCCCCCEEEeeCCc-cccccccccCCCceEecCCCCCchhhhhhcccC
Q 011431          308 SAAHPYVEDVI--DDAYMEDITDDSSPSLNLSRINSTSRF-EQLWPETISATDTCTEDVTVDNSPSLNLSSCNS  378 (486)
Q Consensus       308 Kr~LlVLDDVw--~~~~~~~l~~~~~~~~~GSrIIiTTR~-~~V~~~~~~~~~~~y~v~~L~~~es~~LF~~~a  378 (486)
                      ++.++|+|++.  +......|+...-+.....++|++|.+ ..+.. ........|++++|+.++-...+.+.+
T Consensus       119 k~KViIIDEAh~LT~eAqNALLKtLEEPP~~vrFILaTTe~~kLl~-TIlSRCq~f~fkpLs~eEI~~~L~~il  191 (944)
T PRK14949        119 RFKVYLIDEVHMLSRSSFNALLKTLEEPPEHVKFLLATTDPQKLPV-TVLSRCLQFNLKSLTQDEIGTQLNHIL  191 (944)
T ss_pred             CcEEEEEechHhcCHHHHHHHHHHHhccCCCeEEEEECCCchhchH-HHHHhheEEeCCCCCHHHHHHHHHHHH
Confidence            67789999886  445566655322112234565555544 44431 111123579999999999887776543

>COG1373 Predicted ATPase (AAA+ superfamily) [General function prediction only]

Probab=91.10  E-value=0.81  Score=47.67  Aligned_cols=65  Identities=14%  Similarity=0.054  Sum_probs=47.3

Q ss_pred             cceeeceecccCHHHHHHHhcCCCCCCCCCEEEeeCCccccccccc----cCCCceEecCCCCCchhhhh
Q 011431          308 SAAHPYVEDVIDDAYMEDITDDSSPSLNLSRINSTSRFEQLWPETI----SATDTCTEDVTVDNSPSLNL  373 (486)
Q Consensus       308 Kr~LlVLDDVw~~~~~~~l~~~~~~~~~GSrIIiTTR~~~V~~~~~----~~~~~~y~v~~L~~~es~~L  373 (486)
                      ++..|+||-|-....|........+.++. +|+||+-+-.++....    .+-...+++-||+..|-..+
T Consensus        94 ~~~yifLDEIq~v~~W~~~lk~l~d~~~~-~v~itgsss~ll~~~~~~~L~GR~~~~~l~PlSF~Efl~~  162 (398)
T COG1373          94 EKSYIFLDEIQNVPDWERALKYLYDRGNL-DVLITGSSSSLLSKEISESLAGRGKDLELYPLSFREFLKL  162 (398)
T ss_pred             CCceEEEecccCchhHHHHHHHHHccccc-eEEEECCchhhhccchhhhcCCCceeEEECCCCHHHHHhh
Confidence            46899999999999998766444344555 8999998877764321    23345789999999998763

>PRK14951 DNA polymerase III subunits gamma and tau; Provisional

Probab=91.09  E-value=1.1  Score=49.26  Aligned_cols=70  Identities=4%  Similarity=-0.105  Sum_probs=39.3

Q ss_pred             cceeeceecccC--HHHHHHHhcCCCCCCCCCEEEe-eCCccccccccccCCCceEecCCCCCchhhhhhcccC
Q 011431          308 SAAHPYVEDVID--DAYMEDITDDSSPSLNLSRINS-TSRFEQLWPETISATDTCTEDVTVDNSPSLNLSSCNS  378 (486)
Q Consensus       308 Kr~LlVLDDVw~--~~~~~~l~~~~~~~~~GSrIIi-TTR~~~V~~~~~~~~~~~y~v~~L~~~es~~LF~~~a  378 (486)
                      +..++++|++..  ......++...-+--...++|+ ||....++.. .......|+++.|+.++-...+.+.+
T Consensus       124 ~~KV~IIDEvh~Ls~~a~NaLLKtLEEPP~~~~fIL~Ttd~~kil~T-IlSRc~~~~f~~Ls~eei~~~L~~i~  196 (618)
T PRK14951        124 RFKVFMIDEVHMLTNTAFNAMLKTLEEPPEYLKFVLATTDPQKVPVT-VLSRCLQFNLRPMAPETVLEHLTQVL  196 (618)
T ss_pred             CceEEEEEChhhCCHHHHHHHHHhcccCCCCeEEEEEECCchhhhHH-HHHhceeeecCCCCHHHHHHHHHHHH
Confidence            566889999883  4455555532211123445554 4444444421 11123578999999988776665543

>PRK08233 hypothetical protein; Provisional

Probab=91.08  E-value=0.16  Score=46.26  Aligned_cols=25  Identities=8%  Similarity=-0.093  Sum_probs=21.8

Q ss_pred             ceeeeeeeccCccchhHHHHHHHhhh
Q 011431          227 YRSYRCWLLCPLFSELRVLTNDVHQL  252 (486)
Q Consensus       227 ~~vi~I~GmGgGvGKTTLa~~vy~~~  252 (486)
                      ..+|+|-|.. |.||||||+.+...+
T Consensus         3 ~~iI~I~G~~-GsGKtTla~~L~~~l   27 (182)
T PRK08233          3 TKIITIAAVS-GGGKTTLTERLTHKL   27 (182)
T ss_pred             ceEEEEECCC-CCCHHHHHHHHHhhC
Confidence            4688999999 999999999997765

>TIGR03689 pup_AAA proteasome ATPase

Probab=90.83  E-value=0.57  Score=50.19  Aligned_cols=45  Identities=13%  Similarity=0.019  Sum_probs=30.5

Q ss_pred             CCCEEEeeCCccccccccc---cCCCceEecCCCCCchhhhhhcccCC
Q 011431          335 NLSRINSTSRFEQLWPETI---SATDTCTEDVTVDNSPSLNLSSCNSS  379 (486)
Q Consensus       335 ~GSrIIiTTR~~~V~~~~~---~~~~~~y~v~~L~~~es~~LF~~~a~  379 (486)
                      .+..||.||-..+.+....   ..-+..++++..+.++..++|..+..
T Consensus       332 ~~ViVI~ATN~~d~LDpALlRpGRfD~~I~~~~Pd~e~r~~Il~~~l~  379 (512)
T TIGR03689       332 DNVIVIGASNREDMIDPAILRPGRLDVKIRIERPDAEAAADIFSKYLT  379 (512)
T ss_pred             CceEEEeccCChhhCCHhhcCccccceEEEeCCCCHHHHHHHHHHHhh
Confidence            3556677775555542211   12356789999999999999988754

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.

>PRK12323 DNA polymerase III subunits gamma and tau; Provisional

Probab=90.77  E-value=1.2  Score=48.83  Aligned_cols=70  Identities=4%  Similarity=-0.095  Sum_probs=40.9

Q ss_pred             cceeeceecccC--HHHHHHHhcCCCCCCCCCE-EEeeCCccccccccccCCCceEecCCCCCchhhhhhcccC
Q 011431          308 SAAHPYVEDVID--DAYMEDITDDSSPSLNLSR-INSTSRFEQLWPETISATDTCTEDVTVDNSPSLNLSSCNS  378 (486)
Q Consensus       308 Kr~LlVLDDVw~--~~~~~~l~~~~~~~~~GSr-IIiTTR~~~V~~~~~~~~~~~y~v~~L~~~es~~LF~~~a  378 (486)
                      +..++|+|++..  ....+.|+...-+-....+ |++||....|+.. ...-...|+++.|+.++..+.+.+.+
T Consensus       124 r~KViIIDEah~Ls~~AaNALLKTLEEPP~~v~FILaTtep~kLlpT-IrSRCq~f~f~~ls~eei~~~L~~Il  196 (700)
T PRK12323        124 RFKVYMIDEVHMLTNHAFNAMLKTLEEPPEHVKFILATTDPQKIPVT-VLSRCLQFNLKQMPPGHIVSHLDAIL  196 (700)
T ss_pred             CceEEEEEChHhcCHHHHHHHHHhhccCCCCceEEEEeCChHhhhhH-HHHHHHhcccCCCChHHHHHHHHHHH
Confidence            567899999873  4556666632211123444 5566655556421 11112468999999998877766443

>PRK06921 hypothetical protein; Provisional

Probab=90.71  E-value=0.24  Score=48.64  Aligned_cols=27  Identities=19%  Similarity=0.041  Sum_probs=22.0

Q ss_pred             eeeeeeeccCccchhHHHHHHHhhhccc
Q 011431          228 RSYRCWLLCPLFSELRVLTNDVHQLMDN  255 (486)
Q Consensus       228 ~vi~I~GmGgGvGKTTLa~~vy~~~~~~  255 (486)
                      .-+-++|-. |.|||.||.++.+.+..+
T Consensus       118 ~~l~l~G~~-G~GKThLa~aia~~l~~~  144 (266)
T PRK06921        118 NSIALLGQP-GSGKTHLLTAAANELMRK  144 (266)
T ss_pred             CeEEEECCC-CCcHHHHHHHHHHHHhhh
Confidence            446688888 999999999998877544

>PRK00440 rfc replication factor C small subunit; Reviewed

Probab=90.64  E-value=2  Score=42.84  Aligned_cols=132  Identities=3%  Similarity=-0.040  Sum_probs=63.4

Q ss_pred             ceeeeeeeccCccchhHHHHHHHhhhccc-cccceEEEEee--eccHHHHHHHHhhhhcccccccccccccccccccccc
Q 011431          227 YRSYRCWLLCPLFSELRVLTNDVHQLMDN-YENSDVTLAKF--EGEVKKLDQRLLRFLESVDKHVASYDRYGSASFEQPR  303 (486)
Q Consensus       227 ~~vi~I~GmGgGvGKTTLa~~vy~~~~~~-F~~~~~~~v~~--~~~l~~lqk~ll~~L~~~d~~~~~~~~~g~~s~l~~~  303 (486)
                      ...+-++|-. |.||||+++.+.+.+... +... +.....  ......++..+.. +..      .    .+      .
T Consensus        38 ~~~~ll~G~~-G~GKt~~~~~l~~~l~~~~~~~~-~i~~~~~~~~~~~~~~~~i~~-~~~------~----~~------~   98 (319)
T PRK00440         38 MPHLLFAGPP-GTGKTTAALALARELYGEDWREN-FLELNASDERGIDVIRNKIKE-FAR------T----AP------V   98 (319)
T ss_pred             CCeEEEECCC-CCCHHHHHHHHHHHHcCCccccc-eEEeccccccchHHHHHHHHH-HHh------c----CC------C
Confidence            3345689999 999999999998876432 2111 111110  1111111211111 110      0    00      0


Q ss_pred             cccCcceeeceecccC--HHHHHHHhcCCCCCCCCCEEEeeCCc-cccccccccCCCceEecCCCCCchhhhhhcccCC
Q 011431          304 PQTTSAAHPYVEDVID--DAYMEDITDDSSPSLNLSRINSTSRF-EQLWPETISATDTCTEDVTVDNSPSLNLSSCNSS  379 (486)
Q Consensus       304 L~~tKr~LlVLDDVw~--~~~~~~l~~~~~~~~~GSrIIiTTR~-~~V~~~~~~~~~~~y~v~~L~~~es~~LF~~~a~  379 (486)
                      -.. .+.+|++|++..  ......+....-.....+++|+|+.. ..+... .......+++++++.++........+.
T Consensus        99 ~~~-~~~vviiDe~~~l~~~~~~~L~~~le~~~~~~~lIl~~~~~~~l~~~-l~sr~~~~~~~~l~~~ei~~~l~~~~~  175 (319)
T PRK00440         99 GGA-PFKIIFLDEADNLTSDAQQALRRTMEMYSQNTRFILSCNYSSKIIDP-IQSRCAVFRFSPLKKEAVAERLRYIAE  175 (319)
T ss_pred             CCC-CceEEEEeCcccCCHHHHHHHHHHHhcCCCCCeEEEEeCCccccchh-HHHHhheeeeCCCCHHHHHHHHHHHHH
Confidence            001 345788898753  22233333111012234677776643 223211 011123678999999888777766554

>TIGR00235 udk uridine kinase

Probab=90.43  E-value=0.2  Score=47.10  Aligned_cols=27  Identities=11%  Similarity=-0.372  Sum_probs=22.9

Q ss_pred             CceeeeeeeccCccchhHHHHHHHhhhc
Q 011431          226 GYRSYRCWLLCPLFSELRVLTNDVHQLM  253 (486)
Q Consensus       226 ~~~vi~I~GmGgGvGKTTLa~~vy~~~~  253 (486)
                      .-.+|+|.|.. |.|||||++.+...+.
T Consensus         5 ~g~vi~I~G~s-GsGKSTl~~~l~~~l~   31 (207)
T TIGR00235         5 KGIIIGIGGGS-GSGKTTVARKIYEQLG   31 (207)
T ss_pred             CeEEEEEECCC-CCCHHHHHHHHHHHhc
Confidence            34689999999 9999999999977543

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

>COG0572 Udk Uridine kinase [Nucleotide transport and metabolism]

Probab=90.29  E-value=0.24  Score=46.81  Aligned_cols=30  Identities=13%  Similarity=-0.276  Sum_probs=25.5

Q ss_pred             CCceeeeeeeccCccchhHHHHHHHhhhccc
Q 011431          225 EGYRSYRCWLLCPLFSELRVLTNDVHQLMDN  255 (486)
Q Consensus       225 ~~~~vi~I~GmGgGvGKTTLa~~vy~~~~~~  255 (486)
                      +.+.+|||-|-+ |-||||+|+.+++.+..+
T Consensus         6 ~~~iiIgIaG~S-gSGKTTva~~l~~~~~~~   35 (218)
T COG0572           6 EKVIIIGIAGGS-GSGKTTVAKELSEQLGVE   35 (218)
T ss_pred             CceEEEEEeCCC-CCCHHHHHHHHHHHhCcC
Confidence            356789999998 999999999999887644

>cd01858 NGP_1 NGP-1

Probab=90.25  E-value=2.2  Score=37.93  Aligned_cols=22  Identities=5%  Similarity=-0.229  Sum_probs=19.1

Q ss_pred             eeeeeeeccCccchhHHHHHHHh
Q 011431          228 RSYRCWLLCPLFSELRVLTNDVH  250 (486)
Q Consensus       228 ~vi~I~GmGgGvGKTTLa~~vy~  250 (486)
                      ..++++|+. |+||+||...+..
T Consensus       103 ~~v~~~G~~-nvGKStliN~l~~  124 (157)
T cd01858         103 ISVGFIGYP-NVGKSSIINTLRS  124 (157)
T ss_pred             eEEEEEeCC-CCChHHHHHHHhc
Confidence            457799999 9999999998865

Autoantigen NGP-1 (Nucleolar G-protein gene 1) has been shown to localize in the nucleolus and nucleolar organizers in all cell types analyzed, which is indicative of a function in ribosomal assembly. NGP-1 and its homologs show a circular permutation of the GTPase signature motifs so that the C-terminal strands 5, 6, and 7 (strand 6 contains the G4 box with NKXD motif) are relocated to the N terminus.

>PRK14957 DNA polymerase III subunits gamma and tau; Provisional

Probab=89.93  E-value=1.9  Score=46.77  Aligned_cols=67  Identities=4%  Similarity=-0.006  Sum_probs=35.3

Q ss_pred             cceeeceeccc--CHHHHHHHhcCCCCCCCCCEEE-eeCCccccccccccCCCceEecCCCCCchhhhhhc
Q 011431          308 SAAHPYVEDVI--DDAYMEDITDDSSPSLNLSRIN-STSRFEQLWPETISATDTCTEDVTVDNSPSLNLSS  375 (486)
Q Consensus       308 Kr~LlVLDDVw--~~~~~~~l~~~~~~~~~GSrII-iTTR~~~V~~~~~~~~~~~y~v~~L~~~es~~LF~  375 (486)
                      ++.++++|++.  +......++...-+....+++| +||....++.. ......++++++|+.++-...+.
T Consensus       119 ~~kViIIDEa~~ls~~a~naLLK~LEepp~~v~fIL~Ttd~~kil~t-I~SRc~~~~f~~Ls~~eI~~~L~  188 (546)
T PRK14957        119 RYKVYLIDEVHMLSKQSFNALLKTLEEPPEYVKFILATTDYHKIPVT-ILSRCIQLHLKHISQADIKDQLK  188 (546)
T ss_pred             CcEEEEEechhhccHHHHHHHHHHHhcCCCCceEEEEECChhhhhhh-HHHheeeEEeCCCCHHHHHHHHH
Confidence            56689999986  3444555553221112355555 45544444311 11123568888888777554444

>PRK14962 DNA polymerase III subunits gamma and tau; Provisional

Probab=89.81  E-value=1.8  Score=46.23  Aligned_cols=69  Identities=9%  Similarity=-0.034  Sum_probs=37.3

Q ss_pred             cceeeceecccCH--HHHHHHhcCCCCCCC-CCEEEe-eCCccccccccccCCCceEecCCCCCchhhhhhcccC
Q 011431          308 SAAHPYVEDVIDD--AYMEDITDDSSPSLN-LSRINS-TSRFEQLWPETISATDTCTEDVTVDNSPSLNLSSCNS  378 (486)
Q Consensus       308 Kr~LlVLDDVw~~--~~~~~l~~~~~~~~~-GSrIIi-TTR~~~V~~~~~~~~~~~y~v~~L~~~es~~LF~~~a  378 (486)
                      ++.+|++|++..-  .....++... +..+ ...+|+ ||....+... ......++++++|+.++-...+...+
T Consensus       117 ~~kVvIIDE~h~Lt~~a~~~LLk~L-E~p~~~vv~Ilattn~~kl~~~-L~SR~~vv~f~~l~~~el~~~L~~i~  189 (472)
T PRK14962        117 KYKVYIIDEVHMLTKEAFNALLKTL-EEPPSHVVFVLATTNLEKVPPT-IISRCQVIEFRNISDELIIKRLQEVA  189 (472)
T ss_pred             CeEEEEEEChHHhHHHHHHHHHHHH-HhCCCcEEEEEEeCChHhhhHH-HhcCcEEEEECCccHHHHHHHHHHHH
Confidence            4668899998642  3344444322 1222 344444 4433344211 11123578999999998777766544

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

Probab=89.73  E-value=0.36  Score=43.82  Aligned_cols=41  Identities=12%  Similarity=0.061  Sum_probs=25.2

Q ss_pred             HHHHHHHh--hcCCCceeeeeeeccCccchhHHHHHHHhhhccc
Q 011431          214 LDEVLSLL--RNAEGYRSYRCWLLCPLFSELRVLTNDVHQLMDN  255 (486)
Q Consensus       214 l~~v~~ll--~~~~~~~vi~I~GmGgGvGKTTLa~~vy~~~~~~  255 (486)
                      ++.+...+  ......+.+-|.|.. |+|||+|++.++.++...
T Consensus         9 ~~~l~~~l~~~~~~~~~~~ll~G~~-G~GKT~ll~~~~~~~~~~   51 (185)
T PF13191_consen    9 IERLRDLLDAAQSGSPRNLLLTGES-GSGKTSLLRALLDRLAER   51 (185)
T ss_dssp             HHHHHHTTGGTSS-----EEE-B-T-TSSHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCCcEEEEECCC-CCCHHHHHHHHHHHHHhc
Confidence            34444544  223455778899999 999999999998877665

>PTZ00301 uridine kinase; Provisional

Probab=89.65  E-value=0.37  Score=45.61  Aligned_cols=29  Identities=17%  Similarity=-0.059  Sum_probs=23.5

Q ss_pred             ceeeeeeeccCccchhHHHHHHHhhhcccc
Q 011431          227 YRSYRCWLLCPLFSELRVLTNDVHQLMDNY  256 (486)
Q Consensus       227 ~~vi~I~GmGgGvGKTTLa~~vy~~~~~~F  256 (486)
                      ..+|||-|-. |-||||||+.+.+++...+
T Consensus         3 ~~iIgIaG~S-gSGKTTla~~l~~~l~~~~   31 (210)
T PTZ00301          3 CTVIGISGAS-GSGKSSLSTNIVSELMAHC   31 (210)
T ss_pred             CEEEEEECCC-cCCHHHHHHHHHHHHHhhc
Confidence            3688999998 9999999999877764433

>TIGR00064 ftsY signal recognition particle-docking protein FtsY

Probab=89.30  E-value=1.1  Score=44.23  Aligned_cols=27  Identities=4%  Similarity=-0.144  Sum_probs=21.9

Q ss_pred             CCceeeeeeeccCccchhHHHHHHHhhh
Q 011431          225 EGYRSYRCWLLCPLFSELRVLTNDVHQL  252 (486)
Q Consensus       225 ~~~~vi~I~GmGgGvGKTTLa~~vy~~~  252 (486)
                      ...+++.++|.+ |.||||++.++-..+
T Consensus        70 ~~~~vi~l~G~~-G~GKTTt~akLA~~l   96 (272)
T TIGR00064        70 NKPNVILFVGVN-GVGKTTTIAKLANKL   96 (272)
T ss_pred             CCCeEEEEECCC-CCcHHHHHHHHHHHH
Confidence            456899999999 999999887775544

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.

>PRK10416 signal recognition particle-docking protein FtsY; Provisional

Probab=89.24  E-value=1.7  Score=43.91  Aligned_cols=27  Identities=4%  Similarity=-0.217  Sum_probs=22.6

Q ss_pred             CceeeeeeeccCccchhHHHHHHHhhhc
Q 011431          226 GYRSYRCWLLCPLFSELRVLTNDVHQLM  253 (486)
Q Consensus       226 ~~~vi~I~GmGgGvGKTTLa~~vy~~~~  253 (486)
                      +..+++++|.. |.||||++.++-..+.
T Consensus       113 ~~~vi~lvGpn-GsGKTTt~~kLA~~l~  139 (318)
T PRK10416        113 KPFVILVVGVN-GVGKTTTIGKLAHKYK  139 (318)
T ss_pred             CCeEEEEECCC-CCcHHHHHHHHHHHHH
Confidence            46899999999 9999999988866544

>PRK06835 DNA replication protein DnaC; Validated

Probab=89.22  E-value=0.6  Score=47.29  Aligned_cols=26  Identities=8%  Similarity=-0.081  Sum_probs=21.6

Q ss_pred             eeeeeeeccCccchhHHHHHHHhhhcc
Q 011431          228 RSYRCWLLCPLFSELRVLTNDVHQLMD  254 (486)
Q Consensus       228 ~vi~I~GmGgGvGKTTLa~~vy~~~~~  254 (486)
                      .-+-++|-. |.|||.||.++-+.+..
T Consensus       184 ~~Lll~G~~-GtGKThLa~aIa~~l~~  209 (329)
T PRK06835        184 ENLLFYGNT-GTGKTFLSNCIAKELLD  209 (329)
T ss_pred             CcEEEECCC-CCcHHHHHHHHHHHHHH
Confidence            456789988 99999999999887644

>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=89.03  E-value=0.45  Score=42.76  Aligned_cols=30  Identities=7%  Similarity=-0.109  Sum_probs=24.9

Q ss_pred             ceeeeeeeccCccchhHHHHHHHhhhccc-cc
Q 011431          227 YRSYRCWLLCPLFSELRVLTNDVHQLMDN-YE  257 (486)
Q Consensus       227 ~~vi~I~GmGgGvGKTTLa~~vy~~~~~~-F~  257 (486)
                      ..-|+|-||. |+||||+++.+-+.+... |.
T Consensus         5 ~mki~ITG~P-GvGKtTl~~ki~e~L~~~g~k   35 (179)
T COG1618           5 AMKIFITGRP-GVGKTTLVLKIAEKLREKGYK   35 (179)
T ss_pred             ceEEEEeCCC-CccHHHHHHHHHHHHHhcCce
Confidence            3457899999 999999999998887765 44

>PRK06762 hypothetical protein; Provisional

Probab=88.38  E-value=0.36  Score=43.40  Aligned_cols=24  Identities=4%  Similarity=-0.266  Sum_probs=21.1

Q ss_pred             eeeeeeeccCccchhHHHHHHHhhh
Q 011431          228 RSYRCWLLCPLFSELRVLTNDVHQL  252 (486)
Q Consensus       228 ~vi~I~GmGgGvGKTTLa~~vy~~~  252 (486)
                      ++|.|.|+. |.||||+|+.+.+.+
T Consensus         3 ~li~i~G~~-GsGKST~A~~L~~~l   26 (166)
T PRK06762          3 TLIIIRGNS-GSGKTTIAKQLQERL   26 (166)
T ss_pred             eEEEEECCC-CCCHHHHHHHHHHHh
Confidence            578899999 999999999997765

>PRK14970 DNA polymerase III subunits gamma and tau; Provisional

Probab=88.11  E-value=3.2  Score=42.59  Aligned_cols=70  Identities=6%  Similarity=-0.083  Sum_probs=37.1

Q ss_pred             cceeeceecccC--HHHHHHHhcCCCCCCCCCEEEeeC-CccccccccccCCCceEecCCCCCchhhhhhcccC
Q 011431          308 SAAHPYVEDVID--DAYMEDITDDSSPSLNLSRINSTS-RFEQLWPETISATDTCTEDVTVDNSPSLNLSSCNS  378 (486)
Q Consensus       308 Kr~LlVLDDVw~--~~~~~~l~~~~~~~~~GSrIIiTT-R~~~V~~~~~~~~~~~y~v~~L~~~es~~LF~~~a  378 (486)
                      ++.+|++|++..  ...+..++...-+......+|++| +...+... ......+++.++++.++-...+...|
T Consensus       108 ~~kiviIDE~~~l~~~~~~~ll~~le~~~~~~~~Il~~~~~~kl~~~-l~sr~~~v~~~~~~~~~l~~~l~~~~  180 (367)
T PRK14970        108 KYKIYIIDEVHMLSSAAFNAFLKTLEEPPAHAIFILATTEKHKIIPT-ILSRCQIFDFKRITIKDIKEHLAGIA  180 (367)
T ss_pred             CcEEEEEeChhhcCHHHHHHHHHHHhCCCCceEEEEEeCCcccCCHH-HHhcceeEecCCccHHHHHHHHHHHH
Confidence            345788998753  333444442110112345555544 44444321 11123478999999888877776544

>TIGR02880 cbbX_cfxQ probable Rubsico expression protein CbbX

Probab=87.98  E-value=0.61  Score=46.25  Aligned_cols=24  Identities=4%  Similarity=-0.082  Sum_probs=19.3

Q ss_pred             CceEecCCCCCchhhhhhcccCCC
Q 011431          357 DTCTEDVTVDNSPSLNLSSCNSSS  380 (486)
Q Consensus       357 ~~~y~v~~L~~~es~~LF~~~a~~  380 (486)
                      ...+++++|+.+|-..||...+-.
T Consensus       187 ~~~i~fp~l~~edl~~I~~~~l~~  210 (284)
T TIGR02880       187 AHHVDFPDYSEAELLVIAGLMLKE  210 (284)
T ss_pred             CcEEEeCCcCHHHHHHHHHHHHHH
Confidence            346899999999999998876543

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.

>PF13271 DUF4062: Domain of unknown function (DUF4062)

Probab=87.97  E-value=1.4  Score=35.01  Aligned_cols=67  Identities=18%  Similarity=0.269  Sum_probs=50.7

Q ss_pred             ceEEecccCccCcChHHHHHHHHhcCCCeEEEeCCc-CCCCCchHHHHHHHhhccceEEEeecccccCh
Q 011431           23 DVFVTFSGEDIRENFGSYLFAALFRESVKTFRDEQI-RRGDEIMPALLQAIEESKISLVIFSKRFAFSR   90 (486)
Q Consensus        23 dVFis~~~~D~~~~f~~~L~~~L~~~gi~~~~d~~~-~~g~~i~~~i~~~I~~s~~~ivv~S~~y~~S~   90 (486)
                      .||||-.-.|.. .--..|.+++.+.|..+..-+.+ ..+....+.+.+.|++|++.|.++-.+|-..+
T Consensus         1 rVFiSSt~~Dl~-~eR~~l~~~i~~~~~~~~~~e~~~a~~~~~~~~cl~~v~~cDifI~ilG~rYG~~~   68 (83)
T PF13271_consen    1 RVFISSTFRDLK-EERDALIEAIRRLGCEPVGMEFFPASDQSPLEICLKEVDECDIFILILGNRYGSVP   68 (83)
T ss_pred             CEEEecChhhHH-HHHHHHHHHHHHCCCeeeeeeeecCCCCCHHHHHHHHHhhCCEEEEeeccccCCCC
Confidence            489998878863 45568888888888765443312 33666777999999999999999999997643

>PTZ00112 origin recognition complex 1 protein; Provisional

Probab=87.73  E-value=1.8  Score=49.07  Aligned_cols=27  Identities=4%  Similarity=-0.188  Sum_probs=22.6

Q ss_pred             CceeeeeeeccCccchhHHHHHHHhhhc
Q 011431          226 GYRSYRCWLLCPLFSELRVLTNDVHQLM  253 (486)
Q Consensus       226 ~~~vi~I~GmGgGvGKTTLa~~vy~~~~  253 (486)
                      .-.++-|+|.. |.|||+.++.|.+++.
T Consensus       780 pnnvLYIyG~P-GTGKTATVK~VLrELq  806 (1164)
T PTZ00112        780 SNQILYISGMP-GTGKTATVYSVIQLLQ  806 (1164)
T ss_pred             CCceEEEECCC-CCCHHHHHHHHHHHHH
Confidence            33566799999 9999999999988764

>PRK05541 adenylylsulfate kinase; Provisional

Probab=87.51  E-value=0.51  Score=42.97  Aligned_cols=30  Identities=10%  Similarity=-0.161  Sum_probs=24.9

Q ss_pred             ceeeeeeeccCccchhHHHHHHHhhhccccc
Q 011431          227 YRSYRCWLLCPLFSELRVLTNDVHQLMDNYE  257 (486)
Q Consensus       227 ~~vi~I~GmGgGvGKTTLa~~vy~~~~~~F~  257 (486)
                      ..+|.+.|+- |.||||+|+.+++.+...+.
T Consensus         7 ~~~I~i~G~~-GsGKst~a~~l~~~l~~~~~   36 (176)
T PRK05541          7 GYVIWITGLA-GSGKTTIAKALYERLKLKYS   36 (176)
T ss_pred             CCEEEEEcCC-CCCHHHHHHHHHHHHHHcCC
Confidence            3478899999 99999999999988765543

>cd02023 UMPK Uridine monophosphate kinase (UMPK, EC 2

Probab=87.45  E-value=0.38  Score=44.70  Aligned_cols=23  Identities=13%  Similarity=-0.208  Sum_probs=20.0

Q ss_pred             eeeeeeccCccchhHHHHHHHhhh
Q 011431          229 SYRCWLLCPLFSELRVLTNDVHQL  252 (486)
Q Consensus       229 vi~I~GmGgGvGKTTLa~~vy~~~  252 (486)
                      +|||.|.. |.|||||++.+.+.+
T Consensus         1 iigi~G~~-GsGKSTl~~~l~~~l   23 (198)
T cd02023           1 IIGIAGGS-GSGKTTVAEEIIEQL   23 (198)
T ss_pred             CEEEECCC-CCCHHHHHHHHHHHh
Confidence            57899999 999999999987654

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.

>PRK03839 putative kinase; Provisional

Probab=87.43  E-value=0.44  Score=43.53  Aligned_cols=24  Identities=8%  Similarity=-0.327  Sum_probs=20.6

Q ss_pred             eeeeeeccCccchhHHHHHHHhhhc
Q 011431          229 SYRCWLLCPLFSELRVLTNDVHQLM  253 (486)
Q Consensus       229 vi~I~GmGgGvGKTTLa~~vy~~~~  253 (486)
                      .|-|.||. |.||||+++.+.+++.
T Consensus         2 ~I~l~G~p-GsGKsT~~~~La~~~~   25 (180)
T PRK03839          2 IIAITGTP-GVGKTTVSKLLAEKLG   25 (180)
T ss_pred             EEEEECCC-CCCHHHHHHHHHHHhC
Confidence            36789999 9999999999988764

>cd02024 NRK1 Nicotinamide riboside kinase (NRK) is an enzyme involved in the metabolism of nicotinamide adenine dinucleotide (NAD+)

Probab=87.16  E-value=0.4  Score=44.43  Aligned_cols=23  Identities=4%  Similarity=-0.318  Sum_probs=20.2

Q ss_pred             eeeeeeccCccchhHHHHHHHhhh
Q 011431          229 SYRCWLLCPLFSELRVLTNDVHQL  252 (486)
Q Consensus       229 vi~I~GmGgGvGKTTLa~~vy~~~  252 (486)
                      +|+|.|.. |.||||||+.+...+
T Consensus         1 ii~i~G~s-gsGKTtla~~l~~~~   23 (187)
T cd02024           1 IVGISGVT-NSGKTTLAKLLQRIL   23 (187)
T ss_pred             CEEEECCC-CCCHHHHHHHHHHHc
Confidence            57888988 999999999998765

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.

>cd01857 HSR1_MMR1 HSR1/MMR1

Probab=87.03  E-value=4.2  Score=35.46  Aligned_cols=51  Identities=18%  Similarity=0.118  Sum_probs=31.7

Q ss_pred             HHHHHHHhhccceEEEeecccccChhhHHHHHHHHHHhcCCCEEEEEEeeec
Q 011431           66 PALLQAIEESKISLVIFSKRFAFSRWCLEELVKIIECNKLYQTVIPVFYKVL  117 (486)
Q Consensus        66 ~~i~~~I~~s~~~ivv~S~~y~~S~wcl~El~~i~~~~~~~~~v~Pify~v~  117 (486)
                      .++.++|+++++.++|++-+...+.+.. ++...+.....+..++.|+=+.+
T Consensus         3 ~~~~~~i~~aD~vl~ViD~~~p~~~~~~-~l~~~l~~~~~~k~~iivlNK~D   53 (141)
T cd01857           3 RQLWRVVERSDIVVQIVDARNPLLFRPP-DLERYVKEVDPRKKNILLLNKAD   53 (141)
T ss_pred             HHHHHHHhhCCEEEEEEEccCCcccCCH-HHHHHHHhccCCCcEEEEEechh
Confidence            3678899999999999997666555532 44444443112445555554444

Human HSR1, is localized to the human MHC class I region and is highly homologous to a putative GTP-binding protein, MMR1 from mouse. These proteins represent a new subfamily of GTP-binding proteins that has only eukaryote members. This subfamily shows a circular permutation of the GTPase signature motifs so that the C-terminal strands 5, 6, and 7 (strand 6 contains the G4 box with sequence NKXD) are relocated to the N terminus.

>PRK06547 hypothetical protein; Provisional

Probab=86.89  E-value=0.58  Score=42.74  Aligned_cols=27  Identities=4%  Similarity=-0.290  Sum_probs=23.4

Q ss_pred             CCceeeeeeeccCccchhHHHHHHHhhh
Q 011431          225 EGYRSYRCWLLCPLFSELRVLTNDVHQL  252 (486)
Q Consensus       225 ~~~~vi~I~GmGgGvGKTTLa~~vy~~~  252 (486)
                      ....+|+|.|.. |.||||+|+.+-+..
T Consensus        13 ~~~~~i~i~G~~-GsGKTt~a~~l~~~~   39 (172)
T PRK06547         13 GGMITVLIDGRS-GSGKTTLAGALAART   39 (172)
T ss_pred             CCCEEEEEECCC-CCCHHHHHHHHHHHh
Confidence            467889999999 999999999997654

>PRK04040 adenylate kinase; Provisional

Probab=86.83  E-value=0.51  Score=43.76  Aligned_cols=25  Identities=12%  Similarity=0.001  Sum_probs=21.8

Q ss_pred             eeeeeeeccCccchhHHHHHHHhhhc
Q 011431          228 RSYRCWLLCPLFSELRVLTNDVHQLM  253 (486)
Q Consensus       228 ~vi~I~GmGgGvGKTTLa~~vy~~~~  253 (486)
                      ++|.|.|+. |.||||+++.+.+.+.
T Consensus         3 ~~i~v~G~p-G~GKtt~~~~l~~~l~   27 (188)
T PRK04040          3 KVVVVTGVP-GVGKTTVLNKALEKLK   27 (188)
T ss_pred             eEEEEEeCC-CCCHHHHHHHHHHHhc
Confidence            578899999 9999999999977763

>PRK14960 DNA polymerase III subunits gamma and tau; Provisional

Probab=86.83  E-value=3.5  Score=45.52  Aligned_cols=70  Identities=6%  Similarity=-0.157  Sum_probs=39.8

Q ss_pred             cceeeceecccC--HHHHHHHhcCCCCCCCCCEEEeeCCccc-cccccccCCCceEecCCCCCchhhhhhcccC
Q 011431          308 SAAHPYVEDVID--DAYMEDITDDSSPSLNLSRINSTSRFEQ-LWPETISATDTCTEDVTVDNSPSLNLSSCNS  378 (486)
Q Consensus       308 Kr~LlVLDDVw~--~~~~~~l~~~~~~~~~GSrIIiTTR~~~-V~~~~~~~~~~~y~v~~L~~~es~~LF~~~a  378 (486)
                      +..++++|++..  ......++...-+...+.++|+||.+.. +.. ........+++++|+.++-...+.+.+
T Consensus       118 k~KV~IIDEVh~LS~~A~NALLKtLEEPP~~v~FILaTtd~~kIp~-TIlSRCq~feFkpLs~eEI~k~L~~Il  190 (702)
T PRK14960        118 RFKVYLIDEVHMLSTHSFNALLKTLEEPPEHVKFLFATTDPQKLPI-TVISRCLQFTLRPLAVDEITKHLGAIL  190 (702)
T ss_pred             CcEEEEEechHhcCHHHHHHHHHHHhcCCCCcEEEEEECChHhhhH-HHHHhhheeeccCCCHHHHHHHHHHHH
Confidence            567888999874  3344445421111124567777775533 221 111123578999999988777665443

>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=86.68  E-value=0.4  Score=46.19  Aligned_cols=27  Identities=4%  Similarity=-0.093  Sum_probs=22.9

Q ss_pred             eeeeeccCccchhHHHHHHHhhhccccc
Q 011431          230 YRCWLLCPLFSELRVLTNDVHQLMDNYE  257 (486)
Q Consensus       230 i~I~GmGgGvGKTTLa~~vy~~~~~~F~  257 (486)
                      +.|+|.. |-|||||+..+...+...|.
T Consensus        16 ~viIG~s-GSGKT~li~~lL~~~~~~f~   42 (241)
T PF04665_consen   16 MVIIGKS-GSGKTTLIKSLLYYLRHKFD   42 (241)
T ss_pred             EEEECCC-CCCHHHHHHHHHHhhcccCC
Confidence            3488888 99999999999988877773

This is thought to be an ATPase involved in viral DNA packaging [].

>PRK07994 DNA polymerase III subunits gamma and tau; Validated

Probab=86.68  E-value=3.8  Score=45.27  Aligned_cols=69  Identities=9%  Similarity=-0.089  Sum_probs=39.1

Q ss_pred             cceeeceeccc--CHHHHHHHhcCCCCCCCCCEEEe-eCCccccccccccCCCceEecCCCCCchhhhhhccc
Q 011431          308 SAAHPYVEDVI--DDAYMEDITDDSSPSLNLSRINS-TSRFEQLWPETISATDTCTEDVTVDNSPSLNLSSCN  377 (486)
Q Consensus       308 Kr~LlVLDDVw--~~~~~~~l~~~~~~~~~GSrIIi-TTR~~~V~~~~~~~~~~~y~v~~L~~~es~~LF~~~  377 (486)
                      ++..+++|++.  +......|+...-+.....++|+ ||....++. ....-...|+++.|+.++....+.+.
T Consensus       119 ~~KV~IIDEah~Ls~~a~NALLKtLEEPp~~v~FIL~Tt~~~kLl~-TI~SRC~~~~f~~Ls~~ei~~~L~~i  190 (647)
T PRK07994        119 RFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKLPV-TILSRCLQFHLKALDVEQIRQQLEHI  190 (647)
T ss_pred             CCEEEEEechHhCCHHHHHHHHHHHHcCCCCeEEEEecCCccccch-HHHhhheEeeCCCCCHHHHHHHHHHH
Confidence            56788999987  44455555521101123445444 554444541 11112357899999998887766543

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

Probab=86.64  E-value=0.49  Score=41.70  Aligned_cols=26  Identities=4%  Similarity=-0.123  Sum_probs=22.4

Q ss_pred             eeeeeeeccCccchhHHHHHHHhhhcc
Q 011431          228 RSYRCWLLCPLFSELRVLTNDVHQLMD  254 (486)
Q Consensus       228 ~vi~I~GmGgGvGKTTLa~~vy~~~~~  254 (486)
                      .+|+|+|-- |.|||||++.+.+.+..
T Consensus         1 pvv~VvG~~-~sGKTTl~~~Li~~l~~   26 (140)
T PF03205_consen    1 PVVQVVGPK-NSGKTTLIRKLINELKR   26 (140)
T ss_dssp             -EEEEEEST-TSSHHHHHHHHHHHHHH
T ss_pred             CEEEEECCC-CCCHHHHHHHHHHHHhH
Confidence            378999999 99999999999988754

>cd02042 ParA ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation

Probab=86.50  E-value=0.48  Score=38.91  Aligned_cols=24  Identities=8%  Similarity=-0.238  Sum_probs=18.6

Q ss_pred             eeeeeeccCccchhHHHHHHHhhh
Q 011431          229 SYRCWLLCPLFSELRVLTNDVHQL  252 (486)
Q Consensus       229 vi~I~GmGgGvGKTTLa~~vy~~~  252 (486)
                      +|++.|..||+||||++..+-..+
T Consensus         1 ~i~~~~~kgG~Gkst~~~~la~~~   24 (104)
T cd02042           1 VIAVANQKGGVGKTTTAVNLAAAL   24 (104)
T ss_pred             CEEEEeCCCCcCHHHHHHHHHHHH
Confidence            467888777999999998775543

ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the initiation of DNA replication. ParB regulates the ParA ATPase activity by promoting nucleotide exchange in a fashion reminiscent of the exchange factors of eukaryotic G proteins. ADP-bound ParA binds single-stranded DNA, whereas the ATP-bound form dissociates ParB from its DNA binding sites. Increasing the fraction of ParA-ADP in the cell inhibits cell division, suggesting that this simple nucleotide switch may regulate cytokinesis. ParA shares sequence similarity to a conserved and widespread family of ATPases which includes the repA protein of the repABC operon in R. etli Sym plasmid. This operon is involved in the plasmid replication and partition.

>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=86.48  E-value=0.45  Score=45.35  Aligned_cols=24  Identities=4%  Similarity=-0.349  Sum_probs=20.8

Q ss_pred             eeeeeeccCccchhHHHHHHHhhhc
Q 011431          229 SYRCWLLCPLFSELRVLTNDVHQLM  253 (486)
Q Consensus       229 vi~I~GmGgGvGKTTLa~~vy~~~~  253 (486)
                      +|||.|-. |-||||||+.+...+.
T Consensus         1 IigI~G~s-GSGKTTla~~L~~~l~   24 (220)
T cd02025           1 IIGIAGSV-AVGKSTTARVLQALLS   24 (220)
T ss_pred             CEEeeCCC-CCCHHHHHHHHHHHHh
Confidence            57899998 9999999999987664

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

>CHL00181 cbbX CbbX; Provisional

Probab=86.47  E-value=0.98  Score=44.89  Aligned_cols=46  Identities=4%  Similarity=-0.119  Sum_probs=28.1

Q ss_pred             CCCEEEeeCCcccccc---cc---ccCCCceEecCCCCCchhhhhhcccCCC
Q 011431          335 NLSRINSTSRFEQLWP---ET---ISATDTCTEDVTVDNSPSLNLSSCNSSS  380 (486)
Q Consensus       335 ~GSrIIiTTR~~~V~~---~~---~~~~~~~y~v~~L~~~es~~LF~~~a~~  380 (486)
                      ..-+||++|-...+..   ..   .......++.++++.+|-.+++...+..
T Consensus       160 ~~~~vI~ag~~~~~~~~~~~np~L~sR~~~~i~F~~~t~~el~~I~~~~l~~  211 (287)
T CHL00181        160 DDLVVIFAGYKDRMDKFYESNPGLSSRIANHVDFPDYTPEELLQIAKIMLEE  211 (287)
T ss_pred             CCEEEEEeCCcHHHHHHHhcCHHHHHhCCceEEcCCcCHHHHHHHHHHHHHH
Confidence            3457777775433210   00   0012457889999999999998776543

>PRK07940 DNA polymerase III subunit delta'; Validated

Probab=86.46  E-value=4.4  Score=42.17  Aligned_cols=69  Identities=9%  Similarity=-0.078  Sum_probs=39.2

Q ss_pred             cceeeceecccC--HHHHHHHhcCCCCCCCCCEEEeeCCcc-ccccccccCCCceEecCCCCCchhhhhhccc
Q 011431          308 SAAHPYVEDVID--DAYMEDITDDSSPSLNLSRINSTSRFE-QLWPETISATDTCTEDVTVDNSPSLNLSSCN  377 (486)
Q Consensus       308 Kr~LlVLDDVw~--~~~~~~l~~~~~~~~~GSrIIiTTR~~-~V~~~~~~~~~~~y~v~~L~~~es~~LF~~~  377 (486)
                      ++..+++|++..  ......++...-+...+..+|++|.+. .++. ....-...+.+++++.++..+.+...
T Consensus       117 ~~kViiIDead~m~~~aanaLLk~LEep~~~~~fIL~a~~~~~llp-TIrSRc~~i~f~~~~~~~i~~~L~~~  188 (394)
T PRK07940        117 RWRIVVIEDADRLTERAANALLKAVEEPPPRTVWLLCAPSPEDVLP-TIRSRCRHVALRTPSVEAVAEVLVRR  188 (394)
T ss_pred             CcEEEEEechhhcCHHHHHHHHHHhhcCCCCCeEEEEECChHHChH-HHHhhCeEEECCCCCHHHHHHHHHHh
Confidence            455777798873  334444442111123456666655554 4442 11112357899999999998888643

>COG1428 Deoxynucleoside kinases [Nucleotide transport and metabolism]

Probab=86.43  E-value=0.52  Score=44.22  Aligned_cols=26  Identities=4%  Similarity=-0.312  Sum_probs=22.3

Q ss_pred             ceeeeeeeccCccchhHHHHHHHhhhc
Q 011431          227 YRSYRCWLLCPLFSELRVLTNDVHQLM  253 (486)
Q Consensus       227 ~~vi~I~GmGgGvGKTTLa~~vy~~~~  253 (486)
                      ..+|.|=||- |.||||||+.+-+++.
T Consensus         4 ~~~IvI~G~I-G~GKSTLa~~La~~l~   29 (216)
T COG1428           4 AMVIVIEGMI-GAGKSTLAQALAEHLG   29 (216)
T ss_pred             ccEEEEeccc-ccCHHHHHHHHHHHhC
Confidence            3578889999 9999999999987765

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

Probab=86.10  E-value=2.6  Score=42.84  Aligned_cols=130  Identities=5%  Similarity=-0.009  Sum_probs=71.1

Q ss_pred             HHhhcCCCceeeeeeeccCccchhHHHHHHHhhhccccccceEEEEeee---ccHHHHHHHHhhhhcccccccccccccc
Q 011431          219 SLLRNAEGYRSYRCWLLCPLFSELRVLTNDVHQLMDNYENSDVTLAKFE---GEVKKLDQRLLRFLESVDKHVASYDRYG  295 (486)
Q Consensus       219 ~ll~~~~~~~vi~I~GmGgGvGKTTLa~~vy~~~~~~F~~~~~~~v~~~---~~l~~lqk~ll~~L~~~d~~~~~~~~~g  295 (486)
                      +++++ +....+-.||-. |.||||||+.+-+.-+.+-    .+.+..+   -+...+ +.++.+-.+         .  
T Consensus       155 s~ieq-~~ipSmIlWGpp-G~GKTtlArlia~tsk~~S----yrfvelSAt~a~t~dv-R~ife~aq~---------~--  216 (554)
T KOG2028|consen  155 SLIEQ-NRIPSMILWGPP-GTGKTTLARLIASTSKKHS----YRFVELSATNAKTNDV-RDIFEQAQN---------E--  216 (554)
T ss_pred             HHHHc-CCCCceEEecCC-CCchHHHHHHHHhhcCCCc----eEEEEEeccccchHHH-HHHHHHHHH---------H--
Confidence            34444 455556689999 9999999999976543321    1222222   222222 222221111         0  


Q ss_pred             cccccccccccCcceeeceeccc--CHHHHHHHhcCCCCCCCCCEEEe--eCCcccc-ccccccCCCceEecCCCCCchh
Q 011431          296 SASFEQPRPQTTSAAHPYVEDVI--DDAYMEDITDDSSPSLNLSRINS--TSRFEQL-WPETISATDTCTEDVTVDNSPS  370 (486)
Q Consensus       296 ~~s~l~~~L~~tKr~LlVLDDVw--~~~~~~~l~~~~~~~~~GSrIIi--TTR~~~V-~~~~~~~~~~~y~v~~L~~~es  370 (486)
                      .      .+-. ||..|.+|.|-  |..|-+.++.   .-.+|+-++|  ||-|-.. +.........++-++.|+.++-
T Consensus       217 ~------~l~k-rkTilFiDEiHRFNksQQD~fLP---~VE~G~I~lIGATTENPSFqln~aLlSRC~VfvLekL~~n~v  286 (554)
T KOG2028|consen  217 K------SLTK-RKTILFIDEIHRFNKSQQDTFLP---HVENGDITLIGATTENPSFQLNAALLSRCRVFVLEKLPVNAV  286 (554)
T ss_pred             H------hhhc-ceeEEEeHHhhhhhhhhhhcccc---eeccCceEEEecccCCCccchhHHHHhccceeEeccCCHHHH
Confidence            0      1122 67788888875  3444444443   2345776666  6665443 1111112335788999999887


Q ss_pred             hhhhcc
Q 011431          371 LNLSSC  376 (486)
Q Consensus       371 ~~LF~~  376 (486)
                      -.++.+
T Consensus       287 ~~iL~r  292 (554)
T KOG2028|consen  287 VTILMR  292 (554)
T ss_pred             HHHHHH
Confidence            777765

>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=86.03  E-value=0.8  Score=43.59  Aligned_cols=32  Identities=9%  Similarity=-0.030  Sum_probs=23.0

Q ss_pred             CCceeeeeeeccCccchhHHHHHHHhhhccccc
Q 011431          225 EGYRSYRCWLLCPLFSELRVLTNDVHQLMDNYE  257 (486)
Q Consensus       225 ~~~~vi~I~GmGgGvGKTTLa~~vy~~~~~~F~  257 (486)
                      +.+..+=.||.. |+||||||+.+-+....+|.
T Consensus        48 ~~l~h~lf~GPP-G~GKTTLA~IIA~e~~~~~~   79 (233)
T PF05496_consen   48 EALDHMLFYGPP-GLGKTTLARIIANELGVNFK   79 (233)
T ss_dssp             S---EEEEESST-TSSHHHHHHHHHHHCT--EE
T ss_pred             CCcceEEEECCC-ccchhHHHHHHHhccCCCeE
Confidence            345566689999 99999999999888776664

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.

>PRK07764 DNA polymerase III subunits gamma and tau; Validated

Probab=86.02  E-value=3.6  Score=46.88  Aligned_cols=68  Identities=4%  Similarity=-0.129  Sum_probs=37.4

Q ss_pred             cceeeceeccc--CHHHHHHHhcCCCCCCCCCEEEe-eCCccccccccccCCCceEecCCCCCchhhhhhcc
Q 011431          308 SAAHPYVEDVI--DDAYMEDITDDSSPSLNLSRINS-TSRFEQLWPETISATDTCTEDVTVDNSPSLNLSSC  376 (486)
Q Consensus       308 Kr~LlVLDDVw--~~~~~~~l~~~~~~~~~GSrIIi-TTR~~~V~~~~~~~~~~~y~v~~L~~~es~~LF~~  376 (486)
                      +..++|+|++.  +....+.|+...-+-...+.+|+ ||....|+.. ......+|+++.|+.++-..++.+
T Consensus       120 ~~KV~IIDEad~lt~~a~NaLLK~LEEpP~~~~fIl~tt~~~kLl~T-IrSRc~~v~F~~l~~~~l~~~L~~  190 (824)
T PRK07764        120 RYKIFIIDEAHMVTPQGFNALLKIVEEPPEHLKFIFATTEPDKVIGT-IRSRTHHYPFRLVPPEVMRGYLER  190 (824)
T ss_pred             CceEEEEechhhcCHHHHHHHHHHHhCCCCCeEEEEEeCChhhhhHH-HHhheeEEEeeCCCHHHHHHHHHH
Confidence            55677899877  34445555532211223555554 4444445421 111235789999988877666554

>PRK00771 signal recognition particle protein Srp54; Provisional

Probab=85.93  E-value=2.3  Score=44.81  Aligned_cols=27  Identities=4%  Similarity=-0.266  Sum_probs=22.3

Q ss_pred             CceeeeeeeccCccchhHHHHHHHhhhc
Q 011431          226 GYRSYRCWLLCPLFSELRVLTNDVHQLM  253 (486)
Q Consensus       226 ~~~vi~I~GmGgGvGKTTLa~~vy~~~~  253 (486)
                      ...+|-++|.. |.||||.+..+-..+.
T Consensus        94 ~p~vI~lvG~~-GsGKTTtaakLA~~L~  120 (437)
T PRK00771         94 KPQTIMLVGLQ-GSGKTTTAAKLARYFK  120 (437)
T ss_pred             CCeEEEEECCC-CCcHHHHHHHHHHHHH
Confidence            46788899999 9999999988866554

>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A

Probab=85.91  E-value=1.9  Score=40.26  Aligned_cols=129  Identities=9%  Similarity=-0.032  Sum_probs=61.0

Q ss_pred             eeeeeeeccCccchhHHHHHHHhhhccccccceEEEEeee-ccHHHHHHHHhhhhccccccccccccccccccccccccc
Q 011431          228 RSYRCWLLCPLFSELRVLTNDVHQLMDNYENSDVTLAKFE-GEVKKLDQRLLRFLESVDKHVASYDRYGSASFEQPRPQT  306 (486)
Q Consensus       228 ~vi~I~GmGgGvGKTTLa~~vy~~~~~~F~~~~~~~v~~~-~~l~~lqk~ll~~L~~~d~~~~~~~~~g~~s~l~~~L~~  306 (486)
                      ++..|.|.. |.||||+++.+...+...  ...+...... .....|.++.-..-..+......... .. ..-+..+ .
T Consensus        19 ~~~~l~G~a-GtGKT~~l~~~~~~~~~~--g~~v~~~apT~~Aa~~L~~~~~~~a~Ti~~~l~~~~~-~~-~~~~~~~-~   92 (196)
T PF13604_consen   19 RVSVLQGPA-GTGKTTLLKALAEALEAA--GKRVIGLAPTNKAAKELREKTGIEAQTIHSFLYRIPN-GD-DEGRPEL-P   92 (196)
T ss_dssp             SEEEEEEST-TSTHHHHHHHHHHHHHHT--T--EEEEESSHHHHHHHHHHHTS-EEEHHHHTTEECC-EE-CCSSCC--T
T ss_pred             eEEEEEECC-CCCHHHHHHHHHHHHHhC--CCeEEEECCcHHHHHHHHHhhCcchhhHHHHHhcCCc-cc-ccccccC-C
Confidence            456688999 999999999987655443  1222333322 33333444432110000000000000 00 0000001 2


Q ss_pred             Ccceeeceeccc--CHHHHHHHhcCCCCCCCCCEEEeeCCccccccccccCCCceEecCCCCCchhhhhhcccCC
Q 011431          307 TSAAHPYVEDVI--DDAYMEDITDDSSPSLNLSRINSTSRFEQLWPETISATDTCTEDVTVDNSPSLNLSSCNSS  379 (486)
Q Consensus       307 tKr~LlVLDDVw--~~~~~~~l~~~~~~~~~GSrIIiTTR~~~V~~~~~~~~~~~y~v~~L~~~es~~LF~~~a~  379 (486)
                       +.-+||+|...  +...+..++...  ...|+|+|+.-=              .+++++...-..+.++.....
T Consensus        93 -~~~vliVDEasmv~~~~~~~ll~~~--~~~~~klilvGD--------------~~QL~pV~~g~~~~~l~~~~~  150 (196)
T PF13604_consen   93 -KKDVLIVDEASMVDSRQLARLLRLA--KKSGAKLILVGD--------------PNQLPPVGAGSPFADLQESGG  150 (196)
T ss_dssp             -STSEEEESSGGG-BHHHHHHHHHHS---T-T-EEEEEE---------------TTSHHHCSTTCHHHHHCGCST
T ss_pred             -cccEEEEecccccCHHHHHHHHHHH--HhcCCEEEEECC--------------cchhcCCcCCcHHHHHHhcCC
Confidence             45689999977  455666666432  125888886432              334555555555666555444

>PRK00131 aroK shikimate kinase; Reviewed

Probab=85.69  E-value=0.69  Score=41.54  Aligned_cols=25  Identities=4%  Similarity=-0.297  Sum_probs=21.4

Q ss_pred             eeeeeeeccCccchhHHHHHHHhhhc
Q 011431          228 RSYRCWLLCPLFSELRVLTNDVHQLM  253 (486)
Q Consensus       228 ~vi~I~GmGgGvGKTTLa~~vy~~~~  253 (486)
                      ..|-+.|+. |.||||+|+.+-..+.
T Consensus         5 ~~i~l~G~~-GsGKstla~~La~~l~   29 (175)
T PRK00131          5 PNIVLIGFM-GAGKSTIGRLLAKRLG   29 (175)
T ss_pred             CeEEEEcCC-CCCHHHHHHHHHHHhC
Confidence            467799999 9999999999977763

>PRK12608 transcription termination factor Rho; Provisional

Probab=85.65  E-value=1  Score=46.18  Aligned_cols=86  Identities=8%  Similarity=-0.048  Sum_probs=46.2

Q ss_pred             eeeeeccCccchhHHHHHHHhhhccccccceEEEEeee---ccHHHHHHHHhhhhccc--cccccc-cc----ccccccc
Q 011431          230 YRCWLLCPLFSELRVLTNDVHQLMDNYENSDVTLAKFE---GEVKKLDQRLLRFLESV--DKHVAS-YD----RYGSASF  299 (486)
Q Consensus       230 i~I~GmGgGvGKTTLa~~vy~~~~~~F~~~~~~~v~~~---~~l~~lqk~ll~~L~~~--d~~~~~-~~----~~g~~s~  299 (486)
                      +.|+|-. |.|||||++.+.+.+..+.....+.++.+.   .....+.+.++..+...  |..... ..    -...+..
T Consensus       136 ~LIvG~p-GtGKTTLl~~la~~i~~~~~dv~~vv~lIgER~~EV~df~~~i~~~Vvast~de~~~~~~~v~~~~~~~Ae~  214 (380)
T PRK12608        136 GLIVAPP-RAGKTVLLQQIAAAVAANHPEVHLMVLLIDERPEEVTDMRRSVKGEVYASTFDRPPDEHIRVAELVLERAKR  214 (380)
T ss_pred             EEEECCC-CCCHHHHHHHHHHHHHhcCCCceEEEEEecCCCCCHHHHHHHHhhhEEeecCCCCHHHHHHHHHHHHHHHHH
Confidence            4689888 999999999988877554322222343443   33445556655444321  010000 00    0011122


Q ss_pred             cccccccCcceeeceecccC
Q 011431          300 EQPRPQTTSAAHPYVEDVID  319 (486)
Q Consensus       300 l~~~L~~tKr~LlVLDDVw~  319 (486)
                      +++  .+ ++++||+|++-.
T Consensus       215 f~~--~G-kdVVLvlDsltr  231 (380)
T PRK12608        215 LVE--QG-KDVVILLDSLTR  231 (380)
T ss_pred             HHH--cC-CCEEEEEeCcHH
Confidence            221  24 899999999864

>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=85.59  E-value=1.6  Score=45.28  Aligned_cols=26  Identities=8%  Similarity=-0.106  Sum_probs=21.8

Q ss_pred             CceeeeeeeccCccchhHHHHHHHhhh
Q 011431          226 GYRSYRCWLLCPLFSELRVLTNDVHQL  252 (486)
Q Consensus       226 ~~~vi~I~GmGgGvGKTTLa~~vy~~~  252 (486)
                      +.++|+++|-+ |+||||++..+-..+
T Consensus       240 ~~~vI~LVGpt-GvGKTTTiaKLA~~L  265 (436)
T PRK11889        240 EVQTIALIGPT-GVGKTTTLAKMAWQF  265 (436)
T ss_pred             CCcEEEEECCC-CCcHHHHHHHHHHHH
Confidence            45789999999 999999998886544

>TIGR03596 GTPase_YlqF ribosome biogenesis GTP-binding protein YlqF

Probab=85.57  E-value=10  Score=37.32  Aligned_cols=26  Identities=8%  Similarity=0.226  Sum_probs=20.9

Q ss_pred             HHHHHHhhccceEEEeecccccChhh
Q 011431           67 ALLQAIEESKISLVIFSKRFAFSRWC   92 (486)
Q Consensus        67 ~i~~~I~~s~~~ivv~S~~y~~S~wc   92 (486)
                      .+.++++++.+.|.|+.-+...+..+
T Consensus        14 ~~~~~l~~aDvVl~V~Dar~p~~~~~   39 (276)
T TIGR03596        14 EIKEKLKLVDVVIEVLDARIPLSSRN   39 (276)
T ss_pred             HHHHHHhhCCEEEEEEeCCCCCCCCC
Confidence            77889999999999998776555555

Members of this protein family are GTP-binding proteins involved in ribosome biogenesis, including the essential YlqF protein of Bacillus subtilis, which is an essential protein. They are related to Era, EngA, and other GTPases of ribosome biogenesis, but are circularly permuted. This family is not universal, and is not present in Escherichia coli, and so is not as well studied as some other GTPases. This model is built for bacterial members.

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

Probab=85.52  E-value=1.1  Score=47.03  Aligned_cols=38  Identities=11%  Similarity=-0.101  Sum_probs=26.2

Q ss_pred             eeeeeeccCccchhHHHHHHHhhhccccccceEEEEeee
Q 011431          229 SYRCWLLCPLFSELRVLTNDVHQLMDNYENSDVTLAKFE  267 (486)
Q Consensus       229 vi~I~GmGgGvGKTTLa~~vy~~~~~~F~~~~~~~v~~~  267 (486)
                      .|-+.|+. |.||||+|+.+.+.+........+.++.+.
T Consensus       196 ~iil~Gpp-GtGKT~lA~~la~~l~~~~~~~~v~~VtFH  233 (459)
T PRK11331        196 NIILQGPP-GVGKTFVARRLAYLLTGEKAPQRVNMVQFH  233 (459)
T ss_pred             CEEEECCC-CCCHHHHHHHHHHHhcCCcccceeeEEeec
Confidence            45579999 999999999998877554332223444443

>COG1763 MobB Molybdopterin-guanine dinucleotide biosynthesis protein [Coenzyme metabolism]

Probab=85.27  E-value=0.64  Score=41.97  Aligned_cols=28  Identities=7%  Similarity=-0.086  Sum_probs=23.9

Q ss_pred             ceeeeeeeccCccchhHHHHHHHhhhccc
Q 011431          227 YRSYRCWLLCPLFSELRVLTNDVHQLMDN  255 (486)
Q Consensus       227 ~~vi~I~GmGgGvGKTTLa~~vy~~~~~~  255 (486)
                      .+++||+|.- +.|||||+..+-..++.+
T Consensus         2 ~~Il~ivG~k-~SGKTTLie~lv~~L~~~   29 (161)
T COG1763           2 MKILGIVGYK-NSGKTTLIEKLVRKLKAR   29 (161)
T ss_pred             CcEEEEEecC-CCChhhHHHHHHHHHHhC
Confidence            4689999999 999999999997776554

>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=85.23  E-value=0.59  Score=42.92  Aligned_cols=24  Identities=8%  Similarity=-0.281  Sum_probs=20.5

Q ss_pred             eeeeeeccCccchhHHHHHHHhhhc
Q 011431          229 SYRCWLLCPLFSELRVLTNDVHQLM  253 (486)
Q Consensus       229 vi~I~GmGgGvGKTTLa~~vy~~~~  253 (486)
                      +|+|.|.. |.||||||+.+...+.
T Consensus         1 ii~i~G~s-gsGKttla~~l~~~l~   24 (179)
T cd02028           1 VVGIAGPS-GSGKTTFAKKLSNQLR   24 (179)
T ss_pred             CEEEECCC-CCCHHHHHHHHHHHHH
Confidence            57899998 9999999999877654

7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK).

>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=85.18  E-value=0.7  Score=35.19  Aligned_cols=23  Identities=13%  Similarity=-0.257  Sum_probs=19.2

Q ss_pred             eeeeeeccCccchhHHHHHHHhhh
Q 011431          229 SYRCWLLCPLFSELRVLTNDVHQL  252 (486)
Q Consensus       229 vi~I~GmGgGvGKTTLa~~vy~~~  252 (486)
                      +|.|.|.. |.||||+++.+-+.+
T Consensus         1 ~i~i~G~~-gsGKst~~~~l~~~l   23 (69)
T cd02019           1 IIAITGGS-GSGKSTVAKKLAEQL   23 (69)
T ss_pred             CEEEECCC-CCCHHHHHHHHHHHh
Confidence            36778888 999999999987765

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.

>PRK08691 DNA polymerase III subunits gamma and tau; Validated

Probab=85.05  E-value=2.9  Score=46.37  Aligned_cols=24  Identities=8%  Similarity=-0.136  Sum_probs=19.0

Q ss_pred             eeeeeeeccCccchhHHHHHHHhhh
Q 011431          228 RSYRCWLLCPLFSELRVLTNDVHQL  252 (486)
Q Consensus       228 ~vi~I~GmGgGvGKTTLa~~vy~~~  252 (486)
                      ..+=++|.- |+||||+|+.+-+.+
T Consensus        39 Ha~Lf~GP~-GvGKTTlAriLAk~L   62 (709)
T PRK08691         39 HAYLLTGTR-GVGKTTIARILAKSL   62 (709)
T ss_pred             eEEEEECCC-CCcHHHHHHHHHHHh
Confidence            345578998 999999999886654

>PRK05439 pantothenate kinase; Provisional

Probab=84.82  E-value=1.8  Score=43.41  Aligned_cols=29  Identities=3%  Similarity=-0.396  Sum_probs=23.9

Q ss_pred             CCCceeeeeeeccCccchhHHHHHHHhhhc
Q 011431          224 AEGYRSYRCWLLCPLFSELRVLTNDVHQLM  253 (486)
Q Consensus       224 ~~~~~vi~I~GmGgGvGKTTLa~~vy~~~~  253 (486)
                      ....-+|||-|-. |.||||+|+.+-..+.
T Consensus        83 ~~~~~iIgIaG~~-gsGKSTla~~L~~~l~  111 (311)
T PRK05439         83 QKVPFIIGIAGSV-AVGKSTTARLLQALLS  111 (311)
T ss_pred             CCCCEEEEEECCC-CCCHHHHHHHHHHHHH
Confidence            4567789999999 9999999998866543

>COG4916 Uncharacterized protein containing a TIR (Toll-Interleukin 1-resistance) domain [Function unknown]

Probab=84.65  E-value=1.1  Score=42.82  Aligned_cols=99  Identities=14%  Similarity=0.118  Sum_probs=67.5

Q ss_pred             CCceecCceEEecccCccCcChHHHHHHHHh--cCCCeEEEeCC----cCCCCCchHHHHHHHh--hccceEEEeecccc
Q 011431           16 DQWRYKHDVFVTFSGEDIRENFGSYLFAALF--RESVKTFRDEQ----IRRGDEIMPALLQAIE--ESKISLVIFSKRFA   87 (486)
Q Consensus        16 ~~~~y~~dVFis~~~~D~~~~f~~~L~~~L~--~~gi~~~~d~~----~~~g~~i~~~i~~~I~--~s~~~ivv~S~~y~   87 (486)
                      .++.|  |+=+||.|+-  .+.+......++  ...+..|.|.+    +-+|+ +. .++.-+.  .|++.+|....+|-
T Consensus       174 ~~~~~--DiG~SFaGEA--R~LVEqV~~E~~~~~~p~~~FYD~~~~~~L~~~s-L~-~~L~~~Y~~rC~~~~VF~~~~Y~  247 (329)
T COG4916         174 SEKPV--DSGISFAGEA--RNLVEQVQTEHSGLDIPTRRFYDLLVAHPLYPGS-LV-STLDPGYDIRCVVTTVFNTGSYI  247 (329)
T ss_pred             ccccc--ceeeEeehhh--hhHHHHHHHhhhcccCCceeeeechhhccccCcc-HH-HhcccccCceEEEEEEEeCCceE
Confidence            45678  9999999985  479999999998  33466777752    33443 22 3333333  58888999999999


Q ss_pred             cChhhHHHHHHHHHHhcCCCEEEEEEe-eecCCcc
Q 011431           88 FSRWCLEELVKIIECNKLYQTVIPVFY-KVLPSDV  121 (486)
Q Consensus        88 ~S~wcl~El~~i~~~~~~~~~v~Pify-~v~~s~v  121 (486)
                      ...||-.|...+-+. ..-+...||.| .++.+-+
T Consensus       248 ~K~~c~~E~~~~r~~-~~~d~~~rI~~~~~d~~a~  281 (329)
T COG4916         248 CKSTCHIEGLEGRLN-PILDTGFRIKYLYADNIAI  281 (329)
T ss_pred             Eeeeeccchhhcccc-ccccccceEEEEecCCccc
Confidence            999999998776553 11234567766 4554443

>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=84.56  E-value=0.78  Score=39.82  Aligned_cols=23  Identities=4%  Similarity=-0.318  Sum_probs=19.0

Q ss_pred             eeeeeeccCccchhHHHHHHHhhh
Q 011431          229 SYRCWLLCPLFSELRVLTNDVHQL  252 (486)
Q Consensus       229 vi~I~GmGgGvGKTTLa~~vy~~~  252 (486)
                      +|=++|+. |.||||+|+.+....
T Consensus         1 lii~~G~p-gsGKSt~a~~l~~~~   23 (143)
T PF13671_consen    1 LIILCGPP-GSGKSTLAKRLAKRL   23 (143)
T ss_dssp             EEEEEEST-TSSHHHHHHHHHHHS
T ss_pred             CEEEECCC-CCCHHHHHHHHHHHC
Confidence            35588999 999999999987654

...

>PRK14964 DNA polymerase III subunits gamma and tau; Provisional

Probab=84.39  E-value=4  Score=43.64  Aligned_cols=71  Identities=3%  Similarity=-0.077  Sum_probs=38.6

Q ss_pred             cceeeceecccC--HHHHHHHhcCCCCCCCCCEEEeeC-CccccccccccCCCceEecCCCCCchhhhhhcccCC
Q 011431          308 SAAHPYVEDVID--DAYMEDITDDSSPSLNLSRINSTS-RFEQLWPETISATDTCTEDVTVDNSPSLNLSSCNSS  379 (486)
Q Consensus       308 Kr~LlVLDDVw~--~~~~~~l~~~~~~~~~GSrIIiTT-R~~~V~~~~~~~~~~~y~v~~L~~~es~~LF~~~a~  379 (486)
                      +..++|+|++..  ....+.|+...-+-.+.+++|++| ....+... .......++++.++.++-...+.+.+.
T Consensus       116 ~~KVvIIDEah~Ls~~A~NaLLK~LEePp~~v~fIlatte~~Kl~~t-I~SRc~~~~f~~l~~~el~~~L~~ia~  189 (491)
T PRK14964        116 KFKVYIIDEVHMLSNSAFNALLKTLEEPAPHVKFILATTEVKKIPVT-IISRCQRFDLQKIPTDKLVEHLVDIAK  189 (491)
T ss_pred             CceEEEEeChHhCCHHHHHHHHHHHhCCCCCeEEEEEeCChHHHHHH-HHHhheeeecccccHHHHHHHHHHHHH
Confidence            566788998763  333444442110112356666555 44444321 111235688899988887777665443

>TIGR03156 GTP_HflX GTP-binding protein HflX

Probab=84.36  E-value=3.8  Score=41.94  Aligned_cols=156  Identities=17%  Similarity=0.166  Sum_probs=76.0

Q ss_pred             hHHHHHHHhhccceEEEeecccccChhhHHHHHHHHHH--hcCCCEEEEEEeeecCCccccccCchHHHHHHhHhhCCCc
Q 011431           65 MPALLQAIEESKISLVIFSKRFAFSRWCLEELVKIIEC--NKLYQTVIPVFYKVLPSDVRNQLGSFGEAFLEHEKSHDLR  142 (486)
Q Consensus        65 ~~~i~~~I~~s~~~ivv~S~~y~~S~wcl~El~~i~~~--~~~~~~v~Pify~v~~s~vr~q~g~f~~~f~~~~~~~~~~  142 (486)
                      .++|...+++..+-+|||-..-..|  =...|..++.+  -.+.+.||=||-.    .-+...|...-++..+.-..  +
T Consensus        55 ~~e~~~~~~~~~~~~vi~~~~l~p~--q~~nl~~~~~~~v~Dr~~lil~iF~~----ra~t~e~klqv~la~l~~~l--~  126 (351)
T TIGR03156        55 VEEIAELVEELEADLVIFDHELSPS--QERNLEKALGCRVIDRTGLILDIFAQ----RARTHEGKLQVELAQLKYLL--P  126 (351)
T ss_pred             HHHHHHHHHhcCCCEEEECCCCCHH--HHHHHHHHhCCcccchHHHHHHHHHH----hccChHHHHHHHHHhccchh--h
Confidence            4577788888888888887655333  33455555555  3344556666632    11111223333444333322  3


Q ss_pred             hhhccHHHHHHHhhhccCCCCCCCCCcchhhhhHHHhHHhhhhhhhhhhHHHHHHHhhhhhhccchhhhhhHHHHHHHhh
Q 011431          143 PKVGRWRDALREASDLAGWDSNVTRPESKLTDEIVNGVVENLKSFAELMEKELVVLFNRARDKLDNHASSLLDEVLSLLR  222 (486)
Q Consensus       143 e~i~~Wr~AL~eva~~~G~~~~~~~~E~~~I~~IV~~V~~~L~~~~~~~~~~lVgi~~~~~~~~~~~~~~~l~~v~~ll~  222 (486)
                      ..+..|+. |.....-.|+  . +..|.+. +.=...+..++...    ...+-.+-.           ..  +......
T Consensus       127 r~~~~~~~-l~~~~~~i~~--~-g~gE~~~-~~~~~~i~~ri~~l----~~~L~~~~~-----------~~--~~~r~~r  184 (351)
T TIGR03156       127 RLVGGWTH-LSRQGGGIGT--R-GPGETQL-ETDRRLIRERIAQL----KKELEKVEK-----------QR--ERQRRRR  184 (351)
T ss_pred             hhhhhHHH-HHhhcCCCCC--C-CCChhHH-HHHHHHHHHHHHHH----HHHHHHHHH-----------HH--HHHHhhh
Confidence            55667877 7665543443  1 1122221 11011222222211    111111100           00  0001112


Q ss_pred             cCCCceeeeeeeccCccchhHHHHHHHhh
Q 011431          223 NAEGYRSYRCWLLCPLFSELRVLTNDVHQ  251 (486)
Q Consensus       223 ~~~~~~vi~I~GmGgGvGKTTLa~~vy~~  251 (486)
                      ...+...|+|+|-. +.|||||...+.+.
T Consensus       185 ~~~~~~~ValvG~~-NvGKSSLln~L~~~  212 (351)
T TIGR03156       185 KRADVPTVALVGYT-NAGKSTLFNALTGA  212 (351)
T ss_pred             cccCCcEEEEECCC-CCCHHHHHHHHhCC
Confidence            22455678999999 99999999988764

This protein family is one of a number of homologous small, well-conserved GTP-binding proteins with pleiotropic effects. Bacterial members are designated HflX, following the naming convention in Escherichia coli where HflX is encoded immediately downstream of the RNA chaperone Hfq, and immediately upstream of HflKC, a membrane-associated protease pair with an important housekeeping function. Over large numbers of other bacterial genomes, the pairing with hfq is more significant than with hflK and hlfC. The gene from Homo sapiens in this family has been named PGPL (pseudoautosomal GTP-binding protein-like).

>TIGR00554 panK_bact pantothenate kinase, bacterial type

Probab=84.34  E-value=1.1  Score=44.50  Aligned_cols=27  Identities=4%  Similarity=-0.391  Sum_probs=22.1

Q ss_pred             CCceeeeeeeccCccchhHHHHHHHhhh
Q 011431          225 EGYRSYRCWLLCPLFSELRVLTNDVHQL  252 (486)
Q Consensus       225 ~~~~vi~I~GmGgGvGKTTLa~~vy~~~  252 (486)
                      +...+|||.|-. |.||||+|+.+-..+
T Consensus        60 ~~p~IIGIaG~~-GSGKSTlar~L~~ll   86 (290)
T TIGR00554        60 KIPYIISIAGSV-AVGKSTTARILQALL   86 (290)
T ss_pred             CCCEEEEEECCC-CCCHHHHHHHHHHHH
Confidence            456899999999 999999998774443

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.

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

Probab=84.33  E-value=2.4  Score=44.18  Aligned_cols=45  Identities=9%  Similarity=-0.054  Sum_probs=29.9

Q ss_pred             CCCEEEeeCCccccccccc---cCCCceEecCCCCCchhhhhhcccCC
Q 011431          335 NLSRINSTSRFEQLWPETI---SATDTCTEDVTVDNSPSLNLSSCNSS  379 (486)
Q Consensus       335 ~GSrIIiTTR~~~V~~~~~---~~~~~~y~v~~L~~~es~~LF~~~a~  379 (486)
                      .+-.||.||...+-+....   ..-+..++++..+.++...+|..+..
T Consensus       283 ~~v~VI~aTN~~d~LDpAllR~GRfd~~I~~~~P~~~~R~~Il~~~~~  330 (398)
T PTZ00454        283 TNVKVIMATNRADTLDPALLRPGRLDRKIEFPLPDRRQKRLIFQTITS  330 (398)
T ss_pred             CCEEEEEecCCchhCCHHHcCCCcccEEEEeCCcCHHHHHHHHHHHHh
Confidence            3567888887666543211   12456788999998888888876543

>TIGR01360 aden_kin_iso1 adenylate kinase, isozyme 1 subfamily

Probab=84.32  E-value=0.78  Score=41.89  Aligned_cols=26  Identities=4%  Similarity=-0.396  Sum_probs=21.5

Q ss_pred             CceeeeeeeccCccchhHHHHHHHhhh
Q 011431          226 GYRSYRCWLLCPLFSELRVLTNDVHQL  252 (486)
Q Consensus       226 ~~~vi~I~GmGgGvGKTTLa~~vy~~~  252 (486)
                      .+.+|.|.|.. |.||||+++.+....
T Consensus         2 ~~~ii~i~G~~-GsGKsTl~~~l~~~~   27 (188)
T TIGR01360         2 KCKIIFIVGGP-GSGKGTQCEKIVEKY   27 (188)
T ss_pred             CCcEEEEECCC-CCCHHHHHHHHHHHh
Confidence            35688899999 999999999886543

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.

>COG4240 Predicted kinase [General function prediction only]

Probab=84.27  E-value=1.1  Score=42.62  Aligned_cols=32  Identities=6%  Similarity=-0.385  Sum_probs=27.5

Q ss_pred             CCCceeeeeeeccCccchhHHHHHHHhhhcccc
Q 011431          224 AEGYRSYRCWLLCPLFSELRVLTNDVHQLMDNY  256 (486)
Q Consensus       224 ~~~~~vi~I~GmGgGvGKTTLa~~vy~~~~~~F  256 (486)
                      .+..-++||.|-. |.||||++-.+++.+..+.
T Consensus        47 ~grPli~gisGpQ-GSGKStls~~i~~~L~~kg   78 (300)
T COG4240          47 RGRPLIVGISGPQ-GSGKSTLSALIVRLLAAKG   78 (300)
T ss_pred             cCCceEEEeecCC-CCchhhHHHHHHHHHHHhc
Confidence            4457899999999 9999999999999876655

>PF13614 AAA_31: AAA domain; PDB: 2VED_B 2PH1_A 3EA0_B 3FKQ_A 3KB1_B 1ION_A 3LA6_H 3BFV_B 3CIO_D

Probab=84.20  E-value=0.81  Score=40.46  Aligned_cols=28  Identities=11%  Similarity=0.045  Sum_probs=22.6

Q ss_pred             eeeeeeeccCccchhHHHHHHHhhhccc
Q 011431          228 RSYRCWLLCPLFSELRVLTNDVHQLMDN  255 (486)
Q Consensus       228 ~vi~I~GmGgGvGKTTLa~~vy~~~~~~  255 (486)
                      ++|++||..||.||||+|.++-..+...
T Consensus         1 k~i~v~s~~~g~G~t~~a~~lA~~la~~   28 (157)
T PF13614_consen    1 KVIAVWSPKGGVGKTTLALNLAAALARK   28 (157)
T ss_dssp             EEEEEEESSTTSSHHHHHHHHHHHHHHT
T ss_pred             CEEEEECCCCCCCHHHHHHHHHHHHHhc
Confidence            5899999777999999998886655433

>COG1100 GTPase SAR1 and related small G proteins [General function prediction only]

Probab=84.08  E-value=0.66  Score=43.49  Aligned_cols=24  Identities=8%  Similarity=-0.252  Sum_probs=20.0

Q ss_pred             eeeeeeeccCccchhHHHHHHHhhh
Q 011431          228 RSYRCWLLCPLFSELRVLTNDVHQL  252 (486)
Q Consensus       228 ~vi~I~GmGgGvGKTTLa~~vy~~~  252 (486)
                      .-|.++|.+ |.|||||+..+....
T Consensus         6 ~kivv~G~~-g~GKTtl~~~l~~~~   29 (219)
T COG1100           6 FKIVVLGDG-GVGKTTLLNRLVGDE   29 (219)
T ss_pred             EEEEEEcCC-CccHHHHHHHHhcCc
Confidence            456799999 999999999887644

>PRK00889 adenylylsulfate kinase; Provisional

Probab=83.95  E-value=0.83  Score=41.50  Aligned_cols=24  Identities=8%  Similarity=-0.150  Sum_probs=21.3

Q ss_pred             eeeeeeeccCccchhHHHHHHHhhh
Q 011431          228 RSYRCWLLCPLFSELRVLTNDVHQL  252 (486)
Q Consensus       228 ~vi~I~GmGgGvGKTTLa~~vy~~~  252 (486)
                      .+|.+.|+. |.||||+|+.+...+
T Consensus         5 ~~i~~~G~~-GsGKST~a~~la~~l   28 (175)
T PRK00889          5 VTVWFTGLS-GAGKTTIARALAEKL   28 (175)
T ss_pred             eEEEEECCC-CCCHHHHHHHHHHHH
Confidence            478899999 999999999998765

>PRK06217 hypothetical protein; Validated

Probab=83.90  E-value=0.87  Score=41.82  Aligned_cols=24  Identities=4%  Similarity=-0.303  Sum_probs=20.2

Q ss_pred             eeeeeeccCccchhHHHHHHHhhhc
Q 011431          229 SYRCWLLCPLFSELRVLTNDVHQLM  253 (486)
Q Consensus       229 vi~I~GmGgGvGKTTLa~~vy~~~~  253 (486)
                      .|.|.|+. |.|||||++.+-..+.
T Consensus         3 ~I~i~G~~-GsGKSTla~~L~~~l~   26 (183)
T PRK06217          3 RIHITGAS-GSGTTTLGAALAERLD   26 (183)
T ss_pred             EEEEECCC-CCCHHHHHHHHHHHcC
Confidence            46789998 9999999999977653

>CHL00176 ftsH cell division protein; Validated

Probab=83.79  E-value=3.1  Score=46.08  Aligned_cols=46  Identities=7%  Similarity=0.023  Sum_probs=29.6

Q ss_pred             CCCEEEeeCCccccccccc---cCCCceEecCCCCCchhhhhhcccCCC
Q 011431          335 NLSRINSTSRFEQLWPETI---SATDTCTEDVTVDNSPSLNLSSCNSSS  380 (486)
Q Consensus       335 ~GSrIIiTTR~~~V~~~~~---~~~~~~y~v~~L~~~es~~LF~~~a~~  380 (486)
                      .+-.||.||..-+.+....   ..-+...++...+.++-.++|..++..
T Consensus       320 ~~ViVIaaTN~~~~LD~ALlRpGRFd~~I~v~lPd~~~R~~IL~~~l~~  368 (638)
T CHL00176        320 KGVIVIAATNRVDILDAALLRPGRFDRQITVSLPDREGRLDILKVHARN  368 (638)
T ss_pred             CCeeEEEecCchHhhhhhhhccccCceEEEECCCCHHHHHHHHHHHHhh
Confidence            4557777776655432211   123456788888888888888877654

>smart00382 AAA ATPases associated with a variety of cellular activities

Probab=83.49  E-value=0.9  Score=38.23  Aligned_cols=27  Identities=4%  Similarity=-0.326  Sum_probs=21.7

Q ss_pred             eeeeeeeccCccchhHHHHHHHhhhccc
Q 011431          228 RSYRCWLLCPLFSELRVLTNDVHQLMDN  255 (486)
Q Consensus       228 ~vi~I~GmGgGvGKTTLa~~vy~~~~~~  255 (486)
                      ..+.+.|-. |.||||+++.+...+...
T Consensus         3 ~~~~l~G~~-G~GKTtl~~~l~~~~~~~   29 (148)
T smart00382        3 EVILIVGPP-GSGKTTLARALARELGPP   29 (148)
T ss_pred             CEEEEECCC-CCcHHHHHHHHHhccCCC
Confidence            356688988 999999999998766544

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.

>PF06564 YhjQ: YhjQ protein; InterPro: IPR017746 The YhjQ protein is encoded immediately upstream of bacterial cellulose synthase (bcs) genes in a broad range of bacteria, including both copies of the bcs locus in Klebsiella pneumoniae, and in several species is clearly part of the bcs operon

Probab=83.29  E-value=0.8  Score=44.20  Aligned_cols=25  Identities=8%  Similarity=-0.161  Sum_probs=20.4

Q ss_pred             eeeeeeeccCccchhHHHHHHHhhh
Q 011431          228 RSYRCWLLCPLFSELRVLTNDVHQL  252 (486)
Q Consensus       228 ~vi~I~GmGgGvGKTTLa~~vy~~~  252 (486)
                      ++|+|+|.=||+|||||+-++--.+
T Consensus         2 ~~iai~s~kGGvG~TTltAnLA~aL   26 (243)
T PF06564_consen    2 KVIAIVSPKGGVGKTTLTANLAWAL   26 (243)
T ss_pred             cEEEEecCCCCCCHHHHHHHHHHHH
Confidence            5789999999999999987765433

It is identified as a probable component of the bacterial cellulose metabolic process not only by gene location, but also by partial phylogenetic profiling, or Haft-Selengut algorithm [], based on a bacterial cellulose biosynthesis genome property profile. Cellulose plays an important role in biofilm formation and structural integrity in some bacteria. Mutants in yhjQ in Escherichia coli, show altered morphology an growth, but the function of YhjQ has not yet been determined.

>TIGR00176 mobB molybdopterin-guanine dinucleotide biosynthesis protein MobB

Probab=83.16  E-value=0.8  Score=41.07  Aligned_cols=25  Identities=8%  Similarity=-0.150  Sum_probs=21.6

Q ss_pred             eeeeeeccCccchhHHHHHHHhhhcc
Q 011431          229 SYRCWLLCPLFSELRVLTNDVHQLMD  254 (486)
Q Consensus       229 vi~I~GmGgGvGKTTLa~~vy~~~~~  254 (486)
                      +++|+|.- |.|||||+..+...+..
T Consensus         1 vi~i~G~~-gsGKTtl~~~l~~~l~~   25 (155)
T TIGR00176         1 VLQIVGPK-NSGKTTLIERLVKALKA   25 (155)
T ss_pred             CEEEECCC-CCCHHHHHHHHHHHHHh
Confidence            57899999 99999999999887654

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.

>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=83.15  E-value=0.88  Score=38.02  Aligned_cols=22  Identities=0%  Similarity=-0.306  Sum_probs=18.5

Q ss_pred             eeeeeccCccchhHHHHHHHhhh
Q 011431          230 YRCWLLCPLFSELRVLTNDVHQL  252 (486)
Q Consensus       230 i~I~GmGgGvGKTTLa~~vy~~~  252 (486)
                      |.|+|-. |+|||||++.+.+..
T Consensus         2 I~V~G~~-g~GKTsLi~~l~~~~   23 (119)
T PF08477_consen    2 IVVLGDS-GVGKTSLIRRLCGGE   23 (119)
T ss_dssp             EEEECST-TSSHHHHHHHHHHSS
T ss_pred             EEEECcC-CCCHHHHHHHHhcCC
Confidence            5588988 999999999987643

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.

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

Probab=82.83  E-value=1.8  Score=42.56  Aligned_cols=41  Identities=2%  Similarity=-0.048  Sum_probs=31.0

Q ss_pred             eeeeeeccCccchhHHHHHHHhhhccccccceEEEEeeeccHH
Q 011431          229 SYRCWLLCPLFSELRVLTNDVHQLMDNYENSDVTLAKFEGEVK  271 (486)
Q Consensus       229 vi~I~GmGgGvGKTTLa~~vy~~~~~~F~~~~~~~v~~~~~l~  271 (486)
                      -++|.|-. |+|||||++.+++++..+|... ++.+.+.+.-+
T Consensus        71 r~~If~~~-G~GKTtLa~~i~~~i~~~~~~~-~V~~~iGer~~  111 (274)
T cd01133          71 KIGLFGGA-GVGKTVLIMELINNIAKAHGGY-SVFAGVGERTR  111 (274)
T ss_pred             EEEEecCC-CCChhHHHHHHHHHHHhcCCCE-EEEEEeccCcH
Confidence            46789888 9999999999999988777554 34555554433

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

>PRK10751 molybdopterin-guanine dinucleotide biosynthesis protein B; Provisional

Probab=82.74  E-value=0.98  Score=41.32  Aligned_cols=27  Identities=7%  Similarity=-0.160  Sum_probs=23.1

Q ss_pred             CceeeeeeeccCccchhHHHHHHHhhhc
Q 011431          226 GYRSYRCWLLCPLFSELRVLTNDVHQLM  253 (486)
Q Consensus       226 ~~~vi~I~GmGgGvGKTTLa~~vy~~~~  253 (486)
                      ...+++|+|-. |.|||||++.+...+.
T Consensus         5 ~~~ii~ivG~s-gsGKTTLi~~li~~l~   31 (173)
T PRK10751          5 MIPLLAIAAWS-GTGKTTLLKKLIPALC   31 (173)
T ss_pred             CceEEEEECCC-CChHHHHHHHHHHHHh
Confidence            45689999999 9999999999977654

>PRK10867 signal recognition particle protein; Provisional

Probab=82.71  E-value=3.5  Score=43.40  Aligned_cols=24  Identities=4%  Similarity=-0.357  Sum_probs=18.8

Q ss_pred             CceeeeeeeccCccchhHHHHHHHh
Q 011431          226 GYRSYRCWLLCPLFSELRVLTNDVH  250 (486)
Q Consensus       226 ~~~vi~I~GmGgGvGKTTLa~~vy~  250 (486)
                      ...+|-++|.+ |.||||++-.+-.
T Consensus        99 ~p~vI~~vG~~-GsGKTTtaakLA~  122 (433)
T PRK10867         99 PPTVIMMVGLQ-GAGKTTTAGKLAK  122 (433)
T ss_pred             CCEEEEEECCC-CCcHHHHHHHHHH
Confidence            46788999999 9999996655433

>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=82.64  E-value=0.97  Score=37.84  Aligned_cols=21  Identities=0%  Similarity=-0.266  Sum_probs=18.9

Q ss_pred             eeeeeccCccchhHHHHHHHhh
Q 011431          230 YRCWLLCPLFSELRVLTNDVHQ  251 (486)
Q Consensus       230 i~I~GmGgGvGKTTLa~~vy~~  251 (486)
                      |++.|+. |.|||||.+.+.+.
T Consensus         2 V~iiG~~-~~GKSTlin~l~~~   22 (116)
T PF01926_consen    2 VAIIGRP-NVGKSTLINALTGK   22 (116)
T ss_dssp             EEEEEST-TSSHHHHHHHHHTS
T ss_pred             EEEECCC-CCCHHHHHHHHhcc
Confidence            6799999 99999999999863

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 ....

>PF01656 CbiA: CobQ/CobB/MinD/ParA nucleotide binding domain; InterPro: IPR002586 This entry consists of various cobyrinic acid a,c-diamide synthases

Probab=82.63  E-value=0.89  Score=41.64  Aligned_cols=25  Identities=8%  Similarity=-0.177  Sum_probs=18.2

Q ss_pred             eeeeeccCccchhHHHHHHHhhhcc
Q 011431          230 YRCWLLCPLFSELRVLTNDVHQLMD  254 (486)
Q Consensus       230 i~I~GmGgGvGKTTLa~~vy~~~~~  254 (486)
                      |.|.+..||+||||+|..+-..+..
T Consensus         1 I~v~~~kGG~GKTt~a~~la~~la~   25 (195)
T PF01656_consen    1 IAVTSGKGGVGKTTIAANLAQALAR   25 (195)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHHHHH
T ss_pred             CEEEcCCCCccHHHHHHHHHhcccc
Confidence            4566666799999999887655443

These include CbiA and CbiP from Salmonella typhimurium []., and CobQ from Rhodobacter capsulatus []. These amidases catalyse amidations to various side chains of hydrogenobyrinic acid or cobyrinic acid a,c-diamide in the biosynthesis of cobalamin (vitamin B12) from uroporphyrinogen III. Vitamin B12 is an important cofactor and an essential nutrient for many plants and animals and is primarily produced by bacteria [].; PDB: 3K9G_A 3K9H_B 3EZ9_B 3EZF_A 3EZ2_B 3EZ6_A 3EZ7_A 1G3Q_A 1G3R_A 1DTS_A ....

>COG2019 AdkA Archaeal adenylate kinase [Nucleotide transport and metabolism]

Probab=82.58  E-value=1  Score=40.71  Aligned_cols=26  Identities=15%  Similarity=0.020  Sum_probs=21.4

Q ss_pred             CceeeeeeeccCccchhHHHHHHHhhh
Q 011431          226 GYRSYRCWLLCPLFSELRVLTNDVHQL  252 (486)
Q Consensus       226 ~~~vi~I~GmGgGvGKTTLa~~vy~~~  252 (486)
                      +.+++.|+|.. |+||||+.+..-..+
T Consensus         3 ~~kvvvitGVp-GvGKTTVl~~~~~~l   28 (189)
T COG2019           3 GRKVVVITGVP-GVGKTTVLKIALKEL   28 (189)
T ss_pred             CceEEEEEcCC-CCChHHHHHHHHHHH
Confidence            35788899999 999999998775544

>PRK14493 putative bifunctional molybdopterin-guanine dinucleotide biosynthesis protein MobB/MoaE; Provisional

Probab=82.55  E-value=0.91  Score=44.78  Aligned_cols=28  Identities=7%  Similarity=-0.099  Sum_probs=24.0

Q ss_pred             eeeeeeeccCccchhHHHHHHHhhhcccc
Q 011431          228 RSYRCWLLCPLFSELRVLTNDVHQLMDNY  256 (486)
Q Consensus       228 ~vi~I~GmGgGvGKTTLa~~vy~~~~~~F  256 (486)
                      ++|+|+|.+ |.|||||+..+-..+..+.
T Consensus         2 ~~i~i~G~~-gSGKTTLi~~Li~~L~~~G   29 (274)
T PRK14493          2 KVLSIVGYK-ATGKTTLVERLVDRLSGRG   29 (274)
T ss_pred             cEEEEECCC-CCCHHHHHHHHHHHHHhCC
Confidence            579999998 9999999999988776653

>PRK09563 rbgA GTPase YlqF; Reviewed

Probab=82.46  E-value=15  Score=36.46  Aligned_cols=23  Identities=0%  Similarity=-0.230  Sum_probs=19.7

Q ss_pred             eeeeeeeccCccchhHHHHHHHhh
Q 011431          228 RSYRCWLLCPLFSELRVLTNDVHQ  251 (486)
Q Consensus       228 ~vi~I~GmGgGvGKTTLa~~vy~~  251 (486)
                      ..+.++|+. ++||+||...+.+.
T Consensus       122 ~~~~~~G~p-nvGKSsliN~l~~~  144 (287)
T PRK09563        122 IRAMIIGIP-NVGKSTLINRLAGK  144 (287)
T ss_pred             eEEEEECCC-CCCHHHHHHHHhcC
Confidence            457899999 99999999988663

>TIGR00073 hypB hydrogenase accessory protein HypB

Probab=82.42  E-value=1.1  Score=42.09  Aligned_cols=27  Identities=7%  Similarity=-0.027  Sum_probs=24.0

Q ss_pred             CCceeeeeeeccCccchhHHHHHHHhhh
Q 011431          225 EGYRSYRCWLLCPLFSELRVLTNDVHQL  252 (486)
Q Consensus       225 ~~~~vi~I~GmGgGvGKTTLa~~vy~~~  252 (486)
                      .++++|+++|.- |.|||||+..+....
T Consensus        20 ~~~~~i~~~G~~-gsGKTTli~~l~~~~   46 (207)
T TIGR00073        20 HGLVVLNFMSSP-GSGKTTLIEKLIDNL   46 (207)
T ss_pred             cCcEEEEEECCC-CCCHHHHHHHHHHHH
Confidence            489999999999 999999999887654

HypB is implicated in insertion of nickel into the large subunit of NiFe hydrogenases.

>cd04139 RalA_RalB RalA/RalB subfamily

Probab=82.28  E-value=0.92  Score=39.95  Aligned_cols=21  Identities=0%  Similarity=-0.368  Sum_probs=18.2

Q ss_pred             eeeeeccCccchhHHHHHHHhh
Q 011431          230 YRCWLLCPLFSELRVLTNDVHQ  251 (486)
Q Consensus       230 i~I~GmGgGvGKTTLa~~vy~~  251 (486)
                      |.++|.+ |+|||||++.+.+.
T Consensus         3 i~~~G~~-~~GKTsl~~~l~~~   23 (164)
T cd04139           3 VIVVGAG-GVGKSALTLQFMYD   23 (164)
T ss_pred             EEEECCC-CCCHHHHHHHHHhC
Confidence            6799999 99999999988753

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

>cd01983 Fer4_NifH The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain

Probab=82.25  E-value=0.91  Score=35.91  Aligned_cols=23  Identities=9%  Similarity=-0.221  Sum_probs=18.9

Q ss_pred             eeeeeccCccchhHHHHHHHhhhc
Q 011431          230 YRCWLLCPLFSELRVLTNDVHQLM  253 (486)
Q Consensus       230 i~I~GmGgGvGKTTLa~~vy~~~~  253 (486)
                      +.+.|.+ |.||||++..+-..+.
T Consensus         2 ~~~~g~~-G~Gktt~~~~l~~~l~   24 (99)
T cd01983           2 IVVTGKG-GVGKTTLAANLAAALA   24 (99)
T ss_pred             EEEECCC-CCCHHHHHHHHHHHHH
Confidence            5678888 9999999998876654

Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion.

>PF02680 DUF211: Uncharacterized ArCR, COG1888; InterPro: IPR003831 This entry describes proteins of unknown function

Probab=82.18  E-value=2.3  Score=34.49  Aligned_cols=58  Identities=19%  Similarity=0.344  Sum_probs=39.8

Q ss_pred             eeeeecc-ccccchhhHHHHHHHhhcCCCeeEEEe-----ecCCC--eEEEEeeccCHHHHHHHhhccc
Q 011431          384 EAIFKLE-IHHDNLEAWRAAFSIVSEFIGITKISF-----DFKVK--KMTVVGDNFDVLSAGTKLNGLC  444 (486)
Q Consensus       384 ~~v~kv~-~~~~~~~~~~~a~k~~~~~~Gv~~v~~-----d~~~~--~~~V~G~~~d~~~~~~~l~k~~  444 (486)
                      .+||-|. .|....-   ..-..+++++||+.|.+     |.+..  ++||.|+.+|-..+.+.+.+.|
T Consensus         6 RlVLDVlKP~~p~i~---e~A~~l~~~~gV~gVnitv~EvD~ete~lkitiEG~~id~d~i~~~Ie~~G   71 (95)
T PF02680_consen    6 RLVLDVLKPHEPSIV---ELAKALSELEGVDGVNITVVEVDVETENLKITIEGDDIDFDEIKEAIEELG   71 (95)
T ss_dssp             EEEEEEEEESSS-HH---HHHHHHHTSTTEEEEEEEEEEE-SSEEEEEEEEEESSE-HHHHHHHHHHTT
T ss_pred             EEEEEeecCCCCCHH---HHHHHHHhCCCcceEEEEEEEeeccccEEEEEEEeCCCCHHHHHHHHHHcC
Confidence            3444442 2444443   44566789999999876     44443  7999999999999999999977

; PDB: 3BPD_I 2RAQ_F 2X3D_E.

>PRK14956 DNA polymerase III subunits gamma and tau; Provisional

Probab=82.10  E-value=6.9  Score=41.65  Aligned_cols=69  Identities=12%  Similarity=-0.055  Sum_probs=38.9

Q ss_pred             cceeeceeccc--CHHHHHHHhcCCCCCCCCCEE-EeeCCccccccccccCCCceEecCCCCCchhhhhhccc
Q 011431          308 SAAHPYVEDVI--DDAYMEDITDDSSPSLNLSRI-NSTSRFEQLWPETISATDTCTEDVTVDNSPSLNLSSCN  377 (486)
Q Consensus       308 Kr~LlVLDDVw--~~~~~~~l~~~~~~~~~GSrI-IiTTR~~~V~~~~~~~~~~~y~v~~L~~~es~~LF~~~  377 (486)
                      +...+++|.+.  +...+..++...-+....... +.||....+... ...-...|.++.|+.++-.+.+.+.
T Consensus       121 ~~KV~IIDEah~Ls~~A~NALLKtLEEPp~~viFILaTte~~kI~~T-I~SRCq~~~f~~ls~~~i~~~L~~i  192 (484)
T PRK14956        121 KYKVYIIDEVHMLTDQSFNALLKTLEEPPAHIVFILATTEFHKIPET-ILSRCQDFIFKKVPLSVLQDYSEKL  192 (484)
T ss_pred             CCEEEEEechhhcCHHHHHHHHHHhhcCCCceEEEeecCChhhccHH-HHhhhheeeecCCCHHHHHHHHHHH
Confidence            56689999987  455666666322111123444 455555555321 1112246899999887776665544

>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=82.05  E-value=1.1  Score=38.00  Aligned_cols=21  Identities=5%  Similarity=-0.352  Sum_probs=18.5

Q ss_pred             eeeccCccchhHHHHHHHhhhc
Q 011431          232 CWLLCPLFSELRVLTNDVHQLM  253 (486)
Q Consensus       232 I~GmGgGvGKTTLa~~vy~~~~  253 (486)
                      ++|-. |.||||+|+.+.+.+.
T Consensus         3 l~G~~-G~GKT~l~~~la~~l~   23 (132)
T PF00004_consen    3 LHGPP-GTGKTTLARALAQYLG   23 (132)
T ss_dssp             EESST-TSSHHHHHHHHHHHTT
T ss_pred             EECcC-CCCeeHHHHHHHhhcc
Confidence            67888 9999999999988874

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 ....

>smart00763 AAA_PrkA PrkA AAA domain

Probab=81.94  E-value=2  Score=43.96  Aligned_cols=28  Identities=7%  Similarity=-0.273  Sum_probs=23.7

Q ss_pred             CCceeeeeeeccCccchhHHHHHHHhhhc
Q 011431          225 EGYRSYRCWLLCPLFSELRVLTNDVHQLM  253 (486)
Q Consensus       225 ~~~~vi~I~GmGgGvGKTTLa~~vy~~~~  253 (486)
                      ...+++.++|-. |.||||||+.+-+.+.
T Consensus        76 ~~r~il~L~GPP-GsGKStla~~La~~l~  103 (361)
T smart00763       76 ERKQILYLLGPV-GGGKSSLVECLKRGLE  103 (361)
T ss_pred             CCCcEEEEECCC-CCCHHHHHHHHHHHHh
Confidence            356888999999 9999999999977653

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

>PRK03846 adenylylsulfate kinase; Provisional

Probab=81.94  E-value=1  Score=41.88  Aligned_cols=26  Identities=12%  Similarity=-0.292  Sum_probs=22.5

Q ss_pred             CceeeeeeeccCccchhHHHHHHHhhh
Q 011431          226 GYRSYRCWLLCPLFSELRVLTNDVHQL  252 (486)
Q Consensus       226 ~~~vi~I~GmGgGvGKTTLa~~vy~~~  252 (486)
                      ...+|.+.|+. |.||||||+.+...+
T Consensus        23 ~~~~i~i~G~~-GsGKSTla~~l~~~l   48 (198)
T PRK03846         23 KGVVLWFTGLS-GSGKSTVAGALEEAL   48 (198)
T ss_pred             CCEEEEEECCC-CCCHHHHHHHHHHHH
Confidence            45688999999 999999999997765

>PF00910 RNA_helicase: RNA helicase; InterPro: IPR000605 Helicases have been classified in 5 superfamilies (SF1-SF5)

Probab=81.89  E-value=0.82  Score=38.07  Aligned_cols=24  Identities=4%  Similarity=-0.064  Sum_probs=19.0

Q ss_pred             eeeeccCccchhHHHHHHHhhhccc
Q 011431          231 RCWLLCPLFSELRVLTNDVHQLMDN  255 (486)
Q Consensus       231 ~I~GmGgGvGKTTLa~~vy~~~~~~  255 (486)
                      -|+|.. |+|||+||+.+-..+...
T Consensus         2 ~i~G~~-G~GKS~l~~~l~~~l~~~   25 (107)
T PF00910_consen    2 WIYGPP-GIGKSTLAKELAKDLLKH   25 (107)
T ss_pred             EEECCC-CCCHHHHHHHHHHHHHHH
Confidence            478999 999999999876655443

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

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

Probab=81.87  E-value=1.1  Score=40.88  Aligned_cols=23  Identities=9%  Similarity=-0.233  Sum_probs=19.9

Q ss_pred             eeeeeeccCccchhHHHHHHHhhh
Q 011431          229 SYRCWLLCPLFSELRVLTNDVHQL  252 (486)
Q Consensus       229 vi~I~GmGgGvGKTTLa~~vy~~~  252 (486)
                      ++.|.|.. |.|||||++.+...+
T Consensus         3 ~~~i~G~s-GsGKttl~~~l~~~~   25 (179)
T TIGR02322         3 LIYVVGPS-GAGKDTLLDYARARL   25 (179)
T ss_pred             EEEEECCC-CCCHHHHHHHHHHHc
Confidence            57799999 999999999986654

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.

>cd00227 CPT Chloramphenicol (Cm) phosphotransferase (CPT)

Probab=81.83  E-value=1.2  Score=40.62  Aligned_cols=24  Identities=8%  Similarity=-0.287  Sum_probs=20.5

Q ss_pred             eeeeeeeccCccchhHHHHHHHhhh
Q 011431          228 RSYRCWLLCPLFSELRVLTNDVHQL  252 (486)
Q Consensus       228 ~vi~I~GmGgGvGKTTLa~~vy~~~  252 (486)
                      ++|-+.|+. |.||||+|+.+-...
T Consensus         3 ~~i~l~G~~-gsGKst~a~~l~~~~   26 (175)
T cd00227           3 RIIILNGGS-SAGKSSIARALQSVL   26 (175)
T ss_pred             CEEEEECCC-CCCHHHHHHHHHHhh
Confidence            467789999 999999999987654

Cm-inactivating enzyme; modifies the primary (C-3) hydroxyl of the antibiotic. Related structurally to shikimate kinase II.

>PRK08903 DnaA regulatory inactivator Hda; Validated

Probab=81.72  E-value=2  Score=40.81  Aligned_cols=25  Identities=16%  Similarity=0.060  Sum_probs=21.3

Q ss_pred             ceeeeeeeccCccchhHHHHHHHhhh
Q 011431          227 YRSYRCWLLCPLFSELRVLTNDVHQL  252 (486)
Q Consensus       227 ~~vi~I~GmGgGvGKTTLa~~vy~~~  252 (486)
                      .+.+-++|-. |.|||+||+++++..
T Consensus        42 ~~~~~l~G~~-G~GKT~La~ai~~~~   66 (227)
T PRK08903         42 DRFFYLWGEA-GSGRSHLLQALVADA   66 (227)
T ss_pred             CCeEEEECCC-CCCHHHHHHHHHHHH
Confidence            3456699999 999999999998865

>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=81.59  E-value=0.96  Score=39.17  Aligned_cols=25  Identities=4%  Similarity=-0.238  Sum_probs=16.8

Q ss_pred             eeeeccCccchhHHHHHHHhhhcccc
Q 011431          231 RCWLLCPLFSELRVLTNDVHQLMDNY  256 (486)
Q Consensus       231 ~I~GmGgGvGKTTLa~~vy~~~~~~F  256 (486)
                      =++|.. |+||||+|+++-..+...|
T Consensus         3 Lleg~P-G~GKT~la~~lA~~~~~~f   27 (131)
T PF07726_consen    3 LLEGVP-GVGKTTLAKALARSLGLSF   27 (131)
T ss_dssp             EEES----HHHHHHHHHHHHHTT--E
T ss_pred             eeECCC-ccHHHHHHHHHHHHcCCce
Confidence            378888 9999999999977766555

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.

>PHA00729 NTP-binding motif containing protein

Probab=81.54  E-value=1.3  Score=42.30  Aligned_cols=27  Identities=7%  Similarity=-0.077  Sum_probs=22.2

Q ss_pred             CceeeeeeeccCccchhHHHHHHHhhhc
Q 011431          226 GYRSYRCWLLCPLFSELRVLTNDVHQLM  253 (486)
Q Consensus       226 ~~~vi~I~GmGgGvGKTTLa~~vy~~~~  253 (486)
                      +...|.|.|-. |+||||||..+-+++.
T Consensus        16 ~f~nIlItG~p-GvGKT~LA~aLa~~l~   42 (226)
T PHA00729         16 GFVSAVIFGKQ-GSGKTTYALKVARDVF   42 (226)
T ss_pred             CeEEEEEECCC-CCCHHHHHHHHHHHHH
Confidence            44567799999 9999999999977653

>PRK13975 thymidylate kinase; Provisional

Probab=81.27  E-value=1.2  Score=41.16  Aligned_cols=26  Identities=4%  Similarity=-0.328  Sum_probs=22.3

Q ss_pred             eeeeeeeccCccchhHHHHHHHhhhcc
Q 011431          228 RSYRCWLLCPLFSELRVLTNDVHQLMD  254 (486)
Q Consensus       228 ~vi~I~GmGgGvGKTTLa~~vy~~~~~  254 (486)
                      ++|.|-|+- |.||||+++.+.+.+..
T Consensus         3 ~~I~ieG~~-GsGKtT~~~~L~~~l~~   28 (196)
T PRK13975          3 KFIVFEGID-GSGKTTQAKLLAEKLNA   28 (196)
T ss_pred             eEEEEECCC-CCCHHHHHHHHHHHhCC
Confidence            467899999 99999999999887753

>PRK13947 shikimate kinase; Provisional

Probab=81.14  E-value=1.2  Score=40.11  Aligned_cols=26  Identities=8%  Similarity=-0.201  Sum_probs=21.3

Q ss_pred             eeeeeccCccchhHHHHHHHhhhcccc
Q 011431          230 YRCWLLCPLFSELRVLTNDVHQLMDNY  256 (486)
Q Consensus       230 i~I~GmGgGvGKTTLa~~vy~~~~~~F  256 (486)
                      |-++||. |.||||+++.+=+.+.-.|
T Consensus         4 I~l~G~~-GsGKst~a~~La~~lg~~~   29 (171)
T PRK13947          4 IVLIGFM-GTGKTTVGKRVATTLSFGF   29 (171)
T ss_pred             EEEEcCC-CCCHHHHHHHHHHHhCCCE
Confidence            5689999 9999999999977765444

>TIGR02397 dnaX_nterm DNA polymerase III, subunit gamma and tau

Probab=81.14  E-value=7.7  Score=39.32  Aligned_cols=70  Identities=3%  Similarity=-0.159  Sum_probs=37.7

Q ss_pred             cceeeceecccC--HHHHHHHhcCCCCCCCCCEEEeeCCccc-cccccccCCCceEecCCCCCchhhhhhcccC
Q 011431          308 SAAHPYVEDVID--DAYMEDITDDSSPSLNLSRINSTSRFEQ-LWPETISATDTCTEDVTVDNSPSLNLSSCNS  378 (486)
Q Consensus       308 Kr~LlVLDDVw~--~~~~~~l~~~~~~~~~GSrIIiTTR~~~-V~~~~~~~~~~~y~v~~L~~~es~~LF~~~a  378 (486)
                      .+.++++|++..  ......++...-+....+.+|++|.+.+ +... .......++.++++.++.-..+...+
T Consensus       117 ~~~vviidea~~l~~~~~~~Ll~~le~~~~~~~lIl~~~~~~~l~~~-l~sr~~~~~~~~~~~~~l~~~l~~~~  189 (355)
T TIGR02397       117 KYKVYIIDEVHMLSKSAFNALLKTLEEPPEHVVFILATTEPHKIPAT-ILSRCQRFDFKRIPLEDIVERLKKIL  189 (355)
T ss_pred             CceEEEEeChhhcCHHHHHHHHHHHhCCccceeEEEEeCCHHHHHHH-HHhheeEEEcCCCCHHHHHHHHHHHH
Confidence            455788898753  3334444422211234567666665443 3211 11112467888888888777766544

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=81.10  E-value=1.2  Score=39.92  Aligned_cols=26  Identities=8%  Similarity=-0.174  Sum_probs=21.3

Q ss_pred             eeeeeeccCccchhHHHHHHHhhhccc
Q 011431          229 SYRCWLLCPLFSELRVLTNDVHQLMDN  255 (486)
Q Consensus       229 vi~I~GmGgGvGKTTLa~~vy~~~~~~  255 (486)
                      +|=+.|+. |-||||||+.+..++...
T Consensus         4 vIwltGls-GsGKtTlA~~L~~~L~~~   29 (156)
T PF01583_consen    4 VIWLTGLS-GSGKTTLARALERRLFAR   29 (156)
T ss_dssp             EEEEESST-TSSHHHHHHHHHHHHHHT
T ss_pred             EEEEECCC-CCCHHHHHHHHHHHHHHc
Confidence            45577898 999999999998887543

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 ....

>TIGR03263 guanyl_kin guanylate kinase

Probab=81.08  E-value=1.1  Score=40.76  Aligned_cols=24  Identities=0%  Similarity=-0.326  Sum_probs=20.6

Q ss_pred             eeeeeeeccCccchhHHHHHHHhhh
Q 011431          228 RSYRCWLLCPLFSELRVLTNDVHQL  252 (486)
Q Consensus       228 ~vi~I~GmGgGvGKTTLa~~vy~~~  252 (486)
                      ++|.++|.. |.|||||++.+.+..
T Consensus         2 ~ii~l~G~~-GsGKsTl~~~L~~~~   25 (180)
T TIGR03263         2 LLIVISGPS-GVGKSTLVKALLEED   25 (180)
T ss_pred             cEEEEECCC-CCCHHHHHHHHHccC
Confidence            467899999 999999999997754

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.

>PRK00625 shikimate kinase; Provisional

Probab=81.07  E-value=1.2  Score=40.68  Aligned_cols=23  Identities=9%  Similarity=-0.269  Sum_probs=19.5

Q ss_pred             eeeeeccCccchhHHHHHHHhhhc
Q 011431          230 YRCWLLCPLFSELRVLTNDVHQLM  253 (486)
Q Consensus       230 i~I~GmGgGvGKTTLa~~vy~~~~  253 (486)
                      |-++||. |.||||+++.+-+++.
T Consensus         3 I~LiG~p-GsGKTT~~k~La~~l~   25 (173)
T PRK00625          3 IFLCGLP-TVGKTSFGKALAKFLS   25 (173)
T ss_pred             EEEECCC-CCCHHHHHHHHHHHhC
Confidence            5689999 9999999999866653

>PLN02348 phosphoribulokinase

Probab=81.02  E-value=1.8  Score=44.78  Aligned_cols=30  Identities=3%  Similarity=-0.199  Sum_probs=25.6

Q ss_pred             cCCCceeeeeeeccCccchhHHHHHHHhhhc
Q 011431          223 NAEGYRSYRCWLLCPLFSELRVLTNDVHQLM  253 (486)
Q Consensus       223 ~~~~~~vi~I~GmGgGvGKTTLa~~vy~~~~  253 (486)
                      ..+...+|||-|-. |-||||+|+.+.+.+.
T Consensus        45 ~~~~p~IIGIaG~S-GSGKSTfA~~L~~~Lg   74 (395)
T PLN02348         45 ADDGTVVIGLAADS-GCGKSTFMRRLTSVFG   74 (395)
T ss_pred             cCCCCEEEEEECCC-CCCHHHHHHHHHHHHh
Confidence            34567899999999 9999999999987664

>COG0593 DnaA ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]

Probab=80.99  E-value=2.1  Score=44.52  Aligned_cols=133  Identities=11%  Similarity=0.016  Sum_probs=71.3

Q ss_pred             ceeeeeeeccCccchhHHHHHHHhhhccccccceEEEEeeeccHHHHHHHHhhhhccccccccccccccccccccccccc
Q 011431          227 YRSYRCWLLCPLFSELRVLTNDVHQLMDNYENSDVTLAKFEGEVKKLDQRLLRFLESVDKHVASYDRYGSASFEQPRPQT  306 (486)
Q Consensus       227 ~~vi~I~GmGgGvGKTTLa~~vy~~~~~~F~~~~~~~v~~~~~l~~lqk~ll~~L~~~d~~~~~~~~~g~~s~l~~~L~~  306 (486)
                      ..-+=|||-- |+|||-|++++.|..........+..+.. ..+   -..+...+.+     +.      ...+++.. .
T Consensus       113 ~nplfi~G~~-GlGKTHLl~Aign~~~~~~~~a~v~y~~s-e~f---~~~~v~a~~~-----~~------~~~Fk~~y-~  175 (408)
T COG0593         113 YNPLFIYGGV-GLGKTHLLQAIGNEALANGPNARVVYLTS-EDF---TNDFVKALRD-----NE------MEKFKEKY-S  175 (408)
T ss_pred             CCcEEEECCC-CCCHHHHHHHHHHHHHhhCCCceEEeccH-HHH---HHHHHHHHHh-----hh------HHHHHHhh-c
Confidence            4456689988 99999999999998765554332222221 111   1122222211     00      12223333 2


Q ss_pred             CcceeeceecccC---HHHHH-HHh---cCCCCCCCCCEEEeeCCcccc----cc-c--cccCCCceEecCCCCCchhhh
Q 011431          307 TSAAHPYVEDVID---DAYME-DIT---DDSSPSLNLSRINSTSRFEQL----WP-E--TISATDTCTEDVTVDNSPSLN  372 (486)
Q Consensus       307 tKr~LlVLDDVw~---~~~~~-~l~---~~~~~~~~GSrIIiTTR~~~V----~~-~--~~~~~~~~y~v~~L~~~es~~  372 (486)
                        --++++||++-   ...++ .+.   +..  ...|-.||+|++.---    +. .  .......++++.+++.+....
T Consensus       176 --~dlllIDDiq~l~gk~~~qeefFh~FN~l--~~~~kqIvltsdr~P~~l~~~~~rL~SR~~~Gl~~~I~~Pd~e~r~a  251 (408)
T COG0593         176 --LDLLLIDDIQFLAGKERTQEEFFHTFNAL--LENGKQIVLTSDRPPKELNGLEDRLRSRLEWGLVVEIEPPDDETRLA  251 (408)
T ss_pred             --cCeeeechHhHhcCChhHHHHHHHHHHHH--HhcCCEEEEEcCCCchhhccccHHHHHHHhceeEEeeCCCCHHHHHH
Confidence              23788899873   11222 222   222  1234599999953211    00 0  011223589999999999988


Q ss_pred             hhcccCCC
Q 011431          373 LSSCNSSS  380 (486)
Q Consensus       373 LF~~~a~~  380 (486)
                      ...++|..
T Consensus       252 iL~kka~~  259 (408)
T COG0593         252 ILRKKAED  259 (408)
T ss_pred             HHHHHHHh
Confidence            88875543

>PRK07471 DNA polymerase III subunit delta'; Validated

Probab=80.88  E-value=15  Score=37.77  Aligned_cols=71  Identities=10%  Similarity=-0.047  Sum_probs=43.9

Q ss_pred             cceeeceeccc--CHHHHHHHhcCCCCCCCCCEEEeeCCccc-cccccccCCCceEecCCCCCchhhhhhcccCC
Q 011431          308 SAAHPYVEDVI--DDAYMEDITDDSSPSLNLSRINSTSRFEQ-LWPETISATDTCTEDVTVDNSPSLNLSSCNSS  379 (486)
Q Consensus       308 Kr~LlVLDDVw--~~~~~~~l~~~~~~~~~GSrIIiTTR~~~-V~~~~~~~~~~~y~v~~L~~~es~~LF~~~a~  379 (486)
                      ...++++||+.  +......++...-+-..++.+|++|.+.+ ++. ........+.+.+|+.++..+++..+..
T Consensus       141 ~~kVviIDead~m~~~aanaLLK~LEepp~~~~~IL~t~~~~~llp-ti~SRc~~i~l~~l~~~~i~~~L~~~~~  214 (365)
T PRK07471        141 GWRVVIVDTADEMNANAANALLKVLEEPPARSLFLLVSHAPARLLP-TIRSRCRKLRLRPLAPEDVIDALAAAGP  214 (365)
T ss_pred             CCEEEEEechHhcCHHHHHHHHHHHhcCCCCeEEEEEECCchhchH-HhhccceEEECCCCCHHHHHHHHHHhcc
Confidence            56688999986  34455555532211223566777666654 431 1111235789999999999999887643

>PRK00300 gmk guanylate kinase; Provisional

Probab=80.88  E-value=1.2  Score=41.55  Aligned_cols=24  Identities=0%  Similarity=-0.367  Sum_probs=21.2

Q ss_pred             eeeeeeeccCccchhHHHHHHHhhh
Q 011431          228 RSYRCWLLCPLFSELRVLTNDVHQL  252 (486)
Q Consensus       228 ~vi~I~GmGgGvGKTTLa~~vy~~~  252 (486)
                      .+|+|+|.. |.|||||++.+....
T Consensus         6 ~~i~i~G~s-GsGKstl~~~l~~~~   29 (205)
T PRK00300          6 LLIVLSGPS-GAGKSTLVKALLERD   29 (205)
T ss_pred             CEEEEECCC-CCCHHHHHHHHHhhC
Confidence            578899999 999999999997764

>PRK13695 putative NTPase; Provisional

Probab=80.36  E-value=1.3  Score=40.25  Aligned_cols=24  Identities=4%  Similarity=-0.266  Sum_probs=20.6

Q ss_pred             eeeeeeccCccchhHHHHHHHhhhc
Q 011431          229 SYRCWLLCPLFSELRVLTNDVHQLM  253 (486)
Q Consensus       229 vi~I~GmGgGvGKTTLa~~vy~~~~  253 (486)
                      .|.+.|.. |.|||||++.+++.+.
T Consensus         2 ~i~ltG~~-G~GKTTll~~i~~~l~   25 (174)
T PRK13695          2 KIGITGPP-GVGKTTLVLKIAELLK   25 (174)
T ss_pred             EEEEECCC-CCCHHHHHHHHHHHHH
Confidence            46789999 9999999999988764

>PHA02518 ParA-like protein; Provisional

Probab=80.32  E-value=1.2  Score=41.50  Aligned_cols=23  Identities=13%  Similarity=-0.175  Sum_probs=18.1

Q ss_pred             eeeeeeeccCccchhHHHHHHHh
Q 011431          228 RSYRCWLLCPLFSELRVLTNDVH  250 (486)
Q Consensus       228 ~vi~I~GmGgGvGKTTLa~~vy~  250 (486)
                      ++|++++--||+||||++-++=.
T Consensus         1 ~ii~v~~~KGGvGKTT~a~~la~   23 (211)
T PHA02518          1 KIIAVLNQKGGAGKTTVATNLAS   23 (211)
T ss_pred             CEEEEEcCCCCCCHHHHHHHHHH
Confidence            36778877779999999987633

>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=80.29  E-value=1.3  Score=38.42  Aligned_cols=23  Identities=9%  Similarity=-0.315  Sum_probs=19.6

Q ss_pred             eeeeeeccCccchhHHHHHHHhhh
Q 011431          229 SYRCWLLCPLFSELRVLTNDVHQL  252 (486)
Q Consensus       229 vi~I~GmGgGvGKTTLa~~vy~~~  252 (486)
                      +|.|.|.. |.||||+|+.+-...
T Consensus         1 ~I~i~G~~-GsGKst~a~~la~~~   23 (147)
T cd02020           1 IIAIDGPA-GSGKSTVAKLLAKKL   23 (147)
T ss_pred             CEEEECCC-CCCHHHHHHHHHHHh
Confidence            47789999 999999999886654

>PRK13768 GTPase; Provisional

Probab=80.28  E-value=1.2  Score=43.41  Aligned_cols=25  Identities=4%  Similarity=-0.352  Sum_probs=20.0

Q ss_pred             eeeeeeeccCccchhHHHHHHHhhhc
Q 011431          228 RSYRCWLLCPLFSELRVLTNDVHQLM  253 (486)
Q Consensus       228 ~vi~I~GmGgGvGKTTLa~~vy~~~~  253 (486)
                      .++.++|.| |.||||++..+-..+.
T Consensus         3 ~~i~v~G~~-G~GKTt~~~~~~~~l~   27 (253)
T PRK13768          3 YIVFFLGTA-GSGKTTLTKALSDWLE   27 (253)
T ss_pred             EEEEEECCC-CccHHHHHHHHHHHHH
Confidence            467789998 9999999988765543

>cd04155 Arl3 Arl3 subfamily

Probab=80.28  E-value=1.6  Score=39.04  Aligned_cols=25  Identities=8%  Similarity=-0.165  Sum_probs=21.0

Q ss_pred             CceeeeeeeccCccchhHHHHHHHhh
Q 011431          226 GYRSYRCWLLCPLFSELRVLTNDVHQ  251 (486)
Q Consensus       226 ~~~vi~I~GmGgGvGKTTLa~~vy~~  251 (486)
                      +...|+|+|.. |.|||||++.+.+.
T Consensus        13 ~~~~v~i~G~~-g~GKStLl~~l~~~   37 (173)
T cd04155          13 EEPRILILGLD-NAGKTTILKQLASE   37 (173)
T ss_pred             CccEEEEEccC-CCCHHHHHHHHhcC
Confidence            34457899999 99999999999764

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.

>cd00879 Sar1 Sar1 subfamily

Probab=80.12  E-value=2  Score=39.26  Aligned_cols=23  Identities=9%  Similarity=-0.211  Sum_probs=19.4

Q ss_pred             eeeeeeeccCccchhHHHHHHHhh
Q 011431          228 RSYRCWLLCPLFSELRVLTNDVHQ  251 (486)
Q Consensus       228 ~vi~I~GmGgGvGKTTLa~~vy~~  251 (486)
                      ..|.++|.+ |.|||||++.+.+.
T Consensus        20 ~ki~ilG~~-~~GKStLi~~l~~~   42 (190)
T cd00879          20 AKILFLGLD-NAGKTTLLHMLKDD   42 (190)
T ss_pred             CEEEEECCC-CCCHHHHHHHHhcC
Confidence            445899999 99999999988653

Sar1 is an essential component of COPII vesicle coats involved in export of cargo from the ER. The GTPase activity of Sar1 functions as a molecular switch to control protein-protein and protein-lipid interactions that direct vesicle budding from the ER. Activation of the GDP to the GTP-bound form of Sar1 involves the membrane-associated guanine nucleotide exchange factor (GEF) Sec12. Sar1 is unlike all Ras superfamily GTPases that use either myristoyl or prenyl groups to direct membrane association and function, in that Sar1 lacks such modification. Instead, Sar1 contains a unique nine-amino-acid N-terminal extension. This extension contains an evolutionarily conserved cluster of bulky hydrophobic amino acids, referred to as the Sar1-N-terminal activation recruitment (STAR) motif. The STAR motif mediates the recruitment of Sar1 to ER membranes and facilitates its interaction with mammalian Sec12 GEF leading to activation.

>TIGR00959 ffh signal recognition particle protein

Probab=80.07  E-value=6.1  Score=41.57  Aligned_cols=25  Identities=4%  Similarity=-0.420  Sum_probs=19.6

Q ss_pred             CceeeeeeeccCccchhHHHHHHHhh
Q 011431          226 GYRSYRCWLLCPLFSELRVLTNDVHQ  251 (486)
Q Consensus       226 ~~~vi~I~GmGgGvGKTTLa~~vy~~  251 (486)
                      ...++-++|.. |.||||.+.++-..
T Consensus        98 ~p~vi~~vG~~-GsGKTTtaakLA~~  122 (428)
T TIGR00959        98 PPTVILMVGLQ-GSGKTTTCGKLAYY  122 (428)
T ss_pred             CCEEEEEECCC-CCcHHHHHHHHHHH
Confidence            35688899999 99999987665443

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.

>TIGR01287 nifH nitrogenase iron protein

Probab=80.05  E-value=1.1  Score=43.97  Aligned_cols=22  Identities=9%  Similarity=-0.118  Sum_probs=17.3

Q ss_pred             eeeeeeeccCccchhHHHHHHHh
Q 011431          228 RSYRCWLLCPLFSELRVLTNDVH  250 (486)
Q Consensus       228 ~vi~I~GmGgGvGKTTLa~~vy~  250 (486)
                      +.|+|.|=| |+||||++-++=-
T Consensus         1 ~~ia~~gKG-GVGKTT~a~nLA~   22 (275)
T TIGR01287         1 RQIAIYGKG-GIGKSTTTQNIAA   22 (275)
T ss_pred             CeeEEeCCC-cCcHHHHHHHHHH
Confidence            468899977 9999998876643

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.

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	486
3ozi_A	204	Crystal Structure Of The Tir Domain From The Flax D		2e-27
3jrn_A	176	Crystal Structure Of Tir Domain From Arabidopsis Th		2e-25

>pdb|3OZI|A Chain A, Crystal Structure Of The Tir Domain From The Flax Disease Resistance Protein L6 Length = 204

Iteration: 1
 Score =  120 bits (300), Expect = 2e-27,   Method: Compositional matrix adjust.
 Identities = 60/159 (37%), Positives = 99/159 (62%), Gaps = 4/159 (2%)
Query: 21  KHDVFVTFSGEDIRENFGSYLFAALFRESVKTFRDE-QIRRGDEIMPALLQAIEESKISL 79
           +++VF++F G D RE F  +L+ +L R  + TFRD+ ++ +G EI P LL+AI++SKI +
Sbjct: 35  EYEVFLSFRGPDTREQFTDFLYQSLRRYKIHTFRDDDELLKGKEIGPNLLRAIDQSKIYV 94
Query: 80  VIFSKRFAFSRWCLEELVKIIECNK--LYQTVIPVFYKVLPSDVRNQLGSFGEAFLEHEK 137
            I S  +A S+WCL EL +I+   +    + ++P+FY V PSDVR+Q G + +AF +H  
Sbjct: 95  PIISSGYADSKWCLMELAEIVRRQEEDPRRIILPIFYMVDPSDVRHQTGCYKKAFRKHAN 154
Query: 138 SHDLRPKVGRWRDALREASDLAGWDSNVTRPESKLTDEI 176
             D +  +  W+DAL++  DL GW       +  + D++
Sbjct: 155 KFDGQ-TIQNWKDALKKVGDLKGWHIGKNDKQGAIADKV 192

>pdb|3JRN|A Chain A, Crystal Structure Of Tir Domain From Arabidopsis Thaliana Length = 176

Iteration: 1
 Score =  114 bits (284), Expect = 2e-25,   Method: Compositional matrix adjust.
 Identities = 67/172 (38%), Positives = 99/172 (57%), Gaps = 5/172 (2%)
Query: 21  KHDVFVTFSGEDIRENFGSYLFAALFRESVKTFRDE-QIRRGDEIMPALLQAIEESKISL 79
           K+DVF++F G D R NF S+L+  L R S++TF+D+ ++  G    P L   IE S+ ++
Sbjct: 8   KYDVFLSFRGHDTRHNFISFLYKELVRRSIRTFKDDKELENGQRFSPELKSPIEVSRFAV 67
Query: 80  VIFSKRFAFSRWCLEELVKIIECNKLYQ-TVIPVFYKVLPSDVRNQLGSFGEAFLEHEKS 138
           V+ S+ +A S WCL+ELV I++  K    TV+P+FY V P+ VR Q G   E F +H   
Sbjct: 68  VVVSENYAASSWCLDELVTIMDFEKKGSITVMPIFYGVEPNHVRWQTGVLAEQFKKHASR 127
Query: 139 HDLRPKVGRWRDALREASDLAGWDSNVTRPESKLTDEIVNGVVENLKSFAEL 190
            D   KV +WR AL   + L+G  S     +SKL D+I N +      +A +
Sbjct: 128 EDPE-KVLKWRQALTNFAQLSGDCSG--DDDSKLVDKIANEISNKKTIYATI 176

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	486
3ozi_A	204	L6TR; plant TIR domain, plant protein; 2.30A {Linu	9e-80
3jrn_A	176	AT1G72930 protein; TIR domain arabidopsis thaliana	4e-76
3h16_A	154	TIR protein; bacteria TIR domain, signaling protei	1e-57
3ub2_A	146	TOLL/interleukin-1 receptor domain-containing ADA	1e-10
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	2e-05
2j67_A	178	TOLL like receptor 10; TIR, IL-1, TLR10, membrane,	9e-05
1t3g_A	159	X-linked interleukin-1 receptor accessory protein-	2e-04
2js7_A	160	Myeloid differentiation primary response protein M	6e-04

>3ozi_A L6TR; plant TIR domain, plant protein; 2.30A {Linum usitatissimum} Length = 204

 Score =  246 bits (629), Expect = 9e-80
 Identities = 63/187 (33%), Positives = 107/187 (57%), Gaps = 10/187 (5%)

Query: 1   MASSSLSSSSSRRLRDQWRYKHDVFVTFSGEDIRENFGSYLFAALFRESVKTFRD-EQIR 59
           ++ S+  S S          +++VF++F G D RE F  +L+ +L R  + TFRD +++ 
Sbjct: 21  ISDSTNPSGSFPS------VEYEVFLSFRGPDTREQFTDFLYQSLRRYKIHTFRDDDELL 74

Query: 60  RGDEIMPALLQAIEESKISLVIFSKRFAFSRWCLEELVKIIECNKLY--QTVIPVFYKVL 117
           +G EI P LL+AI++SKI + I S  +A S+WCL EL +I+   +    + ++P+FY V 
Sbjct: 75  KGKEIGPNLLRAIDQSKIYVPIISSGYADSKWCLMELAEIVRRQEEDPRRIILPIFYMVD 134

Query: 118 PSDVRNQLGSFGEAFLEHEKSHDLRPKVGRWRDALREASDLAGWDSNVTRPESKLTDEIV 177
           PSDVR+Q G + +AF +H    D    +  W+DAL++  DL GW       +  + D++ 
Sbjct: 135 PSDVRHQTGCYKKAFRKHANKFD-GQTIQNWKDALKKVGDLKGWHIGKNDKQGAIADKVS 193

Query: 178 NGVVENL 184
             +  ++
Sbjct: 194 ADIWSHI 200

>3jrn_A AT1G72930 protein; TIR domain arabidopsis thaliana, plant protein; 2.00A {Arabidopsis thaliana} Length = 176

 Score =  235 bits (602), Expect = 4e-76
 Identities = 69/187 (36%), Positives = 104/187 (55%), Gaps = 13/187 (6%)

Query: 6   LSSSSSRRLRDQWRYKHDVFVTFSGEDIRENFGSYLFAALFRESVKTFRD-EQIRRGDEI 64
           +SS ++         K+DVF++F G D R NF S+L+  L R S++TF+D +++  G   
Sbjct: 1   MSSHTA--------TKYDVFLSFRGHDTRHNFISFLYKELVRRSIRTFKDDKELENGQRF 52

Query: 65  MPALLQAIEESKISLVIFSKRFAFSRWCLEELVKIIECNKLY-QTVIPVFYKVLPSDVRN 123
            P L   IE S+ ++V+ S+ +A S WCL+ELV I++  K    TV+P+FY V P+ VR 
Sbjct: 53  SPELKSPIEVSRFAVVVVSENYAASSWCLDELVTIMDFEKKGSITVMPIFYGVEPNHVRW 112

Query: 124 QLGSFGEAFLEHEKSHDLRPKVGRWRDALREASDLAGWDSNVTRPESKLTDEIVNGVVEN 183
           Q G   E F +H    D   KV +WR AL   + L+G  S     +SKL D+I N +   
Sbjct: 113 QTGVLAEQFKKHASRED-PEKVLKWRQALTNFAQLSGDCSG--DDDSKLVDKIANEISNK 169

Query: 184 LKSFAEL 190
              +A +
Sbjct: 170 KTIYATI 176

>3h16_A TIR protein; bacteria TIR domain, signaling protein; 2.50A {Paracoccus denitrificans PD1222} Length = 154

 Score =  187 bits (476), Expect = 1e-57
 Identities = 25/154 (16%), Positives = 67/154 (43%), Gaps = 7/154 (4%)

Query: 1   MASSSLSSSSSRRLRDQWRYKHDVFVTFSGEDIRENFGSYLFAALFRESVKTFRDEQ-IR 59
           M  ++   +++  L     +  D+F++ + ED + +F   L   L     + + D+  +R
Sbjct: 3   MKPTA-GPTTNADLTSAPPH--DIFISHAWED-KADFVEALAHTLRAAGAEVWYDDFSLR 58

Query: 60  RGDEIMPALLQAIEESKISLVIFSKRFAFSRWCLEELVKIIECNKLY-QTVIPVFYKVLP 118
            GD +  ++ + +  S+  +V+ S  F    W  +EL  + +        ++P+++KV  
Sbjct: 59  PGDSLRRSIDKGLGSSRFGIVVLSTHFFKKEWPQKELDGLFQLESSGRSRILPIWHKVSK 118

Query: 119 SDVRNQLGSFGEAFLEHEKSHDLRPKVGRWRDAL 152
            +V +   +  +    +  +  +  ++     A+
Sbjct: 119 DEVASFSPTMADKLAFNTSTKSVD-EIVADLMAI 151

>3ub2_A TOLL/interleukin-1 receptor domain-containing ADA protein; TIR domain, TLRS adaptor, immune system; 2.40A {Homo sapiens} PDB: 3ub3_A 3ub4_A 2y92_A Length = 146

 Score = 58.5 bits (142), Expect = 1e-10
 Identities = 29/143 (20%), Positives = 53/143 (37%), Gaps = 15/143 (10%)

Query: 17  QWRYKHDVFVTFSGEDIRENFGSYLFAAL--FRESVKTFRDEQ-IRRGDEIMPALLQAIE 73
           +W   +DV V  S ED        L + L     S++ F   +    G  I+  L QA+ 
Sbjct: 6   RWSKDYDVCVCHSEED--LVAAQDLVSYLEGSTASLRCFLQLRDATPGGAIVSELCQALS 63

Query: 74  ESKISLVIFSKRFAFSRWCLEELVKIIECNKLYQ-TVIPVFYKVLPSDVRNQLGSFGEAF 132
            S   +++ +  F    WC  ++++ +      +   IP+   +  +             
Sbjct: 64  SSHCRVLLITPGFLQDPWCKYQMLQALTEAPGAEGCTIPLLSGLSRAAYP--------PE 115

Query: 133 LEHEKSHDLRPKVGRWRDALREA 155
           L      D R   G +R  ++EA
Sbjct: 116 LRFMYYVDGRGPDGGFRQ-VKEA 137

>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 = 46.4 bits (109), Expect = 2e-05
 Identities = 69/455 (15%), Positives = 142/455 (31%), Gaps = 138/455 (30%)

Query: 17  QWRYKHDVFVTFSGEDIRENFG-----SYLFAALFRESVKTF-----RDEQIRRGDEIMP 66
           Q++YK D+   F  +   +NF          + L +E +              R      
Sbjct: 15  QYQYK-DILSVFE-DAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGTLR------ 66

Query: 67  ALLQAIEESKISLVIFSKRFAFS------RWCLEELVKIIECNKLYQTVIPVFYKVLPSD 120
            L   +   +  +V   ++F         ++ +  +    E  +      P     +  +
Sbjct: 67  -LFWTLLSKQEEMV---QKFVEEVLRINYKFLMSPIKT--EQRQ------PSMMTRMYIE 114

Query: 121 VRNQLGSFGEAFLEHEKSHDLRPK-VGRWRDALREASDLAGWDSNVTRPESKLTDEIVNG 179
            R++L +  + F    K +  R +   + R AL E            RP   +   +++G
Sbjct: 115 QRDRLYNDNQVF---AKYNVSRLQPYLKLRQALLEL-----------RPAKNV---LIDG 157

Query: 180 VVENLKSFAELMEKELVVLFNRARDKLDNHASSLLDEVLSLLRNAEGYRSYRCWL----L 235
           V+ + K+           +   A           L   +    + + +     WL     
Sbjct: 158 VLGSGKT----------WV---A-------LDVCLSYKVQCKMDFKIF-----WLNLKNC 192

Query: 236 CPLFSELRVLTNDVHQLMDNYENSDVTLAKFEGEVKKLDQRLLRFLESVDKHVASYDRYG 295
               + L +L   ++Q+  N+ +     +  +  +  +   L R L+S            
Sbjct: 193 NSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKS------------ 240

Query: 296 SASFEQPRPQTTSAAHPYVED--VIDDAYMEDITDDSSPSLNLS-RINSTSRFEQLWPET 352
                           PY     V+ +       +    + NLS +I  T+RF       
Sbjct: 241 ---------------KPYENCLLVLLNVQNAKAWN----AFNLSCKILLTTRF------- 274

Query: 353 ISATDTCTEDVTVDNSPSLNLSSCNSSSTFKEAIF--KLEIHHDNL--EAWRA---AFSI 405
              TD  +   T     SL+  S   +    +++    L+    +L  E         SI
Sbjct: 275 KQVTDFLSAATTTH--ISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSI 332

Query: 406 VSEFIGITKISFDF-----KVKKMTVVGDNFDVLS 435
           ++E I     ++D        K  T++  + +VL 
Sbjct: 333 IAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLE 367

>2j67_A TOLL like receptor 10; TIR, IL-1, TLR10, membrane, innate immunity, immune response, leucine-rich repeat, glycoprotein, transmembrane; 2.20A {Homo sapiens} PDB: 1fyv_A Length = 178

 Score = 42.2 bits (99), Expect = 9e-05
 Identities = 17/113 (15%), Positives = 37/113 (32%), Gaps = 10/113 (8%)

Query: 20  YKHDVFVTFSGEDIRENFGSYLFAALFRESVKTFR----DEQIRRGDEIMPALLQAIEES 75
            +   F+++S  D    +          +   +      +     G  I   ++  IE+S
Sbjct: 34  VRFHAFISYSEHD--SLWVKNELIPNLEKEDGSILICLYESYFDPGKSISENIVSFIEKS 91

Query: 76  KISLVIFSKRFAFSRWCLEELVKIIECNKLYQ---TVIPVFYKVLPSDVRNQL 125
             S+ + S  F  + WC  E       N  ++    +I +  + +P       
Sbjct: 92  YKSIFVLSPNFVQNEWCHYEF-YFAHHNLFHENSDHIILILLEPIPFYCIPTR 143

>1t3g_A X-linked interleukin-1 receptor accessory protein-like 1; TIR, IL-1RAPL, IL-1R, TLR, membrane protein; 2.30A {Homo sapiens} Length = 159

 Score = 40.8 bits (95), Expect = 2e-04
 Identities = 14/120 (11%), Positives = 38/120 (31%), Gaps = 15/120 (12%)

Query: 21  KHDVFVTFSGEDIRENFGSYLFAALF-----------RESVKTFRDE-QIRRGDEIMPAL 68
            +D +++++  D  +          F               K F  +  +      +  +
Sbjct: 2   DYDAYLSYTKVDPDQWNQETGEEERFALEILPDMLEKHYGYKLFIPDRDLIPTGTYIEDV 61

Query: 69  LQAIEESKISLVIFSKRFAFSRWCLEELVKIIECNKLYQ---TVIPVFYKVLPSDVRNQL 125
            + +++SK  +++ +  +   R      ++    N L      VI +    L   +  Q 
Sbjct: 62  ARCVDQSKRLIIVMTPNYVVRRGWSIFELETRLRNMLVTGEIKVILIECSELRGIMNYQE 121

>2js7_A Myeloid differentiation primary response protein MYD88; MYD88_human, TIR domain, TOLL like receptor adaptor domain, innate immune signaling; NMR {Homo sapiens} PDB: 2z5v_A Length = 160

 Score = 39.3 bits (92), Expect = 6e-04
 Identities = 21/120 (17%), Positives = 41/120 (34%), Gaps = 14/120 (11%)

Query: 15  RDQWRYKHDVFVTFSGEDIRENFGSYLFAAL--FRESVKTF---RDEQIRRGDEIMPALL 69
                 + D F+ +   D    F   +   L      +K     RD  +  G  +     
Sbjct: 10  LGHMPERFDAFICYCPSD--IQFVQEMIRQLEQTNYRLKLCVSDRD--VLPGTCVWSIAS 65

Query: 70  QAIEE-SKISLVIFSKRFAFSRWCLEELVKIIECNKLYQ---TVIPVFYKVLPSDVRNQL 125
           + IE+  +  +V+ S  +  S+ C  +  K             +IP+ YK +  +  + L
Sbjct: 66  ELIEKRCRRMVVVVSDDYLQSKECDFQT-KFALSLSPGAHQKRLIPIKYKAMKKEFPSIL 124

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	486
3ozi_A	204	L6TR; plant TIR domain, plant protein; 2.30A {Linu	100.0
3jrn_A	176	AT1G72930 protein; TIR domain arabidopsis thaliana	100.0
3h16_A	154	TIR protein; bacteria TIR domain, signaling protei	99.96
3ub2_A	146	TOLL/interleukin-1 receptor domain-containing ADA	99.88
2a5y_B	549	CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis	99.87
1fyx_A	149	TOLL-like receptor 2; beta-alpha-beta fold, signal	99.83
2j67_A	178	TOLL like receptor 10; TIR, IL-1, TLR10, membrane,	99.82
1t3g_A	159	X-linked interleukin-1 receptor accessory protein-	99.82
2js7_A	160	Myeloid differentiation primary response protein M	99.82
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	99.73
3sfz_A	1249	APAF-1, apoptotic peptidase activating factor 1; a	99.69
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	99.52
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	99.49
3iwl_A	68	Copper transport protein ATOX1; beta-alpha-beta-BE	98.63
1cc8_A	73	Protein (metallochaperone ATX1); copper transport,	98.46
2crl_A	98	Copper chaperone for superoxide dismutase; SOD1, f	98.35
1w5s_A	412	Origin recognition complex subunit 2 ORC2; replica	98.13
4a4j_A	69	Pacszia, cation-transporting ATPase PACS; hydrolas	98.1
1njg_A	250	DNA polymerase III subunit gamma; rossman-like fol	98.06
2qby_B	384	CDC6 homolog 3, cell division control protein 6 ho	98.05
3dxs_X	74	Copper-transporting ATPase RAN1; CXXC motif, ferre	97.95
3fry_A	73	Probable copper-exporting P-type ATPase A; transpo	97.93
1qup_A	222	Superoxide dismutase 1 copper chaperone; two domai	97.72
2roe_A	66	Heavy metal binding protein; NMR {Thermus thermoph	97.65
2xmm_A	64	SSR2857 protein, ATX1; metal transport, copper hom	97.63
2chg_A	226	Replication factor C small subunit; DNA-binding pr	97.6
1jk9_B	249	CCS, copper chaperone for superoxide dismutase; pr	97.56
2qby_A	386	CDC6 homolog 1, cell division control protein 6 ho	97.56
2k2p_A	85	Uncharacterized protein ATU1203; putative metal-bi	97.5
2qen_A	350	Walker-type ATPase; unknown function; HET: ADP; 2.	97.48
2l3m_A	71	Copper-ION-binding protein; structural genomics, c	97.38
2xmw_A	71	PACS-N, cation-transporting ATPase PACS; hydrolase	97.37
1osd_A	72	MERP, hypothetical protein MERP; mercury resistanc	97.36
1q8l_A	84	Copper-transporting ATPase 1; metal binding protei	97.35
1fvq_A	72	Copper-transporting ATPase; APO-CCC2A, hydrolase;	97.29
2v1u_A	387	Cell division control protein 6 homolog; DNA repli	97.16
1yg0_A	66	COP associated protein; open-faced beta-sandwich,	97.15
3cjk_B	75	Copper-transporting ATPase 1; HAH1, ATP7B, menkes	97.15
1aw0_A	72	Menkes copper-transporting ATPase; copper-binding	97.15
1y3j_A	77	Copper-transporting ATPase 1; ferrodoxin-like fold	97.13
1mwy_A	73	ZNTA; open-faced beta-sandwich fold, beta-alpha-be	97.07
1cpz_A	68	Protein (COPZ); copper chaperone, metal transport,	97.06
2fna_A	357	Conserved hypothetical protein; structural genomic	97.05
2g9o_A	90	Copper-transporting ATPase 1; menkes disease, solu	97.05
2qif_A	69	Copper chaperone COPZ; tetranuclear Cu(I) cluster;	96.99
1sxj_B	323	Activator 1 37 kDa subunit; clamp loader, processi	96.98
1kvi_A	79	Copper-transporting ATPase 1; menkes, Cu-protein,	96.91
1yjr_A	75	Copper-transporting ATPase 1; metallochaperone, pr	96.84
1opz_A	76	Potential copper-transporting ATPase; mutation, fo	96.81
2kt2_A	69	Mercuric reductase; nmera, MERA, HMA domain, mercu	96.79
2ofg_X	111	Zinc-transporting ATPase; ferredoxin-like fold, be	96.77
2ldi_A	71	Zinc-transporting ATPase; metal homeostasis, metal	96.74
2kkh_A	95	Putative heavy metal transporter; zinc transport,	96.74
2z4s_A	440	Chromosomal replication initiator protein DNAA; AA	96.65
2kyz_A	67	Heavy metal binding protein; structural genomics,	96.64
1p6t_A	151	Potential copper-transporting ATPase; COPA, P-type	96.63
1eiw_A	111	Hypothetical protein MTH538; CHEY-like fold, flavo	96.61
2aj0_A	71	Probable cadmium-transporting ATPase; ferrodoxin-l	96.6
1iqp_A	327	RFCS; clamp loader, extended AAA-ATPase domain, co	96.54
1fnn_A	389	CDC6P, cell division control protein 6; ORC1, AAA	96.5
1jww_A	80	Potential copper-transporting ATPase; beta-alpha-b	96.42
2ew9_A	149	Copper-transporting ATPase 2; copper trafficking,	96.09
2rop_A	202	Copper-transporting ATPase 2; wilson protein, mobi	95.97
3hyn_A	189	Putative signal transduction protein; DUF1863 fami	95.94
2ew9_A	149	Copper-transporting ATPase 2; copper trafficking,	95.14
3h4m_A	285	Proteasome-activating nucleotidase; ATPase, PAN, A	95.07
1jr3_A	373	DNA polymerase III subunit gamma; processivity, pr	94.72
2rop_A	202	Copper-transporting ATPase 2; wilson protein, mobi	94.53
1l8q_A	324	Chromosomal replication initiator protein DNAA; AA	94.49
2chq_A	319	Replication factor C small subunit; DNA-binding pr	94.27
1d2n_A	272	N-ethylmaleimide-sensitive fusion protein; hexamer	94.01
1p6t_A	151	Potential copper-transporting ATPase; COPA, P-type	93.87
3syl_A	309	Protein CBBX; photosynthesis, rubisco activase, AA	93.73
2qz4_A	262	Paraplegin; AAA+, SPG7, protease, ADP, structural	93.33
3cf0_A	301	Transitional endoplasmic reticulum ATPase; AAA, P9	92.27
3u61_B	324	DNA polymerase accessory protein 44; AAA+, ATP hyd	91.66
3pvs_A	447	Replication-associated recombination protein A; ma	91.4
3j09_A	723	COPA, copper-exporting P-type ATPase A; copper tra	91.26
1a5t_A	334	Delta prime, HOLB; zinc finger, DNA replication; 2	90.65
3eie_A	322	Vacuolar protein sorting-associated protein 4; AAA	90.5
3lw7_A	179	Adenylate kinase related protein (ADKA-like); AMP,	89.91
1zu4_A	320	FTSY; GTPase, signal recognition particle, SRP, re	89.71
1sxj_A	516	Activator 1 95 kDa subunit; clamp loader, processi	89.64
3te6_A	318	Regulatory protein SIR3; heterochromatin, gene sil	89.22
3ec2_A	180	DNA replication protein DNAC; helicase loader, rep	89.08
1odf_A	290	YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser	88.75
1jbk_A	195	CLPB protein; beta barrel, chaperone; 1.80A {Esche	88.37
3kb2_A	173	SPBC2 prophage-derived uncharacterized protein YOR	88.16
2w58_A	202	DNAI, primosome component (helicase loader); ATP-b	88.05
3c8u_A	208	Fructokinase; YP_612366.1, putative fructose trans	87.71
2zan_A	444	Vacuolar protein sorting-associating protein 4B; S	87.5
1qhx_A	178	CPT, protein (chloramphenicol phosphotransferase);	87.2
3vfd_A	389	Spastin; ATPase, microtubule severing, hydrolase;	86.91
3vaa_A	199	Shikimate kinase, SK; structural genomics, center	86.76
1zp6_A	191	Hypothetical protein ATU3015; alpha-beta protein.,	86.63
1rz3_A	201	Hypothetical protein rbstp0775; MCSG, structural g	86.58
2jaq_A	205	Deoxyguanosine kinase; transferase, deoxyribonucle	85.98
1kag_A	173	SKI, shikimate kinase I; transferase, structural g	85.89
1xjc_A	169	MOBB protein homolog; structural genomics, midwest	85.64
2p65_A	187	Hypothetical protein PF08_0063; CLPB, malaria, str	85.53
3iij_A	180	Coilin-interacting nuclear ATPase protein; alpha a	85.38
3bpd_A	100	Uncharacterized protein; heptamer, Mg+2 ION, PSI-2	85.36
3trf_A	185	Shikimate kinase, SK; amino acid biosynthesis, tra	85.33
2kjq_A	149	DNAA-related protein; solution structure, NESG, st	85.0
3t61_A	202	Gluconokinase; PSI-biology, structural genomics, p	84.98
1kgd_A	180	CASK, peripheral plasma membrane CASK; maguk, guan	84.81
1nks_A	194	Adenylate kinase; thermophilic, transferase; HET:	84.62
2og2_A	359	Putative signal recognition particle receptor; nuc	84.53
2ga8_A	359	Hypothetical 39.9 kDa protein; YFR007W, YFH7, unkn	84.48
3b9q_A	302	Chloroplast SRP receptor homolog, alpha subunit CP	84.4
3ea0_A	245	ATPase, para family; alpha-beta-alpha sandwich, st	84.32
2hf9_A	226	Probable hydrogenase nickel incorporation protein	84.27
1ly1_A	181	Polynucleotide kinase; PNK, phosphatase, transfera	84.21
3bos_A	242	Putative DNA replication factor; P-loop containing	84.13
1zuh_A	168	Shikimate kinase; alpha-beta protein, transferase;	84.12
1knq_A	175	Gluconate kinase; ALFA/beta structure, transferase	84.07
2if2_A	204	Dephospho-COA kinase; alpha-beta protein, structur	83.85
2yvu_A	186	Probable adenylyl-sulfate kinase; transferase, str	83.83
4dzz_A	206	Plasmid partitioning protein PARF; deviant walker	83.69
1kht_A	192	Adenylate kinase; phosphotransferase, signaling pr	83.42
3cwq_A	209	Para family chromosome partitioning protein; alpha	83.34
2bdt_A	189	BH3686; alpha-beta protein, structural genomics, P	83.33
2qor_A	204	Guanylate kinase; phosphotransferase, purine metab	83.24
2qt1_A	207	Nicotinamide riboside kinase 1; non-protein kinase	83.19
3a00_A	186	Guanylate kinase, GMP kinase; domain movement, dim	83.17
4eun_A	200	Thermoresistant glucokinase; putative sugar kinase	83.15
3fwy_A	314	Light-independent protochlorophyllide reductase I	83.01
2x3d_A	96	SSO6206; unknown function; 2.70A {Sulfolobus solfa	83.0
1gtv_A	214	TMK, thymidylate kinase; transferase, transferase	82.91
2wsm_A	221	Hydrogenase expression/formation protein (HYPB); m	82.84
2j41_A	207	Guanylate kinase; GMP, GMK, transferase, ATP-bindi	82.81
1uf9_A	203	TT1252 protein; P-loop, nucleotide binding domain,	82.8
2iyv_A	184	Shikimate kinase, SK; transferase, aromatic amino	82.63
2yhs_A	503	FTSY, cell division protein FTSY; cell cycle, prot	82.57
3uie_A	200	Adenylyl-sulfate kinase 1, chloroplastic; rossmann	82.44
1ukz_A	203	Uridylate kinase; transferase; HET: ADP AMP; 1.90A	82.35
1via_A	175	Shikimate kinase; structural genomics, transferase	82.3
3tr0_A	205	Guanylate kinase, GMP kinase; purines, pyrimidines	82.13
1ye8_A	178	Protein THEP1, hypothetical UPF0334 kinase-like pr	82.11
2rhm_A	193	Putative kinase; P-loop containing nucleoside trip	82.03
3asz_A	211	Uridine kinase; cytidine phosphorylation, transfer	81.84
3k9g_A	267	PF-32 protein; ssgcid, SBRI, decode biostructures,	81.84
3q9l_A	260	Septum site-determining protein MIND; ATPase, bact	81.58
2pt5_A	168	Shikimate kinase, SK; aromatic amino acid biosynth	81.58
2raq_A	97	Conserved protein MTH889; alpha-beta protein, stru	81.43
3t15_A	293	Ribulose bisphosphate carboxylase/oxygenase activ	81.42
1e6c_A	173	Shikimate kinase; phosphoryl transfer, ADP, shikim	81.42
2c95_A	196	Adenylate kinase 1; transferase, AP4A, nucleotide	81.37
2pbr_A	195	DTMP kinase, thymidylate kinase; transferase, nucl	81.22
2bwj_A	199	Adenylate kinase 5; phosphoryl transfer reaction,	81.22
1tev_A	196	UMP-CMP kinase; ploop, NMP binding region, LID reg	81.17
2vli_A	183	Antibiotic resistance protein; transferase, tunica	81.08
2px0_A	296	Flagellar biosynthesis protein FLHF; SRP GTPase, f	81.01
1cke_A	227	CK, MSSA, protein (cytidine monophosphate kinase);	81.0
3p32_A	355	Probable GTPase RV1496/MT1543; structural genomics	80.99
2p5t_B	253	PEZT; postsegregational killing system, phosphoryl	80.88
1jjv_A	206	Dephospho-COA kinase; P-loop nucleotide-binding fo	80.86
1g3q_A	237	MIND ATPase, cell division inhibitor; alpha-beta-a	80.63
2ged_A	193	SR-beta, signal recognition particle receptor beta	80.55
1tue_A	212	Replication protein E1; helicase, replication, E1E	80.44
2gno_A	305	DNA polymerase III, gamma subunit-related protein;	80.38
3tau_A	208	Guanylate kinase, GMP kinase; structural genomics,	80.35
2xxa_A	433	Signal recognition particle protein; protein trans	80.31
4gp7_A	171	Metallophosphoesterase; polynucleotide kinase phos	80.25
1lvg_A	198	Guanylate kinase, GMP kinase; transferase; HET: AD	80.22
3cm0_A	186	Adenylate kinase; ATP-binding, cytoplasm, nucleoti	80.18
1qf9_A	194	UMP/CMP kinase, protein (uridylmonophosphate/cytid	80.15
1uj2_A	252	Uridine-cytidine kinase 2; alpha/beta mononucleoti	80.03

>3ozi_A L6TR; plant TIR domain, plant protein; 2.30A {Linum usitatissimum}

Probab=100.00  E-value=2.4e-52  Score=383.74  Aligned_cols=176  Identities=35%  Similarity=0.693  Sum_probs=159.9

Q ss_pred             CCCCCCCCCCceecCceEEecccCccCcChHHHHHHHHhcCCCeEEEeC-CcCCCCCchHHHHHHHhhccceEEEeeccc
Q 011431            8 SSSSRRLRDQWRYKHDVFVTFSGEDIRENFGSYLFAALFRESVKTFRDE-QIRRGDEIMPALLQAIEESKISLVIFSKRF   86 (486)
Q Consensus         8 ~~~~~~~~~~~~y~~dVFis~~~~D~~~~f~~~L~~~L~~~gi~~~~d~-~~~~g~~i~~~i~~~I~~s~~~ivv~S~~y   86 (486)
                      |+++|+++++++|  ||||||||+|+|++|++||+++|+++||++|+|+ ++.+|+.|.++|.+||++|+++|+|||+||
T Consensus        24 s~~~s~~~~~~~y--DVFISfrg~D~r~~Fv~~L~~aL~~~GI~~f~D~~el~~G~~I~~~l~~aIe~Sri~IvV~S~nY  101 (204)
T 3ozi_A           24 STNPSGSFPSVEY--EVFLSFRGPDTREQFTDFLYQSLRRYKIHTFRDDDELLKGKEIGPNLLRAIDQSKIYVPIISSGY  101 (204)
T ss_dssp             ----------CCC--CEEEEECHHHHTTTHHHHHHHHHHHTTCCEEEEETTTCCGGGTTTTHHHHHHHCSEEEEEECTTG
T ss_pred             CCCCcCCCCCcCC--eEEEeccccCCCHHHHHHHHHHHHHCCCcEEEeCCccCCCCchHHHHHHHHHhCcEeeEEEEccc
Confidence            4555667778989  9999999999999999999999999999999998 999999999999999999999999999999


Q ss_pred             ccChhhHHHHHHHHHH-hc-CCCEEEEEEeeecCCccccccCchHHHHHHhHhhCCCchhhccHHHHHHHhhhccCCCCC
Q 011431           87 AFSRWCLEELVKIIEC-NK-LYQTVIPVFYKVLPSDVRNQLGSFGEAFLEHEKSHDLRPKVGRWRDALREASDLAGWDSN  164 (486)
Q Consensus        87 ~~S~wcl~El~~i~~~-~~-~~~~v~Pify~v~~s~vr~q~g~f~~~f~~~~~~~~~~e~i~~Wr~AL~eva~~~G~~~~  164 (486)
                      ++|.||++||++|++| ++ .+++||||||+|+|++||+|+|.||++|.+|+.++. .+++++|+.||++||+++||++.
T Consensus       102 a~S~WCl~EL~~I~e~~~~~~~~~ViPIFY~VdPs~Vr~q~g~fg~af~~~~~~~~-~~~v~~Wr~AL~~va~lsG~~~~  180 (204)
T 3ozi_A          102 ADSKWCLMELAEIVRRQEEDPRRIILPIFYMVDPSDVRHQTGCYKKAFRKHANKFD-GQTIQNWKDALKKVGDLKGWHIG  180 (204)
T ss_dssp             GGCHHHHHHHHHHHHHHHHCTTSEECCEEESSCHHHHHHTCTTHHHHHHHHTTTSC-HHHHHHHHHHHHHHHTSCBEEEC
T ss_pred             ccCcHHHHHHHHHHHHHHhcCCeeeEEEEeecCHHHHHhccccHHHHHHHHHHhhC-HHHHHHHHHHHHHHhccCceecC
Confidence            9999999999999999 54 689999999999999999999999999999999886 68999999999999999999999


Q ss_pred             CCCCcchhhhhHHHhHHhhhhh
Q 011431          165 VTRPESKLTDEIVNGVVENLKS  186 (486)
Q Consensus       165 ~~~~E~~~I~~IV~~V~~~L~~  186 (486)
                      ...+|+++|++||++|..+|+.
T Consensus       181 ~~~~e~~~i~~Iv~di~~kl~~  202 (204)
T 3ozi_A          181 KNDKQGAIADKVSADIWSHISK  202 (204)
T ss_dssp             TTSCHHHHHHHHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHHHhcc
Confidence            9988999999999999999863

>3jrn_A AT1G72930 protein; TIR domain arabidopsis thaliana, plant protein; 2.00A {Arabidopsis thaliana}

Probab=100.00  E-value=9.1e-51  Score=367.67  Aligned_cols=168  Identities=40%  Similarity=0.703  Sum_probs=143.8

Q ss_pred             CCceecCceEEecccCccCcChHHHHHHHHhcCCCeEEEeC-CcCCCCCchHHHHHHHhhccceEEEeecccccChhhHH
Q 011431           16 DQWRYKHDVFVTFSGEDIRENFGSYLFAALFRESVKTFRDE-QIRRGDEIMPALLQAIEESKISLVIFSKRFAFSRWCLE   94 (486)
Q Consensus        16 ~~~~y~~dVFis~~~~D~~~~f~~~L~~~L~~~gi~~~~d~-~~~~g~~i~~~i~~~I~~s~~~ivv~S~~y~~S~wcl~   94 (486)
                      .++.|  ||||||||+|+|++|++||+++|+++||++|+|+ ++.+|+.|.++|.+||++|+++|+|||+||++|+||++
T Consensus         5 ~~~~y--DVFiSfrg~D~r~~Fv~~L~~~L~~~gi~~f~D~~~l~~G~~i~~~l~~aIe~Sri~IvV~S~ny~~S~WCl~   82 (176)
T 3jrn_A            5 TATKY--DVFLSFRGHDTRHNFISFLYKELVRRSIRTFKDDKELENGQRFSPELKSPIEVSRFAVVVVSENYAASSWCLD   82 (176)
T ss_dssp             --CCE--EEEEEECHHHHTTTHHHHHHHHHHHTTCCEECCCC--------------CCTTEEEEEEEECTTTTTCHHHHH
T ss_pred             CCCCC--eEEEECcCcccChHHHHHHHHHHHHCCCEEEEEcccccCCCchHHHHHHHHHhCCEEEEEecCCcCCChhHHH
Confidence            47889  9999999999999999999999999999999998 99999999999999999999999999999999999999


Q ss_pred             HHHHHHHH-hcCCCEEEEEEeeecCCccccccCchHHHHHHhHhhCCCchhhccHHHHHHHhhhccCCCCCCCCCcchhh
Q 011431           95 ELVKIIEC-NKLYQTVIPVFYKVLPSDVRNQLGSFGEAFLEHEKSHDLRPKVGRWRDALREASDLAGWDSNVTRPESKLT  173 (486)
Q Consensus        95 El~~i~~~-~~~~~~v~Pify~v~~s~vr~q~g~f~~~f~~~~~~~~~~e~i~~Wr~AL~eva~~~G~~~~~~~~E~~~I  173 (486)
                      ||++|++| ++.++.||||||+|+|++||+|+|+||++|.+++.+.. .+++++|+.||++||+++||++.  ++|+++|
T Consensus        83 EL~~i~~~~~~~~~~ViPIfy~V~ps~Vr~q~g~fg~af~~~~~~~~-~~~~~~Wr~AL~~va~~~G~~~~--~~e~~~i  159 (176)
T 3jrn_A           83 ELVTIMDFEKKGSITVMPIFYGVEPNHVRWQTGVLAEQFKKHASRED-PEKVLKWRQALTNFAQLSGDCSG--DDDSKLV  159 (176)
T ss_dssp             HHHHHHHHHHTTSCEEEEEECSSCHHHHHHTCTHHHHHHHHHHTTSC-HHHHHHHHHHHHHHTTSCCEECC--SCHHHHH
T ss_pred             HHHHHHhhhccCCCEEEEEEecCCHHHhhhccCcHHHHHHHHHhccC-HHHHHHHHHHHHHHhcccceecC--CCHHHHH
Confidence            99999999 88999999999999999999999999999999999844 78999999999999999999994  6799999


Q ss_pred             hhHHHhHHhhhhhhh
Q 011431          174 DEIVNGVVENLKSFA  188 (486)
Q Consensus       174 ~~IV~~V~~~L~~~~  188 (486)
                      ++||++|..+|....
T Consensus       160 ~~Iv~~v~~~l~~~~  174 (176)
T 3jrn_A          160 DKIANEISNKKTIYA  174 (176)
T ss_dssp             HHHHHHHHTTCC---
T ss_pred             HHHHHHHHHHhcCCC
Confidence            999999999987543

>3h16_A TIR protein; bacteria TIR domain, signaling protein; 2.50A {Paracoccus denitrificans PD1222}

Probab=99.96  E-value=4.5e-31  Score=236.67  Aligned_cols=117  Identities=20%  Similarity=0.364  Sum_probs=108.8

Q ss_pred             CCCCceecCceEEecccCccCcChHHHHHHHHhcCCCeEEEeC-CcCCCCCchHHHHHHHhhccceEEEeecccccChhh
Q 011431           14 LRDQWRYKHDVFVTFSGEDIRENFGSYLFAALFRESVKTFRDE-QIRRGDEIMPALLQAIEESKISLVIFSKRFAFSRWC   92 (486)
Q Consensus        14 ~~~~~~y~~dVFis~~~~D~~~~f~~~L~~~L~~~gi~~~~d~-~~~~g~~i~~~i~~~I~~s~~~ivv~S~~y~~S~wc   92 (486)
                      .++.++|  ||||||++.| +..|+.+|+.+|+++||++|+|+ ++.+|+.+.++|.++|++|+++|+|||++|++|.||
T Consensus        15 ~~~~~~~--dvFISy~~~D-~~~~~~~L~~~L~~~gi~v~~D~~~l~~G~~~~~~i~~ai~~s~~~i~v~S~~y~~S~wc   91 (154)
T 3h16_A           15 LTSAPPH--DIFISHAWED-KADFVEALAHTLRAAGAEVWYDDFSLRPGDSLRRSIDKGLGSSRFGIVVLSTHFFKKEWP   91 (154)
T ss_dssp             ---CCSE--EEEEEEEGGG-TTTTHHHHHHHHHHHTCCEECGGGEECTTCCHHHHHHHHHTSEEEEEEEEEHHHHTTCCC
T ss_pred             cCCCCCc--eEEEECcccC-hHHHHHHHHHHHHHCCCcEEEcHHhCCCccHHHHHHHHHHHhCcEEEEEeCcchhcChHH
Confidence            4667888  9999999999 67899999999999999999999 899999999999999999999999999999999999


Q ss_pred             HHHHHHHHHH-hcCCCEEEEEEeeecCCccccccCchHHHHH
Q 011431           93 LEELVKIIEC-NKLYQTVIPVFYKVLPSDVRNQLGSFGEAFL  133 (486)
Q Consensus        93 l~El~~i~~~-~~~~~~v~Pify~v~~s~vr~q~g~f~~~f~  133 (486)
                      ++||..+++| ...++.||||||+++|++||+|.|.|++.|.
T Consensus        92 ~~El~~~~~~~~~~~~~iiPV~~~v~p~~v~~~~~~~~~~~~  133 (154)
T 3h16_A           92 QKELDGLFQLESSGRSRILPIWHKVSKDEVASFSPTMADKLA  133 (154)
T ss_dssp             HHHHHHHTCCCTTSCCCEEEEEESCCTGGGTTTCCCCCSSCC
T ss_pred             HHHHHHHHHHHhcCCCEEEEEEecCCHHHHhhCCccHHHHHh
Confidence            9999999999 7778899999999999999999999987654

>3ub2_A TOLL/interleukin-1 receptor domain-containing ADA protein; TIR domain, TLRS adaptor, immune system; 2.40A {Homo sapiens} PDB: 3ub3_A 3ub4_A 2y92_A

Probab=99.88  E-value=3.6e-25  Score=195.85  Aligned_cols=103  Identities=22%  Similarity=0.309  Sum_probs=78.1

Q ss_pred             CCCCceecCceEEecccCccCcChHHHHHHHHhc--CCCeEEEeC-CcCCCCCchHHHHHHHhhccceEEEeecccccCh
Q 011431           14 LRDQWRYKHDVFVTFSGEDIRENFGSYLFAALFR--ESVKTFRDE-QIRRGDEIMPALLQAIEESKISLVIFSKRFAFSR   90 (486)
Q Consensus        14 ~~~~~~y~~dVFis~~~~D~~~~f~~~L~~~L~~--~gi~~~~d~-~~~~g~~i~~~i~~~I~~s~~~ivv~S~~y~~S~   90 (486)
                      ....+.|  ||||||+++|+  .|+.+|+.+|++  .|+++|+|+ ++.+|+.+.++|.++|++|+.+|+|||+||++|.
T Consensus         5 ~r~~k~Y--DvFISy~~~D~--~~v~~L~~~Le~~~~g~~~~l~~rD~~~G~~i~~~i~~aI~~Sr~~I~VlS~~y~~S~   80 (146)
T 3ub2_A            5 SRWSKDY--DVCVCHSEEDL--VAAQDLVSYLEGSTASLRCFLQLRDATPGGAIVSELCQALSSSHCRVLLITPGFLQDP   80 (146)
T ss_dssp             CTTSSSE--EEEEECCGGGH--HHHHHHHHHHHC------------------CCCEEECCTTCCEEEEEEEECHHHHHCH
T ss_pred             CCCCCcc--eEEEeCChhhH--HHHHHHHHHHhCcCCCeEEEEECccccccccHHHHHHHHHHhCCEEEEEECcccccCH
Confidence            3456789  99999999997  479999999998  599999998 9999999999999999999999999999999999


Q ss_pred             hhHHHHHHHHHH-hcCCCEEEEEEeeecCCc
Q 011431           91 WCLEELVKIIEC-NKLYQTVIPVFYKVLPSD  120 (486)
Q Consensus        91 wcl~El~~i~~~-~~~~~~v~Pify~v~~s~  120 (486)
                      ||+.||..++.+ ......||||||++++.+
T Consensus        81 wc~~El~~al~~~~~~~~~vIpv~~~v~~~~  111 (146)
T 3ub2_A           81 WCKYQMLQALTEAPGAEGCTIPLLSGLSRAA  111 (146)
T ss_dssp             HHHHHHHHHHHTSSSSSSEEEEEECSCCGGG
T ss_pred             HHHHHHHHHHHHHhhcCCcEEEEEcCCChhh
Confidence            999999999998 334447889999987544

>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=99.87  E-value=1.1e-22  Score=218.28  Aligned_cols=158  Identities=13%  Similarity=0.001  Sum_probs=115.1

Q ss_pred             hHHHHHHHhhc--CCCceeeeeeeccCccchhHHHHHHHh----hhccccccceEEEEeeec----cHHHHHHHHhhhhc
Q 011431          213 LLDEVLSLLRN--AEGYRSYRCWLLCPLFSELRVLTNDVH----QLMDNYENSDVTLAKFEG----EVKKLDQRLLRFLE  282 (486)
Q Consensus       213 ~l~~v~~ll~~--~~~~~vi~I~GmGgGvGKTTLa~~vy~----~~~~~F~~~~~~~v~~~~----~l~~lqk~ll~~L~  282 (486)
                      -++++..+|..  ..++++|+||||| |+||||||+.+|+    ++..+|+...|+  .++.    ++..+++.++..+.
T Consensus       136 ~~~~l~~~L~~~~~~~~~vv~I~G~g-GvGKTtLA~~v~~~~~~~~~~~F~~~~wv--~vs~~~~~~~~~~~~~il~~l~  212 (549)
T 2a5y_B          136 HVDRVIKKLDEMCDLDSFFLFLHGRA-GSGKSVIASQALSKSDQLIGINYDSIVWL--KDSGTAPKSTFDLFTDILLMLK  212 (549)
T ss_dssp             HHHHHHHHHHHHTTSSSEEEEEECST-TSSHHHHHHHHHHHCSSTBTTTBSEEEEE--ECCCCSTTHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHhcccCCCceEEEEEcCC-CCCHHHHHHHHHHhhhHHHhccCCcEEEE--EECCCCCCCHHHHHHHHHHHHh
Confidence            34555555522  3468999999999 9999999999997    677788765554  4444    56778889998886


Q ss_pred             cccc--ccccccc---cccccccccccccCc-ceeeceecccCHHHHHHHhcCCCCCCCCCEEEeeCCccccccccccCC
Q 011431          283 SVDK--HVASYDR---YGSASFEQPRPQTTS-AAHPYVEDVIDDAYMEDITDDSSPSLNLSRINSTSRFEQLWPETISAT  356 (486)
Q Consensus       283 ~~d~--~~~~~~~---~g~~s~l~~~L~~tK-r~LlVLDDVw~~~~~~~l~~~~~~~~~GSrIIiTTR~~~V~~~~~~~~  356 (486)
                      ....  ...+.+.   ..+...+++.|.+ + |+||||||||+..++ .+.     ..+||+||||||++.|+..+. ..
T Consensus       213 ~~~~~~~~~~~~~~~~~~l~~~l~~~L~~-~kr~LlVLDdv~~~~~~-~~~-----~~~gs~ilvTTR~~~v~~~~~-~~  284 (549)
T 2a5y_B          213 SEDDLLNFPSVEHVTSVVLKRMICNALID-RPNTLFVFDDVVQEETI-RWA-----QELRLRCLVTTRDVEISNAAS-QT  284 (549)
T ss_dssp             TTSCCTTCCCCTTCCHHHHHHHHHHHHTT-STTEEEEEEEECCHHHH-HHH-----HHTTCEEEEEESBGGGGGGCC-SC
T ss_pred             cCcccccccccccccHHHHHHHHHHHHcC-CCcEEEEEECCCCchhh-ccc-----ccCCCEEEEEcCCHHHHHHcC-CC
Confidence            5321  1111111   1123567788888 6 999999999998876 221     237999999999999984321 13


Q ss_pred             CceEecCCCCCchhhhhhcccCCCc
Q 011431          357 DTCTEDVTVDNSPSLNLSSCNSSST  381 (486)
Q Consensus       357 ~~~y~v~~L~~~es~~LF~~~a~~k  381 (486)
                      ..+|+|++|+.+|||+||+++||..
T Consensus       285 ~~~~~l~~L~~~ea~~Lf~~~a~~~  309 (549)
T 2a5y_B          285 CEFIEVTSLEIDECYDFLEAYGMPM  309 (549)
T ss_dssp             EEEEECCCCCHHHHHHHHHHTSCCC
T ss_pred             CeEEECCCCCHHHHHHHHHHHhcCC
Confidence            4689999999999999999999874

>1fyx_A TOLL-like receptor 2; beta-alpha-beta fold, signaling protein; 2.80A {Homo sapiens} SCOP: c.23.2.1 PDB: 1fyw_A 1o77_A

Probab=99.83  E-value=4e-22  Score=177.17  Aligned_cols=99  Identities=20%  Similarity=0.289  Sum_probs=90.0

Q ss_pred             CCceecCceEEecccCccCcChHHH-HHHHHhcC--CCeEEEeC-CcCCCCCchHHHHHHHhhccceEEEeecccccChh
Q 011431           16 DQWRYKHDVFVTFSGEDIRENFGSY-LFAALFRE--SVKTFRDE-QIRRGDEIMPALLQAIEESKISLVIFSKRFAFSRW   91 (486)
Q Consensus        16 ~~~~y~~dVFis~~~~D~~~~f~~~-L~~~L~~~--gi~~~~d~-~~~~g~~i~~~i~~~I~~s~~~ivv~S~~y~~S~w   91 (486)
                      .++.|  ||||||+++|+  .|+.+ |+.+|++.  |+++|+|+ ++.+|+++.++|.++|++|+.+|+|||++|++|.|
T Consensus         2 ~~~~y--DvFiSy~~~D~--~~v~~~L~~~Le~~~~g~~~~~~~rd~~~G~~~~~~i~~~i~~Sr~~I~VlS~~y~~S~w   77 (149)
T 1fyx_A            2 RNIXY--DAFVSYSERDA--YWVENLMVQELENFNPPFKLXLHKRDFIHGKWIIDNIIDSIEKSHKTVFVLSENFVKSEW   77 (149)
T ss_dssp             CSCCE--EEEEECCGGGH--HHHHTHHHHHHTTSSSCCCEEEHHHHCCSSSCHHHHHHHHHHHEEEEEEEECHHHHHHHT
T ss_pred             CCccc--eEEEECCcccH--HHHHHHHHHHHhcCCCCeEEeeccccCCCchhHHHHHHHHHHHcCEEEEEeCcchhccch
Confidence            35678  99999999996  79996 99999986  99999999 99999999999999999999999999999999999


Q ss_pred             hHHHHHHHHHH--hcCCCEEEEEEee-ecC
Q 011431           92 CLEELVKIIEC--NKLYQTVIPVFYK-VLP  118 (486)
Q Consensus        92 cl~El~~i~~~--~~~~~~v~Pify~-v~~  118 (486)
                      |+.||..++.+  +.+++.||||||+ +.+
T Consensus        78 c~~El~~a~~~~~~~~~~~vIpv~~~~i~~  107 (149)
T 1fyx_A           78 XKYELDFSHFRLFDENNDAAILILLEPIEK  107 (149)
T ss_dssp             HHHHSCCSCCTTCGGGTTCCEEEESSCCCT
T ss_pred             HHHHHHHHHHHHHhcCCCEEEEEEecCCCh
Confidence            99999999864  6677889999995 444

>2j67_A TOLL like receptor 10; TIR, IL-1, TLR10, membrane, innate immunity, immune response, leucine-rich repeat, glycoprotein, transmembrane; 2.20A {Homo sapiens} PDB: 1fyv_A

Probab=99.82  E-value=1.4e-21  Score=178.37  Aligned_cols=99  Identities=21%  Similarity=0.331  Sum_probs=86.6

Q ss_pred             CCCCceecCceEEecccCccCcChHH-HHHHHHhc--CCCeEEEeC-CcCCCCCchHHHHHHHhhccceEEEeecccccC
Q 011431           14 LRDQWRYKHDVFVTFSGEDIRENFGS-YLFAALFR--ESVKTFRDE-QIRRGDEIMPALLQAIEESKISLVIFSKRFAFS   89 (486)
Q Consensus        14 ~~~~~~y~~dVFis~~~~D~~~~f~~-~L~~~L~~--~gi~~~~d~-~~~~g~~i~~~i~~~I~~s~~~ivv~S~~y~~S   89 (486)
                      ...++.|  ||||||+++|+  .|+. +|+.+|++  .|+++|+|+ ++.+|+++.++|.++|++|+.+|+|||+||++|
T Consensus        30 ~~~~~~y--DvFISys~~D~--~fv~~~L~~~LE~~~~g~~~~l~~rD~~~G~~i~~~i~~aI~~Sr~~IvVlS~~yl~S  105 (178)
T 2j67_A           30 LKRNVRF--HAFISYSEHDS--LWVKNELIPNLEKEDGSILICLYESYFDPGKSISENIVSFIEKSYKSIFVLSPNFVQN  105 (178)
T ss_dssp             CCCSCCE--EEEEECCGGGH--HHHHHTHHHHHTTCC-CCCEEEHHHHCCTTSCHHHHHHHHHHTEEEEEEEECHHHHHH
T ss_pred             cCCCccc--eEEEECCCCCH--HHHHHHHHHHHhcccCCeEEEEecccCCCCccHHHHHHHHHHhCCEEEEEeccccccc
Confidence            4467789  99999999996  7997 59999998  899999999 999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHH--hcCCCEEEEEEeee
Q 011431           90 RWCLEELVKIIEC--NKLYQTVIPVFYKV  116 (486)
Q Consensus        90 ~wcl~El~~i~~~--~~~~~~v~Pify~v  116 (486)
                      .||+.||..++.+  +..++.||||||+-
T Consensus       106 ~wc~~El~~a~~~~~~~~~~~vIpV~~~~  134 (178)
T 2j67_A          106 EWCHYEFYFAHHNLFHENSDHIILILLEP  134 (178)
T ss_dssp             TGGGTHHHHTTCC-------CEEEEESSC
T ss_pred             chHHHHHHHHHHHHHhcCCCEEEEEEecC
Confidence            9999999999976  56678999999964

>1t3g_A X-linked interleukin-1 receptor accessory protein-like 1; TIR, IL-1RAPL, IL-1R, TLR, membrane protein; 2.30A {Homo sapiens}

Probab=99.82  E-value=4.4e-21  Score=172.09  Aligned_cols=99  Identities=16%  Similarity=0.271  Sum_probs=88.9

Q ss_pred             eecCceEEecccCcc---------CcChHHHHHH-HHh-cCCCeEEEeC-CcCCCCCchHHHHHHHhhccceEEEeeccc
Q 011431           19 RYKHDVFVTFSGEDI---------RENFGSYLFA-ALF-RESVKTFRDE-QIRRGDEIMPALLQAIEESKISLVIFSKRF   86 (486)
Q Consensus        19 ~y~~dVFis~~~~D~---------~~~f~~~L~~-~L~-~~gi~~~~d~-~~~~g~~i~~~i~~~I~~s~~~ivv~S~~y   86 (486)
                      .|  ||||||+++|+         +..|+.+|.. +|+ +.|+++|+|+ |+.+|+.+.++|.++|++|+.+|+|||+||
T Consensus         2 ~y--DaFISy~~~D~~wv~~~~~~~~~fv~~ll~~~LE~~~g~~l~~~~rD~~~G~~i~~~i~~~I~~Sr~~IvVlS~~y   79 (159)
T 1t3g_A            2 DY--DAYLSYTKVDPDQWNQETGEEERFALEILPDMLEKHYGYKLFIPDRDLIPTGTYIEDVARCVDQSKRLIIVMTPNY   79 (159)
T ss_dssp             CB--SEEEECCCCC-------CCSHHHHHHTHHHHHHHHTSCCCEECHHHHCCCCTTHHHHHHHHHHTBSEEEEEECHHH
T ss_pred             Cc--eEEEeCccccchhhhccchhhHHHHHHHHHHHHcCCCCeEEEEEcccccCccchHHHHHHHHHHcCEEEEEEccch
Confidence            58  99999999997         3579998776 699 7999999998 999999999999999999999999999999


Q ss_pred             c-cChhhHHHHHHHHHH--hcCCCEEEEEEeeecCC
Q 011431           87 A-FSRWCLEELVKIIEC--NKLYQTVIPVFYKVLPS  119 (486)
Q Consensus        87 ~-~S~wcl~El~~i~~~--~~~~~~v~Pify~v~~s  119 (486)
                      + .|.||+.|+..++.+  ..+++.||||||.-.+.
T Consensus        80 ~~~S~wc~~El~~a~~~~~~~~~~~vI~I~~~~~~~  115 (159)
T 1t3g_A           80 VVRRGWSIFELETRLRNMLVTGEIKVILIECSELRG  115 (159)
T ss_dssp             HHTTTTHHHHHSHHHHHHHHTTSSEEEEEECSCCCS
T ss_pred             hhcChHHHHHHHHHHHHHHhcCCCEEEEEEeccccc
Confidence            7 999999999999998  67788999999875443

>2js7_A Myeloid differentiation primary response protein MYD88; MYD88_human, TIR domain, TOLL like receptor adaptor domain, innate immune signaling; NMR {Homo sapiens} PDB: 2z5v_A

Probab=99.82  E-value=1.6e-21  Score=175.09  Aligned_cols=101  Identities=18%  Similarity=0.253  Sum_probs=90.9

Q ss_pred             CCCCceecCceEEecccCccCcChHHHHHHHHhcC--CCeEEEeC-CcCCCCCchHHHHHHHh-hccceEEEeecccccC
Q 011431           14 LRDQWRYKHDVFVTFSGEDIRENFGSYLFAALFRE--SVKTFRDE-QIRRGDEIMPALLQAIE-ESKISLVIFSKRFAFS   89 (486)
Q Consensus        14 ~~~~~~y~~dVFis~~~~D~~~~f~~~L~~~L~~~--gi~~~~d~-~~~~g~~i~~~i~~~I~-~s~~~ivv~S~~y~~S   89 (486)
                      ....+.|  ||||||+++|  ..|+.+|+.+|++.  |+++|+|+ ++.+|+.+.++|.++|+ +|+.+|+|||++|++|
T Consensus        11 ~~~~~~y--DvFISys~~D--~~fv~~L~~~Le~~~~g~~~~~~~rd~~~G~~i~~~i~~~I~~~Sr~~IvVlS~~y~~S   86 (160)
T 2js7_A           11 GHMPERF--DAFICYCPSD--IQFVQEMIRQLEQTNYRLKLCVSDRDVLPGTCVWSIASELIEKRCRRMVVVVSDDYLQS   86 (160)
T ss_dssp             SCCTTCE--EEEEECCGGG--HHHHHHHHHHHHTSSSCCCCEESCCSSSSSCSCCCCCGGGHHHHEEEEEEECCHHHHHS
T ss_pred             CCCCcce--EEEEEccccc--HHHHHHHHHHHhcCCCceEEEEeCCCCCCCCcHHHHHHHHHHHhCCEEEEEECcchhcC
Confidence            3446789  9999999999  47999999999985  69999998 99999999999999999 7999999999999999


Q ss_pred             hhhHHHHHHHHHH--hcCCCEEEEEEeeecC
Q 011431           90 RWCLEELVKIIEC--NKLYQTVIPVFYKVLP  118 (486)
Q Consensus        90 ~wcl~El~~i~~~--~~~~~~v~Pify~v~~  118 (486)
                      .||+.|+..++++  ...++.||||||+.-+
T Consensus        87 ~wc~~El~~a~~~~~~~~~~~vIpV~~~~~~  117 (160)
T 2js7_A           87 KECDFQTKFALSLSPGAHQKRLIPIKYKAMK  117 (160)
T ss_dssp             HHHHHHHHHHHHHCTTHHHHTEEEEESSCCC
T ss_pred             HHHHHHHHHHHHHHHccCCCEEEEEEEcccc
Confidence            9999999999998  4556789999997543

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A*

Probab=99.73  E-value=8.1e-19  Score=194.77  Aligned_cols=156  Identities=10%  Similarity=-0.056  Sum_probs=104.4

Q ss_pred             hhHHHHHHHhhcCCCceeeeeeeccCccchhHHHHHHHh--hhccccccceEEEEeee--ccHHHHHHHHhhhhcccccc
Q 011431          212 SLLDEVLSLLRNAEGYRSYRCWLLCPLFSELRVLTNDVH--QLMDNYENSDVTLAKFE--GEVKKLDQRLLRFLESVDKH  287 (486)
Q Consensus       212 ~~l~~v~~ll~~~~~~~vi~I~GmGgGvGKTTLa~~vy~--~~~~~F~~~~~~~v~~~--~~l~~lqk~ll~~L~~~d~~  287 (486)
                      ..++++...|...++.++|+|+||| |+||||||+.+|+  ++..+|+.. +.|+.++  .+...+...++..|......
T Consensus       135 ~eLeeL~elL~~~d~~RVV~IvGmG-GIGKTTLAk~Vy~d~rV~~~Fd~g-V~WVsVs~~~d~~~IL~~Ll~lL~~i~~~  212 (1221)
T 1vt4_I          135 QPYLKLRQALLELRPAKNVLIDGVL-GSGKTWVALDVCLSYKVQCKMDFK-IFWLNLKNCNSPETVLEMLQKLLYQIDPN  212 (1221)
T ss_dssp             HHHHHHHHHHHHCCSSCEEEECCST-TSSHHHHHHHHHHHCHHHHHHSSC-EEEEECCCSSSHHHHHHHHHHHHHHHCSS
T ss_pred             HHHHHHHHHHhccCCCeEEEEEcCC-CccHHHHHHHHHHhhHHHHhCCCc-EEEEEeCCCCCHHHHHHHHHHHHhhcCcc
Confidence            3456666666544568999999999 9999999999997  467778763 3455444  34444444544433221100


Q ss_pred             ----ccc-----cccccccccccccc---ccCcceeeceecccCHHHHHHHhcCCCCCCCCCEEEeeCCccccccccccC
Q 011431          288 ----VAS-----YDRYGSASFEQPRP---QTTSAAHPYVEDVIDDAYMEDITDDSSPSLNLSRINSTSRFEQLWPETISA  355 (486)
Q Consensus       288 ----~~~-----~~~~g~~s~l~~~L---~~tKr~LlVLDDVw~~~~~~~l~~~~~~~~~GSrIIiTTR~~~V~~~~~~~  355 (486)
                          ...     .+.......|++.|   .. ||+||||||||+..+|..+.       +|||||||||++.++...  .
T Consensus       213 ~~~~~d~~~~ip~~leeL~e~Lr~lL~~l~~-KRvLLVLDDVwd~eqLe~f~-------pGSRILVTTRd~~Va~~l--~  282 (1221)
T 1vt4_I          213 WTSRSDHSSNIKLRIHSIQAELRRLLKSKPY-ENCLLVLLNVQNAKAWNAFN-------LSCKILLTTRFKQVTDFL--S  282 (1221)
T ss_dssp             STTTSCCCSSHHHHHHHHHHHHHHHHHHSTT-SSCEEEEESCCCHHHHHHHH-------SSCCEEEECSCSHHHHHH--H
T ss_pred             cccccccccCCCCCHHHHHHHHHHHHHhhcC-CCEEEEEeCcChHHHHHhhC-------CCeEEEEeccChHHHHhc--C
Confidence                000     00001123455554   45 89999999999988887752       699999999999997422  1


Q ss_pred             CCceEecC------CCCCchhhhhhcccCC
Q 011431          356 TDTCTEDV------TVDNSPSLNLSSCNSS  379 (486)
Q Consensus       356 ~~~~y~v~------~L~~~es~~LF~~~a~  379 (486)
                      ....|+|+      .|+.+|||+||+++..
T Consensus       283 g~~vy~LeL~d~dL~LS~eEA~eLF~~~~g  312 (1221)
T 1vt4_I          283 AATTTHISLDHHSMTLTPDEVKSLLLKYLD  312 (1221)
T ss_dssp             HHSSCEEEECSSSSCCCHHHHHHHHHHHHC
T ss_pred             CCeEEEecCccccCCcCHHHHHHHHHHHcC
Confidence            22367788      9999999999998843

>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=99.69  E-value=2.2e-17  Score=192.22  Aligned_cols=159  Identities=10%  Similarity=-0.014  Sum_probs=106.5

Q ss_pred             hhHHHHHHHhh-cCCCceeeeeeeccCccchhHHHHHHHhhh---ccccccceEEEEeeecc----HHHHHHHHhhhhcc
Q 011431          212 SLLDEVLSLLR-NAEGYRSYRCWLLCPLFSELRVLTNDVHQL---MDNYENSDVTLAKFEGE----VKKLDQRLLRFLES  283 (486)
Q Consensus       212 ~~l~~v~~ll~-~~~~~~vi~I~GmGgGvGKTTLa~~vy~~~---~~~F~~~~~~~v~~~~~----l~~lqk~ll~~L~~  283 (486)
                      ..++++.++|. .+.++++|+|+||| |+||||||+++|++.   ...|... +.|+.++..    +....+.++..|..
T Consensus       131 ~~~~~l~~~l~~~~~~~~~v~i~G~g-G~GKTtLa~~~~~~~~~~~~~~~~~-~~~v~~~~~~~~~~~~~~~~~~~~l~~  208 (1249)
T 3sfz_A          131 KLVHAIQQKLWKLNGEPGWVTIYGMA-GCGKSVLAAEAVRDHSLLEGCFSGG-VHWVSIGKQDKSGLLMKLQNLCMRLDQ  208 (1249)
T ss_dssp             HHHHHHHHHHHTTTTSCEEEEEECST-TSSHHHHHHHHTCCHHHHTTTSTTC-EEEEECCSCCHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHhhccCCCCEEEEEeCC-CCCHHHHHHHHhcChhHHHhhCCCe-EEEEEECCcCchHHHHHHHHHHHHhhh
Confidence            34566666553 35678999999999 999999999999873   4445443 456655542    22224445555543


Q ss_pred             cccccc--ccccccccccccccccc-CcceeeceecccCHHHHHHHhcCCCCCCCCCEEEeeCCccccccccccCCCceE
Q 011431          284 VDKHVA--SYDRYGSASFEQPRPQT-TSAAHPYVEDVIDDAYMEDITDDSSPSLNLSRINSTSRFEQLWPETISATDTCT  360 (486)
Q Consensus       284 ~d~~~~--~~~~~g~~s~l~~~L~~-tKr~LlVLDDVw~~~~~~~l~~~~~~~~~GSrIIiTTR~~~V~~~~~~~~~~~y  360 (486)
                      ......  ..+.......++..|.. .+|+||||||||+..+|..       +++|||||||||++.|+..+ ......|
T Consensus       209 ~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~LlvlDd~~~~~~~~~-------~~~~~~ilvTtR~~~~~~~~-~~~~~~~  280 (1249)
T 3sfz_A          209 EESFSQRLPLNIEEAKDRLRVLMLRKHPRSLLILDDVWDPWVLKA-------FDNQCQILLTTRDKSVTDSV-MGPKHVV  280 (1249)
T ss_dssp             TCTTCSSCCSSHHHHHHHHHHHTSSSSCSCEEEEESCCCHHHHTT-------TCSSCEEEEEESSTTTTTTC-CSCBCCE
T ss_pred             hcccccCCCCCHHHHHHHHHHHHhccCCCEEEEEecCCCHHHHHh-------hcCCCEEEEEcCCHHHHHhh-cCCceEE
Confidence            221100  11111223445556655 1499999999999877654       35799999999999997422 2345689


Q ss_pred             ecCC-CCCchhhhhhcccCCC
Q 011431          361 EDVT-VDNSPSLNLSSCNSSS  380 (486)
Q Consensus       361 ~v~~-L~~~es~~LF~~~a~~  380 (486)
                      ++++ |+++|||+||+.+|+.
T Consensus       281 ~~~~~l~~~~a~~l~~~~~~~  301 (1249)
T 3sfz_A          281 PVESGLGREKGLEILSLFVNM  301 (1249)
T ss_dssp             ECCSSCCHHHHHHHHHHHHTS
T ss_pred             EecCCCCHHHHHHHHHHhhCC
Confidence            9996 9999999999988864

>1z6t_A APAF-1, apoptotic protease activating factor 1; caspase activation, ADP, nucleotide binding, CARD, apoptosis; HET: ADP; 2.21A {Homo sapiens}

Probab=99.52  E-value=1.2e-14  Score=156.82  Aligned_cols=157  Identities=10%  Similarity=-0.015  Sum_probs=98.4

Q ss_pred             hhHHHHHHHhhc-CCCceeeeeeeccCccchhHHHHHHHhhh---ccccccceEEEEeeecc-HHHHHHH---Hhhhhcc
Q 011431          212 SLLDEVLSLLRN-AEGYRSYRCWLLCPLFSELRVLTNDVHQL---MDNYENSDVTLAKFEGE-VKKLDQR---LLRFLES  283 (486)
Q Consensus       212 ~~l~~v~~ll~~-~~~~~vi~I~GmGgGvGKTTLa~~vy~~~---~~~F~~~~~~~v~~~~~-l~~lqk~---ll~~L~~  283 (486)
                      ..++.+...+.. ..+.++|+|+||| |+||||||..+|++.   ...|... +.|+..... ...+...   ++..+..
T Consensus       131 ~~l~~L~~~L~~~~~~~~~v~I~G~~-GiGKTtLa~~~~~~~~~~~~~f~~~-v~wv~~~~~~~~~~~~~l~~l~~~l~~  208 (591)
T 1z6t_A          131 KLVNAIQQKLSKLKGEPGWVTIHGMA-GCGKSVLAAEAVRDHSLLEGCFPGG-VHWVSVGKQDKSGLLMKLQNLCTRLDQ  208 (591)
T ss_dssp             HHHHHHHHHHTTSTTSCEEEEEECCT-TSSHHHHHHHHHCCHHHHHHHCTTC-EEEEEEESCCHHHHHHHHHHHHHHHCS
T ss_pred             HHHHHHHHHHhcccCCCceEEEEcCC-CCCHHHHHHHHHhchhHHHhhCCCc-eEEEECCCCchHHHHHHHHHHHHHhcc
Confidence            345566665542 3568899999999 999999999999864   4566422 355555432 2222222   2233331


Q ss_pred             cccc--cccccccccccccccccccC-cceeeceecccCHHHHHHHhcCCCCCCCCCEEEeeCCccccccccccCCCceE
Q 011431          284 VDKH--VASYDRYGSASFEQPRPQTT-SAAHPYVEDVIDDAYMEDITDDSSPSLNLSRINSTSRFEQLWPETISATDTCT  360 (486)
Q Consensus       284 ~d~~--~~~~~~~g~~s~l~~~L~~t-Kr~LlVLDDVw~~~~~~~l~~~~~~~~~GSrIIiTTR~~~V~~~~~~~~~~~y  360 (486)
                      ....  ....+.......++..|... +++||||||+|+...+..       +++||+||||||+..++....   ...|
T Consensus       209 ~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~LLVLDdv~~~~~l~~-------l~~~~~ilvTsR~~~~~~~~~---~~~~  278 (591)
T 1z6t_A          209 DESFSQRLPLNIEEAKDRLRILMLRKHPRSLLILDDVWDSWVLKA-------FDSQCQILLTTRDKSVTDSVM---GPKY  278 (591)
T ss_dssp             SCCSCSSCCCSHHHHHHHHHHHHHHTCTTCEEEEEEECCHHHHHT-------TCSSCEEEEEESCGGGGTTCC---SCEE
T ss_pred             ccccccCCCCCHHHHHHHHHHHHccCCCCeEEEEeCCCCHHHHHH-------hcCCCeEEEECCCcHHHHhcC---CCce
Confidence            1000  00001111223344455442 589999999999766543       356899999999999873321   3456


Q ss_pred             ec---CCCCCchhhhhhcccCCC
Q 011431          361 ED---VTVDNSPSLNLSSCNSSS  380 (486)
Q Consensus       361 ~v---~~L~~~es~~LF~~~a~~  380 (486)
                      ++   ++|+.+||++||+..++.
T Consensus       279 ~v~~l~~L~~~ea~~L~~~~~~~  301 (591)
T 1z6t_A          279 VVPVESSLGKEKGLEILSLFVNM  301 (591)
T ss_dssp             EEECCSSCCHHHHHHHHHHHHTS
T ss_pred             EeecCCCCCHHHHHHHHHHHhCC
Confidence            65   589999999999998875

>3j0a_A TOLL-like receptor 5; membrane protein, leucine-rich repeat, asymmetric homodimer, glycoprotein, immune system; HET: NAG FUC; 26.00A {Homo sapiens}

Probab=99.49  E-value=1.5e-14  Score=162.73  Aligned_cols=100  Identities=23%  Similarity=0.396  Sum_probs=90.3

Q ss_pred             CCCceecCceEEecccCccCcChH-HHHHHHHhc-----CCCeEEEeC-CcCCCCCchHHHHHHHhhccceEEEeecccc
Q 011431           15 RDQWRYKHDVFVTFSGEDIRENFG-SYLFAALFR-----ESVKTFRDE-QIRRGDEIMPALLQAIEESKISLVIFSKRFA   87 (486)
Q Consensus        15 ~~~~~y~~dVFis~~~~D~~~~f~-~~L~~~L~~-----~gi~~~~d~-~~~~g~~i~~~i~~~I~~s~~~ivv~S~~y~   87 (486)
                      ...+.|  ||||||+++|.  .|| ..|...|+.     .|+++|+++ |+.+|+.+.++|.++|++||..|+|+|++|+
T Consensus       666 ~~~~~y--d~fisy~~~d~--~~v~~~l~~~Le~~~~~~~~~~~~~~~rd~~~G~~~~~~i~~~i~~sr~~i~vls~~~~  741 (844)
T 3j0a_A          666 PDMYKY--DAYLCFSSKDF--TWVQNALLKHLDTQYSDQNRFNLCFEERDFVPGENRIANIQDAIWNSRKIVCLVSRHFL  741 (844)
T ss_dssp             SSCCCC--SEEEECCSTTH--HHHHHTHHHHHHSTTTTTTCSCEECSSSSCCSSSCHHHHHHHHHHHSSEEEEEECTTHH
T ss_pred             ccceec--cEEEEeeCCcH--HHHHHHHHHHHhhccccCCceEEEEEccccCCCchHHHHHHHHHHHhCeEEEEeccccc
Confidence            346778  99999999995  577 679999985     589999999 9999999999999999999999999999999


Q ss_pred             cChhhHHHHHHHHHH--hcCCCEEEEEEeeecC
Q 011431           88 FSRWCLEELVKIIEC--NKLYQTVIPVFYKVLP  118 (486)
Q Consensus        88 ~S~wcl~El~~i~~~--~~~~~~v~Pify~v~~  118 (486)
                      .|.||..|+..++.+  +++++.||||||+.-|
T Consensus       742 ~s~wc~~e~~~a~~~~~~~~~~~~i~i~~~~~~  774 (844)
T 3j0a_A          742 RDGWCLEAFSYAQGRCLSDLNSALIMVVVGSLS  774 (844)
T ss_dssp             HHTSTTHHHHHHHSCCCCSSCTTEEEEESSCCC
T ss_pred             cChHHHHHHHHHHHHHHHhcCCcEEEEEeccCC
Confidence            999999999999887  6778899999997554

>3iwl_A Copper transport protein ATOX1; beta-alpha-beta-BETA-alpha-beta, cisplatin, platinum, chaperone, ION transport, metal-binding, metal transport; HET: TCE; 1.60A {Homo sapiens} SCOP: d.58.17.1 PDB: 1fe4_A* 1fee_A* 1tl4_A 1tl5_A 2k1r_B 1fe0_A* 3iwx_A 3cjk_A

Probab=98.63  E-value=8.1e-08  Score=72.47  Aligned_cols=65  Identities=12%  Similarity=0.215  Sum_probs=60.2

Q ss_pred             eeeeeeccccccchhhHHHHHHHhhcCCCeeEEEeecCCCeEEEEeeccCHHHHHHHhhccc-ceeEEec
Q 011431          383 KEAIFKLEIHHDNLEAWRAAFSIVSEFIGITKISFDFKVKKMTVVGDNFDVLSAGTKLNGLC-RTELVSF  451 (486)
Q Consensus       383 ~~~v~kv~~~~~~~~~~~~a~k~~~~~~Gv~~v~~d~~~~~~~V~G~~~d~~~~~~~l~k~~-~~~~~~~  451 (486)
                      ++..+++.|+|..|.  .++.+.+.+++|| ++.+|...++++|.|+ +++..+.+.+++.| .++++++
T Consensus         2 ~~~~~~vgm~C~~C~--~~i~~~l~~~~gV-~v~v~~~~~~~~v~~~-~~~~~i~~~i~~~Gy~~~~~~~   67 (68)
T 3iwl_A            2 PKHEFSVDMTCGGCA--EAVSRVLNKLGGV-KYDIDLPNKKVCIESE-HSMDTLLATLKKTGKTVSYLGL   67 (68)
T ss_dssp             CEEEEEECCCSHHHH--HHHHHHHHHHCSE-EEEEETTTTEEEEEES-SCHHHHHHHHHTTCSCEEEEEC
T ss_pred             ceEEEEECcCcHHHH--HHHHHHHHcCCCe-EEEEEcCCCEEEEEec-CCHHHHHHHHHHcCCceEecCC
Confidence            456778899999999  9999999999999 9999999999999998 99999999999988 7888875

>1cc8_A Protein (metallochaperone ATX1); copper transport, mercury coordination, metal transport; 1.02A {Saccharomyces cerevisiae} SCOP: d.58.17.1 PDB: 1cc7_A 1fd8_A 1fes_A 2ggp_A 3k7r_A

Probab=98.46  E-value=6.9e-07  Score=68.07  Aligned_cols=66  Identities=11%  Similarity=0.092  Sum_probs=60.0

Q ss_pred             ceeeeeeccccccchhhHHHHHHHhhcCC-CeeEEEeecCCCeEEEEeeccCHHHHHHHhhccc-ceeEEe
Q 011431          382 FKEAIFKLEIHHDNLEAWRAAFSIVSEFI-GITKISFDFKVKKMTVVGDNFDVLSAGTKLNGLC-RTELVS  450 (486)
Q Consensus       382 ~~~~v~kv~~~~~~~~~~~~a~k~~~~~~-Gv~~v~~d~~~~~~~V~G~~~d~~~~~~~l~k~~-~~~~~~  450 (486)
                      ++++.+++.|+|..|.  .++.+.+.+++ ||.++.+|...++++|.+. +++..+.+.+++.| .++++.
T Consensus         4 m~~~~~~v~m~C~~C~--~~ie~~l~~~~~GV~~~~v~~~~~~~~v~~~-~~~~~i~~~i~~~Gy~~~~~~   71 (73)
T 1cc8_A            4 IKHYQFNVVMTCSGCS--GAVNKVLTKLEPDVSKIDISLEKQLVDVYTT-LPYDFILEKIKKTGKEVRSGK   71 (73)
T ss_dssp             CEEEEEEECCCSHHHH--HHHHHHHHTTTTSEEEEEEETTTTEEEEEES-SCHHHHHHHHHTTSSCEEEEE
T ss_pred             ceEEEEEEeeECHHHH--HHHHHHHHhCCCCceEEEEECCCCEEEEEEe-CCHHHHHHHHHHhCCCceeee
Confidence            4567788889999999  99999999999 9999999999999999997 99999999999988 666654

>2crl_A Copper chaperone for superoxide dismutase; SOD1, familial ALS, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.35  E-value=1.8e-06  Score=70.20  Aligned_cols=73  Identities=11%  Similarity=0.150  Sum_probs=64.3

Q ss_pred             ceeeeeeccccccchhhHHHHHHHhhcCCCeeEEEeecCCCeEEEEeeccCHHHHHHHhhccc-ceeEEecCCCCCC
Q 011431          382 FKEAIFKLEIHHDNLEAWRAAFSIVSEFIGITKISFDFKVKKMTVVGDNFDVLSAGTKLNGLC-RTELVSFGQAKEP  457 (486)
Q Consensus       382 ~~~~v~kv~~~~~~~~~~~~a~k~~~~~~Gv~~v~~d~~~~~~~V~G~~~d~~~~~~~l~k~~-~~~~~~~~~~~~~  457 (486)
                      .+++.++|.|+|..|.  .++.+.+.+++||.++.+|...++++|.+. +++..+.+.|++.| .+.++...++..+
T Consensus        18 ~~~~~l~V~m~C~~C~--~~Ie~aL~~l~GV~~v~vdl~~~~~~V~~~-~~~~~i~~~i~~~Gy~~~~~~~~~~~~~   91 (98)
T 2crl_A           18 LCTLEFAVQMTCQSCV--DAVRKSLQGVAGVQDVEVHLEDQMVLVHTT-LPSQEVQALLEGTGRQAVLKGMGSGQLQ   91 (98)
T ss_dssp             CEEEEEEECCCSHHHH--HHHHHTTTTCTTCCEEEEETTTTEEEEEES-SCHHHHHHHHHTTTSCEEEEESCCCCCC
T ss_pred             ceEEEEEEeeECHHHH--HHHHHHHHcCCCceEEEEECCCCEEEEEEe-CCHHHHHHHHHHhCCceEEccCCCCccC
Confidence            3566788889999999  999999999999999999999999999997 99999999999988 6888776655433

>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=98.13  E-value=9e-07  Score=90.29  Aligned_cols=149  Identities=3%  Similarity=-0.181  Sum_probs=80.1

Q ss_pred             CceeeeeeeccCccchhHHHHHHHhhhcccc-----ccceEEEEee--eccHHHHHHHHhhhhccccccccccccccccc
Q 011431          226 GYRSYRCWLLCPLFSELRVLTNDVHQLMDNY-----ENSDVTLAKF--EGEVKKLDQRLLRFLESVDKHVASYDRYGSAS  298 (486)
Q Consensus       226 ~~~vi~I~GmGgGvGKTTLa~~vy~~~~~~F-----~~~~~~~v~~--~~~l~~lqk~ll~~L~~~d~~~~~~~~~g~~s  298 (486)
                      ..-+|+|+|.+ |+|||||++.+++.....+     .. .+.++..  ......+...++..+.......+ ........
T Consensus        51 ~~~li~i~G~~-G~GKT~L~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~-~~~~~~~~  127 (412)
T 1w5s_A           51 VNMIYGSIGRV-GIGKTTLAKFTVKRVSEAAAKEGLTV-KQAYVNAFNAPNLYTILSLIVRQTGYPIQVRG-APALDILK  127 (412)
T ss_dssp             EEEEEECTTCC-SSSHHHHHHHHHHHHHHHHHHTTCCE-EEEEEEGGGCCSHHHHHHHHHHHHTCCCCCTT-CCHHHHHH
T ss_pred             CEEEEeCcCcC-CCCHHHHHHHHHHHHHHHHhccCCce-eEEEEECCCCCCHHHHHHHHHHHhCCCCCCCC-CCHHHHHH
Confidence            34455559999 9999999999998765432     21 1233332  13344456666666643110000 00001112


Q ss_pred             ccccccc-cCcceeeceecccCH--------HHHHHHhcCCCC-C--C--CCCEEEeeCCccccccccc-------cCCC
Q 011431          299 FEQPRPQ-TTSAAHPYVEDVIDD--------AYMEDITDDSSP-S--L--NLSRINSTSRFEQLWPETI-------SATD  357 (486)
Q Consensus       299 ~l~~~L~-~tKr~LlVLDDVw~~--------~~~~~l~~~~~~-~--~--~GSrIIiTTR~~~V~~~~~-------~~~~  357 (486)
                      .+.+.|. ..++++||+||+|..        ..+..+...... .  +  ....||+|||+.++.....       ....
T Consensus       128 ~l~~~l~~~~~~~llvlDe~~~l~~~~~~~~~~l~~l~~~~~~~~~~~~~~~v~lI~~~~~~~~~~~l~~~~~~~~~~~~  207 (412)
T 1w5s_A          128 ALVDNLYVENHYLLVILDEFQSMLSSPRIAAEDLYTLLRVHEEIPSRDGVNRIGFLLVASDVRALSYMREKIPQVESQIG  207 (412)
T ss_dssp             HHHHHHHHHTCEEEEEEESTHHHHSCTTSCHHHHHHHHTHHHHSCCTTSCCBEEEEEEEEETHHHHHHHHHCHHHHTTCS
T ss_pred             HHHHHHHhcCCeEEEEEeCHHHHhhccCcchHHHHHHHHHHHhcccCCCCceEEEEEEeccccHHHHHhhhcchhhhhcC
Confidence            3333443 126899999999863        223322211100 1  1  2334888988665421000       0012


Q ss_pred             ceEecCCCCCchhhhhhccc
Q 011431          358 TCTEDVTVDNSPSLNLSSCN  377 (486)
Q Consensus       358 ~~y~v~~L~~~es~~LF~~~  377 (486)
                      ..+++++|+.++++++|...
T Consensus       208 ~~i~l~~l~~~e~~~ll~~~  227 (412)
T 1w5s_A          208 FKLHLPAYKSRELYTILEQR  227 (412)
T ss_dssp             EEEECCCCCHHHHHHHHHHH
T ss_pred             CeeeeCCCCHHHHHHHHHHH
Confidence            23899999999999999654

>4a4j_A Pacszia, cation-transporting ATPase PACS; hydrolase, copper homeostasis, zinc homeostasis, ATX1, metal-transporting atpases; 1.25A {Synechocystis} PDB: 4a48_A 2gcf_A 2xmw_A

Probab=98.10  E-value=8.1e-06  Score=61.06  Aligned_cols=63  Identities=10%  Similarity=0.177  Sum_probs=55.8

Q ss_pred             eeeeeecc-ccccchhhHHHHHHHhhcCCCeeEEEeecCCCeEEEE--eeccCHHHHHHHhhccc-ceeE
Q 011431          383 KEAIFKLE-IHHDNLEAWRAAFSIVSEFIGITKISFDFKVKKMTVV--GDNFDVLSAGTKLNGLC-RTEL  448 (486)
Q Consensus       383 ~~~v~kv~-~~~~~~~~~~~a~k~~~~~~Gv~~v~~d~~~~~~~V~--G~~~d~~~~~~~l~k~~-~~~~  448 (486)
                      |++.+++. |+|..|.  ..+.+.+.+++||.++.+|...++++|.  +. +++..+.+.+++.| .+++
T Consensus         2 ~~~~~~v~gm~C~~C~--~~i~~~l~~~~gv~~~~v~~~~~~~~v~~~~~-~~~~~i~~~i~~~Gy~~~~   68 (69)
T 4a4j_A            2 QTINLQLEGMDCTSCA--SSIERAIAKVPGVQSCQVNFALEQAVVSYHGE-TTPQILTDAVERAGYHARV   68 (69)
T ss_dssp             EEEEEEEESCCSHHHH--HHHHHHHHTSTTEEEEEEETTTTEEEEEECTT-CCHHHHHHHHHHTTCEEEE
T ss_pred             CEEEEEECCeecHHHH--HHHHHHHhcCCCeEEEEEEecCCEEEEEECCC-CCHHHHHHHHHHcCCceEe
Confidence            45667775 9999999  9999999999999999999999999999  55 99999999999988 5554

>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=98.06  E-value=1.1e-05  Score=74.99  Aligned_cols=72  Identities=8%  Similarity=-0.095  Sum_probs=47.1

Q ss_pred             cceeeceecccC--HHHHHHHhcCCCCCCCCCEEEeeCCccccccccccCCCceEecCCCCCchhhhhhcccCC
Q 011431          308 SAAHPYVEDVID--DAYMEDITDDSSPSLNLSRINSTSRFEQLWPETISATDTCTEDVTVDNSPSLNLSSCNSS  379 (486)
Q Consensus       308 Kr~LlVLDDVw~--~~~~~~l~~~~~~~~~GSrIIiTTR~~~V~~~~~~~~~~~y~v~~L~~~es~~LF~~~a~  379 (486)
                      ++.+|++||++.  ...+..+.........+.++|+||+...-+..........+++++|+.++.++++...+.
T Consensus       126 ~~~vlviDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~t~~~~~~~~~l~~r~~~i~l~~l~~~e~~~~l~~~~~  199 (250)
T 1njg_A          126 RFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKLPVTILSRCLQFHLKALDVEQIRHQLEHILN  199 (250)
T ss_dssp             SSEEEEEETGGGSCHHHHHHHHHHHHSCCTTEEEEEEESCGGGSCHHHHTTSEEEECCCCCHHHHHHHHHHHHH
T ss_pred             CceEEEEECcccccHHHHHHHHHHHhcCCCceEEEEEeCChHhCCHHHHHHhhhccCCCCCHHHHHHHHHHHHH
Confidence            578999999964  445555542111224578888888765533211111235789999999999999987654

>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=98.05  E-value=6.7e-06  Score=82.99  Aligned_cols=147  Identities=10%  Similarity=-0.076  Sum_probs=83.0

Q ss_pred             CceeeeeeeccCccchhHHHHHHHhhhccccc------cceEEEEeee--c-cHHHHHHHHhhhhccccccccccccccc
Q 011431          226 GYRSYRCWLLCPLFSELRVLTNDVHQLMDNYE------NSDVTLAKFE--G-EVKKLDQRLLRFLESVDKHVASYDRYGS  296 (486)
Q Consensus       226 ~~~vi~I~GmGgGvGKTTLa~~vy~~~~~~F~------~~~~~~v~~~--~-~l~~lqk~ll~~L~~~d~~~~~~~~~g~  296 (486)
                      ..+.+-|+|.. |+||||||+.+.+.+...+.      ...+..+...  . ....+...++..+.+.............
T Consensus        44 ~~~~vll~G~~-G~GKT~la~~l~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~  122 (384)
T 2qby_B           44 VKFSNLFLGLT-GTGKTFVSKYIFNEIEEVKKEDEEYKDVKQAYVNCREVGGTPQAVLSSLAGKLTGFSVPKHGINLGEY  122 (384)
T ss_dssp             CCCEEEEEECT-TSSHHHHHHHHHHHHHHHHHHSSSSTTCEEEEEEHHHHCSCHHHHHHHHHHHHHCSCCCSSSSCTHHH
T ss_pred             CCCcEEEECCC-CCCHHHHHHHHHHHHHHHhhhhcCCCCceEEEEECccCCCCHHHHHHHHHHHhcCCCCCCCCCCHHHH
Confidence            44578899999 99999999999987643321      2223333221  1 3333445555555322110000000011


Q ss_pred             ccccccccccCcceeeceecccCHHH-------HHHHhcCCCCCCCCCEEEeeCCccccc----cccccCCCceEecCCC
Q 011431          297 ASFEQPRPQTTSAAHPYVEDVIDDAY-------MEDITDDSSPSLNLSRINSTSRFEQLW----PETISATDTCTEDVTV  365 (486)
Q Consensus       297 ~s~l~~~L~~tKr~LlVLDDVw~~~~-------~~~l~~~~~~~~~GSrIIiTTR~~~V~----~~~~~~~~~~y~v~~L  365 (486)
                      ...+...+.. ++.+|++||++....       +..+...   . .+.+||+||+.....    ......-...+++++|
T Consensus       123 ~~~l~~~l~~-~~~vlilDEi~~l~~~~~~~~~l~~l~~~---~-~~~~iI~~t~~~~~~~~l~~~l~sr~~~~i~l~~l  197 (384)
T 2qby_B          123 IDKIKNGTRN-IRAIIYLDEVDTLVKRRGGDIVLYQLLRS---D-ANISVIMISNDINVRDYMEPRVLSSLGPSVIFKPY  197 (384)
T ss_dssp             HHHHHHHHSS-SCEEEEEETTHHHHHSTTSHHHHHHHHTS---S-SCEEEEEECSSTTTTTTSCHHHHHTCCCEEEECCC
T ss_pred             HHHHHHHhcc-CCCEEEEECHHHhccCCCCceeHHHHhcC---C-cceEEEEEECCCchHhhhCHHHHhcCCCeEEECCC
Confidence            1233444555 445999999986432       2233321   1 678999999876321    1100111238999999


Q ss_pred             CCchhhhhhcccC
Q 011431          366 DNSPSLNLSSCNS  378 (486)
Q Consensus       366 ~~~es~~LF~~~a  378 (486)
                      +.++..++|..++
T Consensus       198 ~~~~~~~il~~~~  210 (384)
T 2qby_B          198 DAEQLKFILSKYA  210 (384)
T ss_dssp             CHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHH
Confidence            9999999999874

>3dxs_X Copper-transporting ATPase RAN1; CXXC motif, ferredoxin-like fold, ATP- binding, ethylene signaling pathway, hydrolase, ION transport; 1.70A {Arabidopsis thaliana} SCOP: d.58.17.0

Probab=97.95  E-value=2.3e-05  Score=59.42  Aligned_cols=66  Identities=11%  Similarity=0.101  Sum_probs=57.9

Q ss_pred             eeeeeec-cccccchhhHHHHHHHhhcCCCeeEEEeecCCCeEEEEee--ccCHHHHHHHhhccc-ceeEEe
Q 011431          383 KEAIFKL-EIHHDNLEAWRAAFSIVSEFIGITKISFDFKVKKMTVVGD--NFDVLSAGTKLNGLC-RTELVS  450 (486)
Q Consensus       383 ~~~v~kv-~~~~~~~~~~~~a~k~~~~~~Gv~~v~~d~~~~~~~V~G~--~~d~~~~~~~l~k~~-~~~~~~  450 (486)
                      +++.+++ .|+|..|.  .++.+.+.+++||.++.++...++++|..+  .+++..+.+.+++.| .+++++
T Consensus         2 ~~~~~~v~gm~C~~C~--~~ie~~l~~~~gv~~~~v~~~~~~~~v~~~~~~~~~~~i~~~i~~~Gy~~~~~~   71 (74)
T 3dxs_X            2 RKIQVGVTGMTCAACS--NSVEAALMNVNGVFKASVALLQNRADVVFDPNLVKEEDIKEEIEDAGFEAEILA   71 (74)
T ss_dssp             EEEEEEEECCCSHHHH--HHHHHHHHTSTTEEEEEEEGGGTEEEEEECTTTCCHHHHHHHHHHHTCEEEEEE
T ss_pred             cEEEEEECCcCCHHHH--HHHHHHHhcCCCEEEEEEEecCCEEEEEECCCCCCHHHHHHHHHHCCCceEEcc
Confidence            4567777 49999999  999999999999999999999999999875  279999999999988 677665

>3fry_A Probable copper-exporting P-type ATPase A; transport protein, metal binding domain, domain SWAP, ATP-BI cell membrane, copper transport; HET: CIT; 2.00A {Archaeoglobus fulgidus}

Probab=97.93  E-value=1.6e-05  Score=60.36  Aligned_cols=65  Identities=12%  Similarity=0.110  Sum_probs=57.8

Q ss_pred             cceeeeeecc-ccccchhhHHHHHHHhhcCCCeeEEEeecCCCeEEEEeeccCHHHHHHHhhccc-ceeEEe
Q 011431          381 TFKEAIFKLE-IHHDNLEAWRAAFSIVSEFIGITKISFDFKVKKMTVVGDNFDVLSAGTKLNGLC-RTELVS  450 (486)
Q Consensus       381 k~~~~v~kv~-~~~~~~~~~~~a~k~~~~~~Gv~~v~~d~~~~~~~V~G~~~d~~~~~~~l~k~~-~~~~~~  450 (486)
                      .+++..+++. |+|..|.  .++.+.+.+ +||.++.+|...++++|.++  ++..+.+.|++.| .+++.+
T Consensus         3 ~m~~~~~~v~gm~C~~C~--~~ie~~l~~-~gv~~~~v~~~~~~~~v~~~--~~~~i~~~i~~~Gy~~~~~~   69 (73)
T 3fry_A            3 SVEKIVLELSGLSCHHCV--ARVKKALEE-AGAKVEKVDLNEAVVAGNKE--DVDKYIKAVEAAGYQAKLRS   69 (73)
T ss_dssp             CCEEEEEEEESSBCGGGH--HHHHHHHHH-TTCEEEEECSSEEEEEEEGG--GHHHHHHHHHHTTCEEEECC
T ss_pred             ccEEEEEEECCCCCHHHH--HHHHHHhcc-CCcEEEEEEccCCEEEEEEC--CHHHHHHHHHHcCCceEecC
Confidence            4567788885 9999999  999999999 99999999999999999987  8999999999988 566554

>1qup_A Superoxide dismutase 1 copper chaperone; two domains, beta-alpha-beta-BETA-alpha-beta and beta barrel; 1.80A {Saccharomyces cerevisiae} SCOP: b.1.8.1 d.58.17.1

Probab=97.72  E-value=9.8e-05  Score=69.16  Aligned_cols=69  Identities=17%  Similarity=0.246  Sum_probs=61.2

Q ss_pred             eeeeeeccccccchhhHHHHHHHhhcCCCeeEEEeecCCCeEEEEeeccCHHHHHHHhhccc-ceeEEecCCC
Q 011431          383 KEAIFKLEIHHDNLEAWRAAFSIVSEFIGITKISFDFKVKKMTVVGDNFDVLSAGTKLNGLC-RTELVSFGQA  454 (486)
Q Consensus       383 ~~~v~kv~~~~~~~~~~~~a~k~~~~~~Gv~~v~~d~~~~~~~V~G~~~d~~~~~~~l~k~~-~~~~~~~~~~  454 (486)
                      .++.++|.|+|..|.  .++.+.+.+++||+++.+|...++++|.+. +++..+.+.+++.+ .+.+....++
T Consensus         6 ~~~~l~V~MtC~~Ca--~~IekaL~~l~GV~~v~Vnl~~~~v~V~~~-~~~~~I~~aI~~~Gy~a~~~~~~~~   75 (222)
T 1qup_A            6 YEATYAIPMHCENCV--NDIKACLKNVPGINSLNFDIEQQIMSVESS-VAPSTIINTLRNCGKDAIIRGAGKP   75 (222)
T ss_dssp             EEEEEECCCCSTTHH--HHHHHHHTTCTTEEEEEEETTTTEEEEEES-SCHHHHHHHHHHTTCCCEEECCSCT
T ss_pred             eEEEEEEccccHHHH--HHHHHHHhcCCCeeEEEEEcCCCEEEEecc-CCHHHHHHHHHHcCCccccccCCCc
Confidence            456778889999999  999999999999999999999999999998 99999999999988 6777665443

>2roe_A Heavy metal binding protein; NMR {Thermus thermophilus} PDB: 2rog_A

Probab=97.65  E-value=5.6e-05  Score=55.63  Aligned_cols=55  Identities=13%  Similarity=0.134  Sum_probs=50.1

Q ss_pred             eec-cccccchhhHHHHHHHhhcCCCeeEEEeecCCCeEEEEeeccCHHHHHHHhhccc
Q 011431          387 FKL-EIHHDNLEAWRAAFSIVSEFIGITKISFDFKVKKMTVVGDNFDVLSAGTKLNGLC  444 (486)
Q Consensus       387 ~kv-~~~~~~~~~~~~a~k~~~~~~Gv~~v~~d~~~~~~~V~G~~~d~~~~~~~l~k~~  444 (486)
                      +++ .|+|..|.  .++.+.+.+.+||.++.+|...++++|.+. +++..+.+.+++.|
T Consensus         4 ~~v~gm~C~~C~--~~i~~~l~~~~gv~~~~v~~~~~~~~v~~~-~~~~~i~~~i~~~G   59 (66)
T 2roe_A            4 LKVEGMTCNHCV--MAVTKALKKVPGVEKVEVSLEKGEALVEGT-ADPKALVQAVEEEG   59 (66)
T ss_dssp             EEEECCCSHHHH--HHHHHHHHTSTTCCCEEECSSSCBEEECSC-CCHHHHHHHHHTTT
T ss_pred             EEECCeEcHHHH--HHHHHHHHcCCCeEEEEEEeCCCEEEECCC-CCHHHHHHHHHHcC
Confidence            455 49999999  999999999999999999999999999766 89999999999988

>2xmm_A SSR2857 protein, ATX1; metal transport, copper homeostasis, chaperone, P-type atpas; 1.65A {Synechocystis SP} PDB: 2xmv_A 1sb6_A 2xmj_A 2xmk_A 2xmt_A 2xmu_A

Probab=97.63  E-value=6.9e-05  Score=54.26  Aligned_cols=57  Identities=14%  Similarity=0.120  Sum_probs=51.3

Q ss_pred             eeeec-cccccchhhHHHHHHHhhcCCCeeEEEeecCCCeEEEEeeccCHHHHHHHhhccc
Q 011431          385 AIFKL-EIHHDNLEAWRAAFSIVSEFIGITKISFDFKVKKMTVVGDNFDVLSAGTKLNGLC  444 (486)
Q Consensus       385 ~v~kv-~~~~~~~~~~~~a~k~~~~~~Gv~~v~~d~~~~~~~V~G~~~d~~~~~~~l~k~~  444 (486)
                      +.+++ .|+|..|.  ..+.+.+.+++||.++.+|...++++|.+. +++..+.+.+++.|
T Consensus         3 ~~~~v~gm~C~~C~--~~i~~~l~~~~gv~~~~v~~~~~~~~v~~~-~~~~~i~~~i~~~G   60 (64)
T 2xmm_A            3 IQLTVPTIACEACA--EAVTKAVQNEDAQATVQVDLTSKKVTITSA-LGEEQLRTAIASAG   60 (64)
T ss_dssp             EEEECTTCCSHHHH--HHHHHHHHHHCTTCEEEECTTTCEEEEECS-SCHHHHHHHHHHTT
T ss_pred             EEEEECCcCcHHHH--HHHHHHHhcCCCcEEEEEEecCCEEEEEec-CCHHHHHHHHHHcC
Confidence            34666 49999999  999999999999999999999999999987 99999999998876

>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=97.60  E-value=0.0002  Score=65.43  Aligned_cols=145  Identities=5%  Similarity=-0.079  Sum_probs=76.8

Q ss_pred             HHHHHHhhcCCCceeeeeeeccCccchhHHHHHHHhhhccccccceEEEEeee--ccHHHHHHHHhhhhccccccccccc
Q 011431          215 DEVLSLLRNAEGYRSYRCWLLCPLFSELRVLTNDVHQLMDNYENSDVTLAKFE--GEVKKLDQRLLRFLESVDKHVASYD  292 (486)
Q Consensus       215 ~~v~~ll~~~~~~~vi~I~GmGgGvGKTTLa~~vy~~~~~~F~~~~~~~v~~~--~~l~~lqk~ll~~L~~~d~~~~~~~  292 (486)
                      +.+...+... ....+-++|.. |.||||||+.+.+.+........+......  .....+...+......         
T Consensus        27 ~~l~~~l~~~-~~~~~ll~G~~-G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---------   95 (226)
T 2chg_A           27 QRLKGYVERK-NIPHLLFSGPP-GTGKTATAIALARDLFGENWRDNFIEMNASDERGIDVVRHKIKEFART---------   95 (226)
T ss_dssp             HHHHHHHHTT-CCCCEEEECST-TSSHHHHHHHHHHHHHGGGGGGGEEEEETTCTTCHHHHHHHHHHHHTS---------
T ss_pred             HHHHHHHhCC-CCCeEEEECCC-CCCHHHHHHHHHHHHhccccccceEEeccccccChHHHHHHHHHHhcc---------
Confidence            3444444332 22336799999 999999999998876333211112222211  1111111111111100         


Q ss_pred             ccccccccccccccCcceeeceecccCH--HHHHHHhcCCCCCCCCCEEEeeCCccccccccccCCCceEecCCCCCchh
Q 011431          293 RYGSASFEQPRPQTTSAAHPYVEDVIDD--AYMEDITDDSSPSLNLSRINSTSRFEQLWPETISATDTCTEDVTVDNSPS  370 (486)
Q Consensus       293 ~~g~~s~l~~~L~~tKr~LlVLDDVw~~--~~~~~l~~~~~~~~~GSrIIiTTR~~~V~~~~~~~~~~~y~v~~L~~~es  370 (486)
                              ...-.. +..+|++||++..  .....+....-....+.++|+||+...-+.......-..+++.+|+.++.
T Consensus        96 --------~~~~~~-~~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~~~~~~~~~l~~r~~~i~~~~~~~~~~  166 (226)
T 2chg_A           96 --------APIGGA-PFKIIFLDEADALTADAQAALRRTMEMYSKSCRFILSCNYVSRIIEPIQSRCAVFRFKPVPKEAM  166 (226)
T ss_dssp             --------CCSTTC-SCEEEEEETGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHTTSEEEECCCCCHHHH
T ss_pred             --------cCCCcc-CceEEEEeChhhcCHHHHHHHHHHHHhcCCCCeEEEEeCChhhcCHHHHHhCceeecCCCCHHHH
Confidence                    001112 6789999999752  33333332110123567888888765532111111123789999999999


Q ss_pred             hhhhcccCC
Q 011431          371 LNLSSCNSS  379 (486)
Q Consensus       371 ~~LF~~~a~  379 (486)
                      ..++...+.
T Consensus       167 ~~~l~~~~~  175 (226)
T 2chg_A          167 KKRLLEICE  175 (226)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            999987653

>1jk9_B CCS, copper chaperone for superoxide dismutase; protein-protein complex, heterodimer, metallochaperone, amyotrophic lateral sclerosis; 2.90A {Saccharomyces cerevisiae} SCOP: b.1.8.1 d.58.17.1

Probab=97.56  E-value=0.00023  Score=67.69  Aligned_cols=69  Identities=17%  Similarity=0.246  Sum_probs=61.6

Q ss_pred             eeeeeeccccccchhhHHHHHHHhhcCCCeeEEEeecCCCeEEEEeeccCHHHHHHHhhccc-ceeEEecCCC
Q 011431          383 KEAIFKLEIHHDNLEAWRAAFSIVSEFIGITKISFDFKVKKMTVVGDNFDVLSAGTKLNGLC-RTELVSFGQA  454 (486)
Q Consensus       383 ~~~v~kv~~~~~~~~~~~~a~k~~~~~~Gv~~v~~d~~~~~~~V~G~~~d~~~~~~~l~k~~-~~~~~~~~~~  454 (486)
                      .++.++|.|+|..|.  .++.+.+.+++||.++.+|...++++|.+. +++..+.+.|++.| .+.+....++
T Consensus         7 ~~~~l~V~MtC~~Ca--~~IekaL~~l~GV~~v~Vnl~~~~v~V~~~-~~~~~I~~aIe~~Gy~a~~~~~~~~   76 (249)
T 1jk9_B            7 YEATYAIPMHCENCV--NDIKACLKNVPGINSLNFDIEQQIMSVESS-VAPSTIINTLRNCGKDAIIRGAGKP   76 (249)
T ss_dssp             EEEEEECCCCSSSHH--HHHHHHHTTCTTEEEEEEETTTTEEEEEES-SCHHHHHHHHHTTTCCCEEEEESST
T ss_pred             eeEEEEEeeccHHHH--HHHHHHHhccCCeeEEEEEcCCCeEEEecC-CCHHHHHHHHHHhCCCcccccCCcc
Confidence            456677889999999  999999999999999999999999999988 99999999999988 6777776554

>2qby_A CDC6 homolog 1, cell division control protein 6 homolog 1; winged-helix domain, helix-turn-helix, AAA+ ATPase domain, protein-DNA complex; HET: DNA SPD ADP; 3.35A {Sulfolobus solfataricus}

Probab=97.56  E-value=4.3e-05  Score=76.67  Aligned_cols=152  Identities=7%  Similarity=-0.098  Sum_probs=79.2

Q ss_pred             CCceeeeeeeccCccchhHHHHHHHhhhccccc-cceEEEEeee--ccHHHHHHHHhhhhcccccccccccccccccccc
Q 011431          225 EGYRSYRCWLLCPLFSELRVLTNDVHQLMDNYE-NSDVTLAKFE--GEVKKLDQRLLRFLESVDKHVASYDRYGSASFEQ  301 (486)
Q Consensus       225 ~~~~vi~I~GmGgGvGKTTLa~~vy~~~~~~F~-~~~~~~v~~~--~~l~~lqk~ll~~L~~~d~~~~~~~~~g~~s~l~  301 (486)
                      .....+.|+|.. |+|||||++.+.+.....+. ...+..+...  .....+...++..+.......+ .........+.
T Consensus        43 ~~~~~vli~G~~-G~GKTtl~~~l~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~i~~~l~~~~~~~~-~~~~~~~~~l~  120 (386)
T 2qby_A           43 EKPNNIFIYGLT-GTGKTAVVKFVLSKLHKKFLGKFKHVYINTRQIDTPYRVLADLLESLDVKVPFTG-LSIAELYRRLV  120 (386)
T ss_dssp             CCCCCEEEEECT-TSSHHHHHHHHHHHHHHHTCSSCEEEEEEHHHHCSHHHHHHHHTTTTSCCCCSSS-CCHHHHHHHHH
T ss_pred             CCCCeEEEECCC-CCCHHHHHHHHHHHHHHHhcCCceEEEEECCCCCCHHHHHHHHHHHhCCCCCCCC-CCHHHHHHHHH
Confidence            345678899999 99999999999987654432 2222333211  1222334455544432100000 00000012222


Q ss_pred             ccccc-CcceeeceecccCHH------HHHHHhcCCCC-CCCCCEEEeeCCccccccccc----cC-CCceEecCCCCCc
Q 011431          302 PRPQT-TSAAHPYVEDVIDDA------YMEDITDDSSP-SLNLSRINSTSRFEQLWPETI----SA-TDTCTEDVTVDNS  368 (486)
Q Consensus       302 ~~L~~-tKr~LlVLDDVw~~~------~~~~l~~~~~~-~~~GSrIIiTTR~~~V~~~~~----~~-~~~~y~v~~L~~~  368 (486)
                      +.+.. .+..+|++|+++...      .+..+....-. ...+..+|+||++........    .. ....+++++|+.+
T Consensus       121 ~~l~~~~~~~vlilDE~~~l~~~~~~~~l~~l~~~~~~~~~~~~~~I~~~~~~~~~~~~~~~~~~r~~~~~i~l~~l~~~  200 (386)
T 2qby_A          121 KAVRDYGSQVVIVLDEIDAFVKKYNDDILYKLSRINSEVNKSKISFIGITNDVKFVDLLDPRVKSSLSEEEIIFPPYNAE  200 (386)
T ss_dssp             HHHHTCCSCEEEEEETHHHHHHSSCSTHHHHHHHHHHSCCC--EEEEEEESCGGGGGGCTTHHHHTTTTEEEEECCCCHH
T ss_pred             HHHhccCCeEEEEEcChhhhhccCcCHHHHHHhhchhhcCCCeEEEEEEECCCChHhhhCHHHhccCCCeeEEeCCCCHH
Confidence            33332 147899999987532      23333211100 123556788887765421110    00 1247899999999


Q ss_pred             hhhhhhcccC
Q 011431          369 PSLNLSSCNS  378 (486)
Q Consensus       369 es~~LF~~~a  378 (486)
                      +.+++|...+
T Consensus       201 ~~~~il~~~~  210 (386)
T 2qby_A          201 ELEDILTKRA  210 (386)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            9999998753

>2k2p_A Uncharacterized protein ATU1203; putative metal-binding domain ATU1203, ontario centre for ST proteomics, structural genomics; NMR {Agrobacterium tumefaciens str}

Probab=97.50  E-value=0.00012  Score=57.63  Aligned_cols=60  Identities=10%  Similarity=0.032  Sum_probs=53.9

Q ss_pred             ceeeeeecc-ccccchhhHHHHHHHhhcCCCeeEEEeecCCCeEEEEeeccCHHHHHHHhhccc
Q 011431          382 FKEAIFKLE-IHHDNLEAWRAAFSIVSEFIGITKISFDFKVKKMTVVGDNFDVLSAGTKLNGLC  444 (486)
Q Consensus       382 ~~~~v~kv~-~~~~~~~~~~~a~k~~~~~~Gv~~v~~d~~~~~~~V~G~~~d~~~~~~~l~k~~  444 (486)
                      .+++.+++. |+|..|.  ..+.+.+.+++||.++.+|...++++|.+. +++..+.+.+++.|
T Consensus        21 ~~~~~l~V~Gm~C~~C~--~~Ie~aL~~~~GV~~v~v~l~~~~~~V~~~-~~~~~i~~~i~~~G   81 (85)
T 2k2p_A           21 GAGLSFHVEDMTCGHCA--GVIKGAIEKTVPGAAVHADPASRTVVVGGV-SDAAHIAEIITAAG   81 (85)
T ss_dssp             -CEEEEECTTCCHHHHH--HHHHHHHHHHSTTCEEEEETTTTEEEEESC-CCHHHHHHHHHHTT
T ss_pred             ccEEEEEECCCCCHHHH--HHHHHHHhcCCCeeEEEEECCCCEEEEEec-CCHHHHHHHHHHcC
Confidence            456677775 9999999  999999999999999999999999999997 99999999998876

>2qen_A Walker-type ATPase; unknown function; HET: ADP; 2.25A {Pyrococcus abyssi}

Probab=97.48  E-value=7.1e-05  Score=74.06  Aligned_cols=142  Identities=8%  Similarity=-0.108  Sum_probs=73.7

Q ss_pred             eeeeeeeccCccchhHHHHHHHhhhccccccceEEEEeeec--------cHHHHHHHHhhhhccc-------------cc
Q 011431          228 RSYRCWLLCPLFSELRVLTNDVHQLMDNYENSDVTLAKFEG--------EVKKLDQRLLRFLESV-------------DK  286 (486)
Q Consensus       228 ~vi~I~GmGgGvGKTTLa~~vy~~~~~~F~~~~~~~v~~~~--------~l~~lqk~ll~~L~~~-------------d~  286 (486)
                      +++-|+|.. |+|||||++.+.++..       +.++....        ....+...+...|...             ..
T Consensus        32 ~~v~i~G~~-G~GKT~Ll~~~~~~~~-------~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~  103 (350)
T 2qen_A           32 PLTLLLGIR-RVGKSSLLRAFLNERP-------GILIDCRELYAERGHITREELIKELQSTISPFQKFQSKFKISLNLKF  103 (350)
T ss_dssp             SEEEEECCT-TSSHHHHHHHHHHHSS-------EEEEEHHHHHHTTTCBCHHHHHHHHHHHSCSHHHHHHHHTCCCCCGG
T ss_pred             CeEEEECCC-cCCHHHHHHHHHHHcC-------cEEEEeecccccccCCCHHHHHHHHHHHHHHHHhHhhhceeEEEecc
Confidence            678899999 9999999999987641       23332221        1222233333222210             00


Q ss_pred             -ccc--cccccccccccccccccCcceeeceecccCHH--------HHHHHhcCCCCCCCCCEEEeeCCccccccc----
Q 011431          287 -HVA--SYDRYGSASFEQPRPQTTSAAHPYVEDVIDDA--------YMEDITDDSSPSLNLSRINSTSRFEQLWPE----  351 (486)
Q Consensus       287 -~~~--~~~~~g~~s~l~~~L~~tKr~LlVLDDVw~~~--------~~~~l~~~~~~~~~GSrIIiTTR~~~V~~~----  351 (486)
                       ...  ..........+.+.+...++.+||+||++...        .+..++...++...+.++|+|++...++..    
T Consensus       104 ~~~~~~~~~~~~~~~~l~~~~~~~~~~vlvlDe~~~~~~~~~~~~~~~~~~L~~~~~~~~~~~~il~g~~~~~l~~~l~~  183 (350)
T 2qen_A          104 LTLEPRKLSLREVFRELNDLGEELGEFIVAFDEAQYLRFYGSRGGKELLALFAYAYDSLPNLKIILTGSEVGLLHDFLKI  183 (350)
T ss_dssp             GTSCGGGCCHHHHHHHHHHHHHHHSCEEEEEETGGGGGGBTTTTTHHHHHHHHHHHHHCTTEEEEEEESSHHHHHHHHCT
T ss_pred             eeeccccchHHHHHHHHHHHHhccCCEEEEEeCHHHHhccCccchhhHHHHHHHHHHhcCCeEEEEECCcHHHHHHHHhh
Confidence             000  00000011112222222137999999997632        222222111112247889999887543211    


Q ss_pred             ---c--ccC-CCceEecCCCCCchhhhhhccc
Q 011431          352 ---T--ISA-TDTCTEDVTVDNSPSLNLSSCN  377 (486)
Q Consensus       352 ---~--~~~-~~~~y~v~~L~~~es~~LF~~~  377 (486)
                         .  ..+ ....+++.+|+.+|+.+++...
T Consensus       184 ~~~~~~l~~~~~~~i~l~pl~~~e~~~~l~~~  215 (350)
T 2qen_A          184 TDYESPLYGRIAGEVLVKPFDKDTSVEFLKRG  215 (350)
T ss_dssp             TCTTSTTTTCCCEEEECCCCCHHHHHHHHHHH
T ss_pred             cCCCCccccCccceeeCCCCCHHHHHHHHHHH
Confidence               0  011 1246899999999999998753

>2l3m_A Copper-ION-binding protein; structural genomics, center for structural genomics of infec diseases, csgid, metal binding protein; NMR {Bacillus anthracis}

Probab=97.38  E-value=0.00043  Score=51.18  Aligned_cols=61  Identities=13%  Similarity=0.152  Sum_probs=52.2

Q ss_pred             ceeeeeecc-ccccchhhHHHHHHHhhcCCCeeEEEeecCCCeEEEEee--ccCHHHHHHHhhccc
Q 011431          382 FKEAIFKLE-IHHDNLEAWRAAFSIVSEFIGITKISFDFKVKKMTVVGD--NFDVLSAGTKLNGLC  444 (486)
Q Consensus       382 ~~~~v~kv~-~~~~~~~~~~~a~k~~~~~~Gv~~v~~d~~~~~~~V~G~--~~d~~~~~~~l~k~~  444 (486)
                      +++..+++. |+|..|.  ..+.+.+.+.+||.++.+|...++++|..+  .+++..+...+++.|
T Consensus         4 ~~~~~~~v~gm~C~~C~--~~i~~~l~~~~gv~~~~v~~~~~~~~v~~~~~~~~~~~i~~~i~~~G   67 (71)
T 2l3m_A            4 MEQLTLQVEGMSCGHCV--NAIESSVKELNGVEQVKVQLAEGTVEVTIDSSVVTLKDIVAVIEDQG   67 (71)
T ss_dssp             EEEEEEEEECCCSHHHH--HHHHHHHHTSTTEEEEEEETTTTEEEEEEETTTSCHHHHHHHHHHTT
T ss_pred             cEEEEEEECCccCHHHH--HHHHHHHHcCCCeEEEEEEecCCEEEEEECCCCCCHHHHHHHHHHcC
Confidence            355667775 9999999  999999999999999999999999999854  267888888888776

>2xmw_A PACS-N, cation-transporting ATPase PACS; hydrolase, Cu(I)-binding, trafficking; 1.80A {Synechocystis SP} PDB: 2gcf_A

Probab=97.37  E-value=0.00064  Score=50.07  Aligned_cols=60  Identities=8%  Similarity=0.093  Sum_probs=50.4

Q ss_pred             eeeeeecc-ccccchhhHHHHHHHhhcCCCeeEEEeecCCCeEEEEee-ccCHHHHHHHhhccc
Q 011431          383 KEAIFKLE-IHHDNLEAWRAAFSIVSEFIGITKISFDFKVKKMTVVGD-NFDVLSAGTKLNGLC  444 (486)
Q Consensus       383 ~~~v~kv~-~~~~~~~~~~~a~k~~~~~~Gv~~v~~d~~~~~~~V~G~-~~d~~~~~~~l~k~~  444 (486)
                      +++.+++. |+|..|.  ..+.+.+.+.+||.++.+|...++++|..+ .+++..+...+++.|
T Consensus         3 ~~~~~~v~gm~C~~C~--~~i~~~l~~~~gv~~~~v~~~~~~~~v~~~~~~~~~~i~~~i~~~G   64 (71)
T 2xmw_A            3 QTINLQLEGMRCAACA--SSIERAIAKVPGVQSCQVNFALEQAVVSYHGETTPQILTDAVERAG   64 (71)
T ss_dssp             EEEEEEEECCCSHHHH--HHHHHHHHTSTTEEEEEEETTTTEEEEEEC---CHHHHHHHHHHHT
T ss_pred             cEEEEEECCcccHHHH--HHHHHHHhcCCCeEEEEEEccCCEEEEEECCCCCHHHHHHHHHHcC
Confidence            44566675 9999999  999999999999999999999999999865 267788888888877

>1osd_A MERP, hypothetical protein MERP; mercury resistance, metal binding protein, perisplasm, structural genomics; 2.00A {Cupriavidus metallidurans} SCOP: d.58.17.1 PDB: 1afi_A 1afj_A 2hqi_A

Probab=97.36  E-value=0.00076  Score=49.88  Aligned_cols=63  Identities=11%  Similarity=0.154  Sum_probs=52.9

Q ss_pred             eeeeeecc-ccccchhhHHHHHHHhhcCCCeeEEEeecCCCeEEEEee--ccCHHHHHHHhhccc-cee
Q 011431          383 KEAIFKLE-IHHDNLEAWRAAFSIVSEFIGITKISFDFKVKKMTVVGD--NFDVLSAGTKLNGLC-RTE  447 (486)
Q Consensus       383 ~~~v~kv~-~~~~~~~~~~~a~k~~~~~~Gv~~v~~d~~~~~~~V~G~--~~d~~~~~~~l~k~~-~~~  447 (486)
                      +++.+++. |+|..|.  ..+.+.+.+.+||.++.+|...++++|..+  .+++..+...+.+.| .+.
T Consensus         3 ~~~~~~v~gm~C~~C~--~~i~~~l~~~~gv~~~~v~~~~~~~~v~~~~~~~~~~~i~~~i~~~G~~~~   69 (72)
T 1osd_A            3 QTVTLSVPGMTCSACP--ITVKKAISKVEGVSKVDVTFETRQAVVTFDDAKTSVQKLTKATADAGYPSS   69 (72)
T ss_dssp             EEEEEECTTCCSTTHH--HHHHHHHHTSTTEEEEEEETTTTEEEEEEETTTCCHHHHHHHHHHTTCCCE
T ss_pred             eEEEEEECCeEcHHHH--HHHHHHHhcCCCeEEEEEEecCCEEEEEECCCCCCHHHHHHHHHhcCCCeE
Confidence            34566674 9999999  999999999999999999999999999876  267788888888877 443

>1q8l_A Copper-transporting ATPase 1; metal binding protein; NMR {Homo sapiens} SCOP: d.58.17.1 PDB: 1s6o_A 1s6u_A

Probab=97.35  E-value=0.0007  Score=52.43  Aligned_cols=65  Identities=9%  Similarity=0.109  Sum_probs=55.1

Q ss_pred             CCcceeeeeec-cccccchhhHHHHHHHhhcCCCeeEEEeecCCCeEEEEee--ccCHHHHHHHhhcccc
Q 011431          379 SSTFKEAIFKL-EIHHDNLEAWRAAFSIVSEFIGITKISFDFKVKKMTVVGD--NFDVLSAGTKLNGLCR  445 (486)
Q Consensus       379 ~~k~~~~v~kv-~~~~~~~~~~~~a~k~~~~~~Gv~~v~~d~~~~~~~V~G~--~~d~~~~~~~l~k~~~  445 (486)
                      +...+++.+++ .|+|..|.  ..+.+.+.+++||.++.+|...++++|..+  .+++..+...+++.|.
T Consensus         5 ~~~~~~~~~~v~gm~C~~C~--~~ie~~l~~~~GV~~~~v~~~~~~~~v~~~~~~~~~~~i~~~i~~~Gy   72 (84)
T 1q8l_A            5 QAGEVVLKMKVEGMTCHSCT--STIEGKIGKLQGVQRIKVSLDNQEATIVYQPHLISVEEMKKQIEAMGF   72 (84)
T ss_dssp             SSSCEEEEEEECCTTTCSSC--HHHHHHHHTCTTEEEEEECSTTTEEEEEECTTTCCHHHHHHHHHHTTC
T ss_pred             ccCceEEEEEECCcccHHHH--HHHHHHHHcCCCeEEEEEEecCCEEEEEECCCCCCHHHHHHHHHHcCC
Confidence            34445667777 49999999  999999999999999999999999999875  2678888998988883

>1fvq_A Copper-transporting ATPase; APO-CCC2A, hydrolase; NMR {Saccharomyces cerevisiae} SCOP: d.58.17.1 PDB: 1fvs_A 2ggp_B

Probab=97.29  E-value=0.0007  Score=50.08  Aligned_cols=63  Identities=13%  Similarity=0.162  Sum_probs=53.1

Q ss_pred             eeeecc-ccccchhhHHHHHHHhhcCCCeeEEEeecCCCeEEEEee-ccCHHHHHHHhhccc-ceeEE
Q 011431          385 AIFKLE-IHHDNLEAWRAAFSIVSEFIGITKISFDFKVKKMTVVGD-NFDVLSAGTKLNGLC-RTELV  449 (486)
Q Consensus       385 ~v~kv~-~~~~~~~~~~~a~k~~~~~~Gv~~v~~d~~~~~~~V~G~-~~d~~~~~~~l~k~~-~~~~~  449 (486)
                      +.+++. |+|..|.  ..+.+.+.+.+||.++.++...++++|..+ .+++..+...+++.| .+.++
T Consensus         4 ~~~~v~gm~C~~c~--~~i~~~l~~~~gv~~~~v~~~~~~~~v~~~~~~~~~~i~~~i~~~G~~~~~~   69 (72)
T 1fvq_A            4 VILAVHGMTCSACT--NTINTQLRALKGVTKCDISLVTNECQVTYDNEVTADSIKEIIEDCGFDCEIL   69 (72)
T ss_dssp             EEEEECSCCSHHHH--HHHHHHHHTSSSEEEECCBTTTTEEEEEECTTSCHHHHHHHHHHHTCCEEEE
T ss_pred             EEEEECCeecHHHH--HHHHHHHhcCCCeEEEEEEecCCEEEEEECCCCCHHHHHHHHHHCCCceEEc
Confidence            456664 9999999  999999999999999999999999999854 267888899898877 56554

>2v1u_A Cell division control protein 6 homolog; DNA replication, nucleotide-binding, replication, archaea; HET: ADP; 3.10A {Aeropyrum pernix}

Probab=97.16  E-value=0.00055  Score=68.59  Aligned_cols=151  Identities=5%  Similarity=-0.169  Sum_probs=78.2

Q ss_pred             CceeeeeeeccCccchhHHHHHHHhhhccccc----cceEEEEeee--ccHHHHHHHHhhhhcccccccccccccccccc
Q 011431          226 GYRSYRCWLLCPLFSELRVLTNDVHQLMDNYE----NSDVTLAKFE--GEVKKLDQRLLRFLESVDKHVASYDRYGSASF  299 (486)
Q Consensus       226 ~~~vi~I~GmGgGvGKTTLa~~vy~~~~~~F~----~~~~~~v~~~--~~l~~lqk~ll~~L~~~d~~~~~~~~~g~~s~  299 (486)
                      ..+.+-|+|.. |.||||||+.+.+.....+.    ...+..+...  .....+...++..+.......+. ........
T Consensus        43 ~~~~vll~G~~-G~GKT~l~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~l~~~l~~~~~~~~~-~~~~~~~~  120 (387)
T 2v1u_A           43 KPSNALLYGLT-GTGKTAVARLVLRRLEARASSLGVLVKPIYVNARHRETPYRVASAIAEAVGVRVPFTGL-SVGEVYER  120 (387)
T ss_dssp             CCCCEEECBCT-TSSHHHHHHHHHHHHHHHHHHHTCCEEEEEEETTTSCSHHHHHHHHHHHHSCCCCSSCC-CHHHHHHH
T ss_pred             CCCcEEEECCC-CCCHHHHHHHHHHHHHHHHhccCCCeEEEEEECCcCCCHHHHHHHHHHHhCCCCCCCCC-CHHHHHHH
Confidence            45577799999 99999999999987643221    1112222211  22333455555555321100000 00000122


Q ss_pred             ccccccc-CcceeeceecccCHHH-------HHHHhcCCCCC--CCCCEEEeeCCcccccc----ccccC-CCceEecCC
Q 011431          300 EQPRPQT-TSAAHPYVEDVIDDAY-------MEDITDDSSPS--LNLSRINSTSRFEQLWP----ETISA-TDTCTEDVT  364 (486)
Q Consensus       300 l~~~L~~-tKr~LlVLDDVw~~~~-------~~~l~~~~~~~--~~GSrIIiTTR~~~V~~----~~~~~-~~~~y~v~~  364 (486)
                      +...+.. .+..+|++|++.....       +..+.......  ..+..+|.||+......    ..... ....+++++
T Consensus       121 l~~~l~~~~~~~vlilDEi~~l~~~~~~~~~l~~l~~~~~~~~~~~~~~~I~~t~~~~~~~~l~~~l~~r~~~~~i~l~~  200 (387)
T 2v1u_A          121 LVKRLSRLRGIYIIVLDEIDFLPKRPGGQDLLYRITRINQELGDRVWVSLVGITNSLGFVENLEPRVKSSLGEVELVFPP  200 (387)
T ss_dssp             HHHHHTTSCSEEEEEEETTTHHHHSTTHHHHHHHHHHGGGCC-----CEEEEECSCSTTSSSSCHHHHTTTTSEECCBCC
T ss_pred             HHHHHhccCCeEEEEEccHhhhcccCCCChHHHhHhhchhhcCCCceEEEEEEECCCchHhhhCHHHHhcCCCeEEeeCC
Confidence            2223322 1578999999985431       22222211011  34668888887763311    00001 124789999


Q ss_pred             CCCchhhhhhcccC
Q 011431          365 VDNSPSLNLSSCNS  378 (486)
Q Consensus       365 L~~~es~~LF~~~a  378 (486)
                      |+.++..++|...+
T Consensus       201 l~~~~~~~il~~~~  214 (387)
T 2v1u_A          201 YTAPQLRDILETRA  214 (387)
T ss_dssp             CCHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHH
Confidence            99999999998764

>1yg0_A COP associated protein; open-faced beta-sandwich, missing C-terminal beta-sheet, Met transport; NMR {Helicobacter pylori}

Probab=97.15  E-value=0.0013  Score=47.64  Aligned_cols=57  Identities=18%  Similarity=0.097  Sum_probs=48.4

Q ss_pred             eeecc-ccccchhhHHHHHHHhhcCCCeeEEEeecCCCeEEEEee-ccCHHHHHHHhhccc
Q 011431          386 IFKLE-IHHDNLEAWRAAFSIVSEFIGITKISFDFKVKKMTVVGD-NFDVLSAGTKLNGLC  444 (486)
Q Consensus       386 v~kv~-~~~~~~~~~~~a~k~~~~~~Gv~~v~~d~~~~~~~V~G~-~~d~~~~~~~l~k~~  444 (486)
                      .+++. |+|..|.  ..+.+.+.+.+||.++.+|...++++|..+ ..++..+.+.+++.|
T Consensus         4 ~~~v~gm~C~~C~--~~i~~~l~~~~gv~~~~v~~~~~~~~v~~~~~~~~~~i~~~i~~~G   62 (66)
T 1yg0_A            4 TFQVPSITCNHCV--DKIEKFVGEIEGVSFIDVSVEKKSVVVEFDAPATQDLIKEALLDAG   62 (66)
T ss_dssp             EECCTTCSCSHHH--HHHHHHHTTSSSEEEEEEETTTTEEEEEECTTCCHHHHHHHHHHHT
T ss_pred             EEEECCcccHHHH--HHHHHHHhcCCCceEEEEEcCCCEEEEEECCCCCHHHHHHHHHHcC
Confidence            45564 9999999  999999999999999999999999999875 247777888787765

>3cjk_B Copper-transporting ATPase 1; HAH1, ATP7B, menkes disease, metal homeostasis, chaperone, ION transport, metal- binding, alternative splicing; 1.80A {Homo sapiens} PDB: 2k1r_A

Probab=97.15  E-value=0.002  Score=48.15  Aligned_cols=63  Identities=8%  Similarity=0.112  Sum_probs=52.7

Q ss_pred             eeec-cccccchhhHHHHHHHhhcCCCeeEEEeecCCCeEEEEee--ccCHHHHHHHhhccc-ceeEEe
Q 011431          386 IFKL-EIHHDNLEAWRAAFSIVSEFIGITKISFDFKVKKMTVVGD--NFDVLSAGTKLNGLC-RTELVS  450 (486)
Q Consensus       386 v~kv-~~~~~~~~~~~~a~k~~~~~~Gv~~v~~d~~~~~~~V~G~--~~d~~~~~~~l~k~~-~~~~~~  450 (486)
                      .+++ .|+|..|.  ..+.+.+.+.+||.++.+|...++++|..+  .+++..+...+.+.| .+.+..
T Consensus         5 ~~~v~gm~C~~C~--~~i~~~l~~~~gv~~~~v~~~~~~~~v~~~~~~~~~~~i~~~i~~~Gy~~~~~~   71 (75)
T 3cjk_B            5 TISVEGMTCNSCV--WTIEQQIGKVNGVHHIKVSLEEKNATIIYDPKLQTPKTLQEAIDDMGFDAVIHN   71 (75)
T ss_dssp             EEEECCCCSHHHH--HHHHHHHHTSTTEEEEEEETTTTEEEEEECTTTCCHHHHHHHHHHTTCCEEEEE
T ss_pred             EEEECCccCHHHH--HHHHHHHhcCCCeEEEEEEecCCEEEEEECCCCCCHHHHHHHHHHcCCceEeec
Confidence            4455 59999999  999999999999999999999999999875  267788888898888 555543

>1aw0_A Menkes copper-transporting ATPase; copper-binding domain, hydrolase; NMR {Homo sapiens} SCOP: d.58.17.1 PDB: 2aw0_A

Probab=97.15  E-value=0.00085  Score=49.60  Aligned_cols=60  Identities=12%  Similarity=0.148  Sum_probs=51.8

Q ss_pred             eeeeeec-cccccchhhHHHHHHHhhcCCCeeEEEeecCCCeEEEEeec--cCHHHHHHHhhccc
Q 011431          383 KEAIFKL-EIHHDNLEAWRAAFSIVSEFIGITKISFDFKVKKMTVVGDN--FDVLSAGTKLNGLC  444 (486)
Q Consensus       383 ~~~v~kv-~~~~~~~~~~~~a~k~~~~~~Gv~~v~~d~~~~~~~V~G~~--~d~~~~~~~l~k~~  444 (486)
                      ++..+++ .|+|..|.  ..+.+.+.+.+||.++.+|...++++|..+.  +++..+...+++.|
T Consensus         3 ~~~~~~v~gm~C~~C~--~~i~~~l~~~~gv~~~~v~~~~~~~~v~~~~~~~~~~~i~~~i~~~G   65 (72)
T 1aw0_A            3 QETVINIDGMTCNSCV--QSIEGVISKKPGVKSIRVSLANSNGTVEYDPLLTSPETLRGAIEDMG   65 (72)
T ss_dssp             EEEEEEEECCCHHHHH--HHHHHHHHTSTTCCCEEEETTTTEEEEEECTTTCCHHHHHHHHHHHT
T ss_pred             eEEEEEECCeecHHHH--HHHHHHHhcCCCeEEEEEEccCCEEEEEECCCcCCHHHHHHHHHHCC
Confidence            3456677 59999999  9999999999999999999999999998762  57788888888877

>1y3j_A Copper-transporting ATPase 1; ferrodoxin-like fold, beta-alpha-beta-BETA-alpha-beta structure, structural proteomics in europe, spine; NMR {Homo sapiens} PDB: 1y3k_A

Probab=97.13  E-value=0.0013  Score=49.69  Aligned_cols=66  Identities=9%  Similarity=-0.008  Sum_probs=54.9

Q ss_pred             ceeeeeec-cccccchhhHHHHHHHhhcCCCeeEEEeecCCCeEEEEee--ccCHHHHHHHhhccc-ceeEE
Q 011431          382 FKEAIFKL-EIHHDNLEAWRAAFSIVSEFIGITKISFDFKVKKMTVVGD--NFDVLSAGTKLNGLC-RTELV  449 (486)
Q Consensus       382 ~~~~v~kv-~~~~~~~~~~~~a~k~~~~~~Gv~~v~~d~~~~~~~V~G~--~~d~~~~~~~l~k~~-~~~~~  449 (486)
                      ++++.+++ .|+|..|.  ..+.+.+.+++||.++.++...++++|..+  .+++..+...+.+.| .+.++
T Consensus         2 m~~~~~~v~gm~C~~C~--~~ie~~l~~~~gv~~~~v~~~~~~~~v~~~~~~~~~~~i~~~i~~~Gy~~~~~   71 (77)
T 1y3j_A            2 SSKCYIQVTGMTCASCV--ANIERNLRREEGIYSILVALMAGKAEVRYNPAVIQPPMIAEFIRELGFGATVI   71 (77)
T ss_dssp             CEEEEEEESCGGGCSHH--HHHHHHHTTSSSEEECCCBTTTTBEEEEECTTTSCHHHHHHHHHHHTSCEEEE
T ss_pred             CEEEEEEECCeeCHHHH--HHHHHHHhcCCCeEEEEEEecCCEEEEEECCCCCCHHHHHHHHHHcCCceEEC
Confidence            45666777 49999999  999999999999999999999999999865  267788888888877 45443

>1mwy_A ZNTA; open-faced beta-sandwich fold, beta-alpha-beta-BETA-alpha- beta, hydrolase; NMR {Escherichia coli} SCOP: d.58.17.1 PDB: 1mwz_A

Probab=97.07  E-value=0.0017  Score=48.34  Aligned_cols=61  Identities=16%  Similarity=0.186  Sum_probs=49.8

Q ss_pred             eeeeeecc-ccccchhhHHHHHHHhhcCCCeeEEEeecCCCeEEEEeeccCHHHHHHHhhcccc
Q 011431          383 KEAIFKLE-IHHDNLEAWRAAFSIVSEFIGITKISFDFKVKKMTVVGDNFDVLSAGTKLNGLCR  445 (486)
Q Consensus       383 ~~~v~kv~-~~~~~~~~~~~a~k~~~~~~Gv~~v~~d~~~~~~~V~G~~~d~~~~~~~l~k~~~  445 (486)
                      +++.+++. |+|..|.  ..+.+.+.+.+||.++.+|...++++|..+.-.+..+...+.+.|+
T Consensus         3 ~~~~~~v~gm~C~~C~--~~ie~~l~~~~gV~~~~v~~~~~~~~v~~~~~~~~~i~~~i~~~Gy   64 (73)
T 1mwy_A            3 TRYSWKVSGMDCAACA--RKVENAVRQLAGVNQVQVLFATEKLVVDADNDIRAQVESALQKAGY   64 (73)
T ss_dssp             EEEEEEEESCCSTTHH--HHHHHHHHTSSSEEEEEEETTTTEEEEEESSCCHHHHHHHHHHHTC
T ss_pred             eEEEEEECCcCCHHHH--HHHHHHHhcCCCeeEEEEEecCCEEEEEECCCCHHHHHHHHHHcCC
Confidence            44566665 9999999  9999999999999999999999999998773235557777777773

>1cpz_A Protein (COPZ); copper chaperone, metal transport, gene regulation; NMR {Enterococcus hirae} SCOP: d.58.17.1

Probab=97.06  E-value=0.0018  Score=47.14  Aligned_cols=57  Identities=19%  Similarity=0.228  Sum_probs=49.4

Q ss_pred             cccccchhhHHHHHHHhhcCCCeeEEEeecCCCeEEEEee--ccCHHHHHHHhhccc-ceeE
Q 011431          390 EIHHDNLEAWRAAFSIVSEFIGITKISFDFKVKKMTVVGD--NFDVLSAGTKLNGLC-RTEL  448 (486)
Q Consensus       390 ~~~~~~~~~~~~a~k~~~~~~Gv~~v~~d~~~~~~~V~G~--~~d~~~~~~~l~k~~-~~~~  448 (486)
                      .|+|..|.  ..+.+.+.+.+||.++.+|...++++|..+  .+++..+...+++.| .+++
T Consensus         8 gm~C~~C~--~~i~~~l~~~~gv~~~~v~~~~~~~~v~~~~~~~~~~~i~~~i~~~G~~~~~   67 (68)
T 1cpz_A            8 GMSCNHCV--ARIEEAVGRISGVKKVKVQLKKEKAVVKFDEANVQATEICQAINELGYQAEV   67 (68)
T ss_dssp             CCCSSSHH--HHHHHHHHTSTTEEEEEEETTTTEEEEEECTTTCCHHHHHHHHHTTSSCEEE
T ss_pred             CeeCHHHH--HHHHHHHHcCCCeEEEEEEecCCEEEEEECCCCCCHHHHHHHHHHcCCCccc
Confidence            49999999  999999999999999999999999999875  267888888888877 4443

>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=97.05  E-value=0.0003  Score=69.58  Aligned_cols=69  Identities=4%  Similarity=-0.091  Sum_probs=42.6

Q ss_pred             ceeeceecccCHH-----HHHHHhcCCCCCCCCCEEEeeCCcccccccc--------cc-C-CCceEecCCCCCchhhhh
Q 011431          309 AAHPYVEDVIDDA-----YMEDITDDSSPSLNLSRINSTSRFEQLWPET--------IS-A-TDTCTEDVTVDNSPSLNL  373 (486)
Q Consensus       309 r~LlVLDDVw~~~-----~~~~l~~~~~~~~~GSrIIiTTR~~~V~~~~--------~~-~-~~~~y~v~~L~~~es~~L  373 (486)
                      +++|++||+....     .+..++...++...+.++|+|+|....+...        .. + ....+++.+|+.+|+.++
T Consensus       138 ~~vlvlDe~~~~~~~~~~~~~~~l~~~~~~~~~~~~i~~g~~~~~l~~~l~~~~~~~~l~~r~~~~i~l~~l~~~e~~~~  217 (357)
T 2fna_A          138 NVIIVLDEAQELVKLRGVNLLPALAYAYDNLKRIKFIMSGSEMGLLYDYLRVEDPESPLFGRAFSTVELKPFSREEAIEF  217 (357)
T ss_dssp             CEEEEEETGGGGGGCTTCCCHHHHHHHHHHCTTEEEEEEESSHHHHHHHTTTTCTTSTTTTCCCEEEEECCCCHHHHHHH
T ss_pred             CeEEEEECHHHhhccCchhHHHHHHHHHHcCCCeEEEEEcCchHHHHHHHhccCCCCccccCccceeecCCCCHHHHHHH
Confidence            7899999997532     2222221111112467999999976532110        01 1 125789999999999999


Q ss_pred             hccc
Q 011431          374 SSCN  377 (486)
Q Consensus       374 F~~~  377 (486)
                      +...
T Consensus       218 l~~~  221 (357)
T 2fna_A          218 LRRG  221 (357)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            9764

>2g9o_A Copper-transporting ATPase 1; menkes disease, solution structure, structural genomics, structural proteomics in europe, spine, hydrolase; NMR {Homo sapiens} PDB: 2ga7_A

Probab=97.05  E-value=0.0013  Score=51.87  Aligned_cols=58  Identities=16%  Similarity=0.164  Sum_probs=50.2

Q ss_pred             eeeeec-cccccchhhHHHHHHHhhcCCCeeEEEeecCCCeEEEEee--ccCHHHHHHHhhcc
Q 011431          384 EAIFKL-EIHHDNLEAWRAAFSIVSEFIGITKISFDFKVKKMTVVGD--NFDVLSAGTKLNGL  443 (486)
Q Consensus       384 ~~v~kv-~~~~~~~~~~~~a~k~~~~~~Gv~~v~~d~~~~~~~V~G~--~~d~~~~~~~l~k~  443 (486)
                      ++.+++ .|+|..|.  ..+.+.+.+++||.++.++...++++|..+  .+++..+...+.+.
T Consensus         4 ~~~l~v~Gm~C~~C~--~~Ie~~L~~~~GV~~v~v~l~~~~~~V~~~~~~~~~~~i~~~i~~~   64 (90)
T 2g9o_A            4 TATFIIDGMHCKSCV--SNIESTLSALQYVSSIVVSLENRSAIVVYNASSVTPESLRKAIEAV   64 (90)
T ss_dssp             EEEEEEESCCHHHHH--HHHHHHHTTCTTEEEEEEETTTTEEEEEECCSSCCTHHHHHHHHTT
T ss_pred             EEEEEECCcCCHHHH--HHHHHHHHcCCCeeEEEEEccCCEEEEEECCCCCCHHHHHHHHHhc
Confidence            344555 49999999  999999999999999999999999999864  26788899999988

>2qif_A Copper chaperone COPZ; tetranuclear Cu(I) cluster; 1.50A {Bacillus subtilis} SCOP: d.58.17.1 PDB: 3i9z_A 1k0v_A 1p8g_A

Probab=96.99  E-value=0.002  Score=46.54  Aligned_cols=59  Identities=15%  Similarity=0.247  Sum_probs=49.7

Q ss_pred             eeeeecc-ccccchhhHHHHHHHhhcCCCeeEEEeecCCCeEEEEee--ccCHHHHHHHhhccc
Q 011431          384 EAIFKLE-IHHDNLEAWRAAFSIVSEFIGITKISFDFKVKKMTVVGD--NFDVLSAGTKLNGLC  444 (486)
Q Consensus       384 ~~v~kv~-~~~~~~~~~~~a~k~~~~~~Gv~~v~~d~~~~~~~V~G~--~~d~~~~~~~l~k~~  444 (486)
                      +..+++. |+|..|.  ..+.+.+...+||.++.++...++++|..+  .+++..+...+.+.|
T Consensus         3 ~~~~~v~gm~C~~c~--~~i~~~l~~~~gv~~~~v~~~~~~~~v~~~~~~~~~~~i~~~i~~~G   64 (69)
T 2qif_A            3 QKTLQVEGMSCQHCV--KAVETSVGELDGVSAVHVNLEAGKVDVSFDADKVSVKDIADAIEDQG   64 (69)
T ss_dssp             EEEEEEECCCSHHHH--HHHHHHHHTSTTEEEEEEETTTTEEEEEECTTTCCHHHHHHHHHHTT
T ss_pred             EEEEEECCcccHHHH--HHHHHHHhcCCCeeEEEEEecCCEEEEEECCCCCCHHHHHHHHHHcC
Confidence            3455665 9999999  999999999999999999999999999864  267778888888766

>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=96.98  E-value=0.00087  Score=65.44  Aligned_cols=145  Identities=6%  Similarity=-0.025  Sum_probs=75.9

Q ss_pred             HHHHHHhhcCCCceeeeeeeccCccchhHHHHHHHhhhccccccceEEEEeee--ccHHHHHHHHhhhhccccccccccc
Q 011431          215 DEVLSLLRNAEGYRSYRCWLLCPLFSELRVLTNDVHQLMDNYENSDVTLAKFE--GEVKKLDQRLLRFLESVDKHVASYD  292 (486)
Q Consensus       215 ~~v~~ll~~~~~~~vi~I~GmGgGvGKTTLa~~vy~~~~~~F~~~~~~~v~~~--~~l~~lqk~ll~~L~~~d~~~~~~~  292 (486)
                      +.+...+... ....+-++|.. |.||||+|+.+.+.+........+......  .....++ .++..+..         
T Consensus        31 ~~l~~~l~~~-~~~~~ll~G~~-G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~-~~~~~~~~---------   98 (323)
T 1sxj_B           31 DRLQQIAKDG-NMPHMIISGMP-GIGKTTSVHCLAHELLGRSYADGVLELNASDDRGIDVVR-NQIKHFAQ---------   98 (323)
T ss_dssp             HHHHHHHHSC-CCCCEEEECST-TSSHHHHHHHHHHHHHGGGHHHHEEEECTTSCCSHHHHH-THHHHHHH---------
T ss_pred             HHHHHHHHcC-CCCeEEEECcC-CCCHHHHHHHHHHHhcCCcccCCEEEecCccccChHHHH-HHHHHHHh---------
Confidence            3444444432 23337799999 999999999998876332111111221111  1121111 11111100         


Q ss_pred             cccccccccccc-ccCcceeeceecccC--HHHHHHHhcCCCCCCCCCEEEeeCCccccccccccCCCceEecCCCCCch
Q 011431          293 RYGSASFEQPRP-QTTSAAHPYVEDVID--DAYMEDITDDSSPSLNLSRINSTSRFEQLWPETISATDTCTEDVTVDNSP  369 (486)
Q Consensus       293 ~~g~~s~l~~~L-~~tKr~LlVLDDVw~--~~~~~~l~~~~~~~~~GSrIIiTTR~~~V~~~~~~~~~~~y~v~~L~~~e  369 (486)
                             ....+ .+ ++.+|++||++.  ......+....-+...++++|+||+...-+..........+++.+++.++
T Consensus        99 -------~~~~~~~~-~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~il~~~~~~~l~~~l~sr~~~i~~~~~~~~~  170 (323)
T 1sxj_B           99 -------KKLHLPPG-KHKIVILDEADSMTAGAQQALRRTMELYSNSTRFAFACNQSNKIIEPLQSQCAILRYSKLSDED  170 (323)
T ss_dssp             -------BCCCCCTT-CCEEEEEESGGGSCHHHHHTTHHHHHHTTTTEEEEEEESCGGGSCHHHHTTSEEEECCCCCHHH
T ss_pred             -------ccccCCCC-CceEEEEECcccCCHHHHHHHHHHHhccCCCceEEEEeCChhhchhHHHhhceEEeecCCCHHH
Confidence                   00012 22 578999999975  33344333211012346788888876443211111122478999999999


Q ss_pred             hhhhhcccCC
Q 011431          370 SLNLSSCNSS  379 (486)
Q Consensus       370 s~~LF~~~a~  379 (486)
                      ..+++...+.
T Consensus       171 ~~~~l~~~~~  180 (323)
T 1sxj_B          171 VLKRLLQIIK  180 (323)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            9999987653

>1kvi_A Copper-transporting ATPase 1; menkes, Cu-protein, hydrolase; NMR {Homo sapiens} SCOP: d.58.17.1 PDB: 1kvj_A

Probab=96.91  E-value=0.002  Score=48.80  Aligned_cols=64  Identities=8%  Similarity=0.121  Sum_probs=53.5

Q ss_pred             eeeeeec-cccccchhhHHHHHHHhhcCCCeeEEEeecCCCeEEEEee--ccCHHHHHHHhhccc-ceeE
Q 011431          383 KEAIFKL-EIHHDNLEAWRAAFSIVSEFIGITKISFDFKVKKMTVVGD--NFDVLSAGTKLNGLC-RTEL  448 (486)
Q Consensus       383 ~~~v~kv-~~~~~~~~~~~~a~k~~~~~~Gv~~v~~d~~~~~~~V~G~--~~d~~~~~~~l~k~~-~~~~  448 (486)
                      +++.+++ .|+|..|.  ..+.+.+.+.+||.++.++...++++|..+  .+++..+...+++.| .+.+
T Consensus         8 ~~~~~~v~gm~C~~C~--~~i~~~l~~~~gv~~~~v~~~~~~~~v~~~~~~~~~~~i~~~i~~~Gy~~~~   75 (79)
T 1kvi_A            8 NSVTISVEGMTCNSCV--WTIEQQIGKVNGVHHIKVSLEEKNATIIYDPKLQTPKTLQEAIDDMGFDAVI   75 (79)
T ss_dssp             EEEEEEECCCCSTTTH--HHHHHHHHHSSSCCCEEEEGGGTEEEEEECTTTCCHHHHHHHHHHHCCCEEE
T ss_pred             EEEEEEECCccCHHHH--HHHHHHHhcCCCeEEEEEEccCCEEEEEECCCCCCHHHHHHHHHHCCCceEe
Confidence            4556666 49999999  999999999999999999999999999865  257788888888877 4544

>1yjr_A Copper-transporting ATPase 1; metallochaperone, protein-protein interaction, copper(I), metal homeostasis, structural proteomics in europe, spine; NMR {Homo sapiens} PDB: 1yjt_A 1yju_A 1yjv_A

Probab=96.84  E-value=0.0024  Score=47.47  Aligned_cols=59  Identities=12%  Similarity=0.023  Sum_probs=49.0

Q ss_pred             eeeeec-cccccchhhHHHHHHHhhcCCCeeEEEeecCCCeEEEEeec--cCHHHHHHHhhccc
Q 011431          384 EAIFKL-EIHHDNLEAWRAAFSIVSEFIGITKISFDFKVKKMTVVGDN--FDVLSAGTKLNGLC  444 (486)
Q Consensus       384 ~~v~kv-~~~~~~~~~~~~a~k~~~~~~Gv~~v~~d~~~~~~~V~G~~--~d~~~~~~~l~k~~  444 (486)
                      ++.+++ .|+|..|.  ..+.+.+.+++||.++.+|...++++|..+.  +++..+...+.+.|
T Consensus         5 ~~~~~v~gm~C~~c~--~~i~~~l~~~~gv~~~~v~~~~~~~~v~~~~~~~~~~~i~~~i~~~G   66 (75)
T 1yjr_A            5 VLELVVRGMTCASCV--HKIESSLTKHRGILYCSVALATNKAHIKYDPEIIGPRDIIHTIESLG   66 (75)
T ss_dssp             CEEEEEETCCTTTHH--HHHHHHHTTSTTEEEEEEETTTTEEEEEECTTTTHHHHHHHHHHHHH
T ss_pred             EEEEEECCcccHHHH--HHHHHHHHcCCCEEEEEEEecCCEEEEEECCCCCCHHHHHHHHHHcC
Confidence            344555 59999999  9999999999999999999999999998762  45667778787777

>1opz_A Potential copper-transporting ATPase; mutation, folding, abbab fold, hydrolase; NMR {Bacillus subtilis} SCOP: d.58.17.1 PDB: 1oq3_A 1oq6_A

Probab=96.81  E-value=0.0026  Score=47.26  Aligned_cols=62  Identities=13%  Similarity=0.150  Sum_probs=51.8

Q ss_pred             ceeeeeecc-ccccchhhHHHHHHHhhcCCCeeEEEeecCCCeEEEEee--ccCHHHHHHHhhcccc
Q 011431          382 FKEAIFKLE-IHHDNLEAWRAAFSIVSEFIGITKISFDFKVKKMTVVGD--NFDVLSAGTKLNGLCR  445 (486)
Q Consensus       382 ~~~~v~kv~-~~~~~~~~~~~a~k~~~~~~Gv~~v~~d~~~~~~~V~G~--~~d~~~~~~~l~k~~~  445 (486)
                      +++..+++. |+|..|.  ..+.+.+.+.+||.++.+|...++++|.-+  .+++..+...+.+.|.
T Consensus         5 ~~~~~~~v~gm~C~~C~--~~i~~~l~~~~gv~~~~v~~~~~~~~v~~~~~~~~~~~i~~~i~~~G~   69 (76)
T 1opz_A            5 QKEIAMQVSGMTCAACA--ARIEKGLKRMPGVTDANVNLATETVNVIYDPAETGTAAIQEKIEKLGY   69 (76)
T ss_dssp             CEEEEEEEESCCSTTHH--HHHHHHHHTSTTEEEEEEEGGGTEEEEEECTTTCCHHHHHHHHHHHTC
T ss_pred             ceEEEEEECCcccHHHH--HHHHHHHhcCCCeEEEEEEecCCEEEEEECCCCCCHHHHHHHHHHCCC
Confidence            345567775 9999999  999999999999999999999999999753  2677888888888773

>2kt2_A Mercuric reductase; nmera, MERA, HMA domain, mercuric resist metal-binding, oxidoreductase; NMR {Pseudomonas aeruginosa} PDB: 2kt3_A

Probab=96.79  E-value=0.0027  Score=46.46  Aligned_cols=54  Identities=7%  Similarity=0.021  Sum_probs=47.9

Q ss_pred             cccccchhhHHHHHHHhhcCCCeeEEEeecCCCeEEEEee-ccCHHHHHHHhhcccc
Q 011431          390 EIHHDNLEAWRAAFSIVSEFIGITKISFDFKVKKMTVVGD-NFDVLSAGTKLNGLCR  445 (486)
Q Consensus       390 ~~~~~~~~~~~~a~k~~~~~~Gv~~v~~d~~~~~~~V~G~-~~d~~~~~~~l~k~~~  445 (486)
                      .|+|..|.  ..+.+.+.+.+||.++.+|...++++|..+ ..++..+...+++.|+
T Consensus         8 gm~C~~C~--~~i~~~l~~~~gv~~~~v~~~~~~~~v~~~~~~~~~~i~~~i~~~Gy   62 (69)
T 2kt2_A            8 GMTCDSCA--AHVKEALEKVPGVQSALVSYPKGTAQLAIVPGTSPDALTAAVAGLGY   62 (69)
T ss_dssp             SSCSTHHH--HHHHHHHHHSTTEEEEEEETTTTEEEEEECTTSCHHHHHHHHHTTTS
T ss_pred             CcccHHHH--HHHHHHHHcCCCeeEEEEEccCCEEEEEECCCCCHHHHHHHHHHCCC
Confidence            59999999  999999999999999999999999999865 2577889999988873

>2ldi_A Zinc-transporting ATPase; metal homeostasis, metallochaperones, hydrolase; NMR {Synechocystis SP}

Probab=96.74  E-value=0.0047  Score=44.97  Aligned_cols=59  Identities=10%  Similarity=0.184  Sum_probs=49.8

Q ss_pred             eeeeecc-ccccchhhHHHHHHHhhcCCCeeEEEeecCCCeEEEEee--ccCHHHHHHHhhccc
Q 011431          384 EAIFKLE-IHHDNLEAWRAAFSIVSEFIGITKISFDFKVKKMTVVGD--NFDVLSAGTKLNGLC  444 (486)
Q Consensus       384 ~~v~kv~-~~~~~~~~~~~a~k~~~~~~Gv~~v~~d~~~~~~~V~G~--~~d~~~~~~~l~k~~  444 (486)
                      +..+++. |+|..|.  .++.+.+.+.+||.++.+|...++++|..+  .+++..+...+.+.|
T Consensus         4 ~~~~~v~gm~C~~C~--~~i~~~l~~~~gv~~~~v~~~~~~~~v~~~~~~~~~~~i~~~i~~~G   65 (71)
T 2ldi_A            4 TQQMQVGGMRCAACA--SSIERALERLKGVAEASVTVATGRLTVTYDPKQVSEITIQERIAALG   65 (71)
T ss_dssp             EEEEEEETCTTSGGG--HHHHTGGGGCSSEEEEEEETTTTEEEEEECTTTCCTHHHHHHHHTTT
T ss_pred             EEEEEECCccCHHHH--HHHHHHHhcCCCeeEEEEEecCCEEEEEECCCCCCHHHHHHHHHHcC
Confidence            3445664 9999999  999999999999999999999999999865  267777888888777

>2kkh_A Putative heavy metal transporter; zinc transport, metal binding, metal selectivity, ferredoxin fold, ATP-binding, hydrolase; NMR {Arabidopsis thaliana}

Probab=96.74  E-value=0.0069  Score=47.93  Aligned_cols=66  Identities=15%  Similarity=0.198  Sum_probs=54.7

Q ss_pred             cceeeeeecc-ccccchhhHHHHHHHhhcCCCeeEEEeecCCCeEEEEeec--cCHHHHHHHhhccc-ceeE
Q 011431          381 TFKEAIFKLE-IHHDNLEAWRAAFSIVSEFIGITKISFDFKVKKMTVVGDN--FDVLSAGTKLNGLC-RTEL  448 (486)
Q Consensus       381 k~~~~v~kv~-~~~~~~~~~~~a~k~~~~~~Gv~~v~~d~~~~~~~V~G~~--~d~~~~~~~l~k~~-~~~~  448 (486)
                      .+.+..+.+. |+|..|.  ..+.+.+..++||.++.++...++++|..+.  +++..+...+...| .+.+
T Consensus        14 ~~~~~~~~v~gm~C~~C~--~~ie~~l~~~~GV~~~~v~~~~~~~~v~~~~~~~~~~~i~~~i~~~Gy~~~~   83 (95)
T 2kkh_A           14 KLQKSYFDVLGICCTSEV--PIIENILKSLDGVKEYSVIVPSRTVIVVHDSLLISPFQIAKALNEARLEANV   83 (95)
T ss_dssp             CSEEEEEEETTCCTTTTH--HHHHHHHHHSSSEEEEEEETTTTEEEEEECTTTCCHHHHHHHHHHHTCCEEE
T ss_pred             ceEEEEEEECCcCCHHHH--HHHHHHHhcCCCeeEEEEEccCCEEEEEECCCCCCHHHHHHHHHHcCCceEE
Confidence            3455667774 9999999  9999999999999999999999999998762  57788888888877 4444

>2z4s_A Chromosomal replication initiator protein DNAA; AAA+ ATPase, domain III (ATPase domain), ATP-binding, cytoplasm, DNA replication; HET: ADP; 3.00A {Thermotoga maritima} PDB: 2z4r_A*

Probab=96.65  E-value=0.0009  Score=69.17  Aligned_cols=136  Identities=10%  Similarity=-0.037  Sum_probs=74.0

Q ss_pred             ceeeeeeeccCccchhHHHHHHHhhhccccccceEEEEeeeccHHHHHHHHhhhhccccccccccccccccccccccccc
Q 011431          227 YRSYRCWLLCPLFSELRVLTNDVHQLMDNYENSDVTLAKFEGEVKKLDQRLLRFLESVDKHVASYDRYGSASFEQPRPQT  306 (486)
Q Consensus       227 ~~vi~I~GmGgGvGKTTLa~~vy~~~~~~F~~~~~~~v~~~~~l~~lqk~ll~~L~~~d~~~~~~~~~g~~s~l~~~L~~  306 (486)
                      ..-+-|+|.. |.||||||+.+.+.+...+....+..+...    .+...+...+...          .. ..+...+..
T Consensus       130 ~~~lll~Gp~-G~GKTtLa~aia~~l~~~~~~~~v~~v~~~----~~~~~~~~~~~~~----------~~-~~~~~~~~~  193 (440)
T 2z4s_A          130 YNPLFIYGGV-GLGKTHLLQSIGNYVVQNEPDLRVMYITSE----KFLNDLVDSMKEG----------KL-NEFREKYRK  193 (440)
T ss_dssp             SCCEEEECSS-SSSHHHHHHHHHHHHHHHCCSSCEEEEEHH----HHHHHHHHHHHTT----------CH-HHHHHHHTT
T ss_pred             CCeEEEECCC-CCCHHHHHHHHHHHHHHhCCCCeEEEeeHH----HHHHHHHHHHHcc----------cH-HHHHHHhcC
Confidence            5567799999 999999999999877555433223333221    1223333332210          00 111122222


Q ss_pred             CcceeeceecccCHH----HHHHHhcCC-CCCCCCCEEEeeCCcc-c----cccc--cccCCCceEecCCCCCchhhhhh
Q 011431          307 TSAAHPYVEDVIDDA----YMEDITDDS-SPSLNLSRINSTSRFE-Q----LWPE--TISATDTCTEDVTVDNSPSLNLS  374 (486)
Q Consensus       307 tKr~LlVLDDVw~~~----~~~~l~~~~-~~~~~GSrIIiTTR~~-~----V~~~--~~~~~~~~y~v~~L~~~es~~LF  374 (486)
                       +..+|++||+....    ..+.+.... .....|..||+||.+. .    +...  .......++++++++.++-..++
T Consensus       194 -~~~vL~IDEi~~l~~~~~~q~~l~~~l~~l~~~~~~iIitt~~~~~~l~~l~~~L~sR~~~g~~i~l~~p~~e~r~~iL  272 (440)
T 2z4s_A          194 -KVDILLIDDVQFLIGKTGVQTELFHTFNELHDSGKQIVICSDREPQKLSEFQDRLVSRFQMGLVAKLEPPDEETRKSIA  272 (440)
T ss_dssp             -TCSEEEEECGGGGSSCHHHHHHHHHHHHHHHTTTCEEEEEESSCGGGCSSCCHHHHHHHHSSBCCBCCCCCHHHHHHHH
T ss_pred             -CCCEEEEeCcccccCChHHHHHHHHHHHHHHHCCCeEEEEECCCHHHHHHHHHHHHhhccCCeEEEeCCCCHHHHHHHH
Confidence             35689999986321    222222110 0023478899988762 1    1100  00112357889999999999998


Q ss_pred             cccCC
Q 011431          375 SCNSS  379 (486)
Q Consensus       375 ~~~a~  379 (486)
                      ...+.
T Consensus       273 ~~~~~  277 (440)
T 2z4s_A          273 RKMLE  277 (440)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            87663

>2kyz_A Heavy metal binding protein; structural genomics, PSI-biology, protein structure initiative, joint for structural genomics, JCSG; NMR {Thermotoga maritima}

Probab=96.64  E-value=0.0023  Score=46.88  Aligned_cols=55  Identities=16%  Similarity=0.165  Sum_probs=47.7

Q ss_pred             eeeec-cccccchhhHHHHHHHhhcCCCeeEEEeecCCCeEEEEeeccCHHHHHHHhhccc
Q 011431          385 AIFKL-EIHHDNLEAWRAAFSIVSEFIGITKISFDFKVKKMTVVGDNFDVLSAGTKLNGLC  444 (486)
Q Consensus       385 ~v~kv-~~~~~~~~~~~~a~k~~~~~~Gv~~v~~d~~~~~~~V~G~~~d~~~~~~~l~k~~  444 (486)
                      ..+++ .|+|..|.  ..+.+.+.++ ||.++.+|...++++|.++ .+ ..+...+++.|
T Consensus         3 ~~~~v~gm~C~~C~--~~i~~~l~~~-gv~~~~v~~~~~~~~v~~~-~~-~~i~~~i~~~G   58 (67)
T 2kyz_A            3 YVLYVPDISCNHCK--MRISKALEEL-GVKNYEVSVEEKKVVVETE-NL-DSVLKKLEEID   58 (67)
T ss_dssp             EEEECGGGGSHHHH--HHHHHHHHHH-TCSEEEEETTTTEEEEECS-CH-HHHHHHHHTTT
T ss_pred             EEEEECCcCcHHHH--HHHHHHHHHc-CCeEEEEECCCCEEEEEEC-CH-HHHHHHHHHcC
Confidence            34566 59999999  9999999999 9999999999999999987 44 77888888877

>1p6t_A Potential copper-transporting ATPase; COPA, P-type ATPase, water-soluble region, beta-alpha-beta- beta-alpha-beta fold; NMR {Bacillus subtilis} SCOP: d.58.17.1 d.58.17.1 PDB: 2rml_A

Probab=96.63  E-value=0.0038  Score=53.72  Aligned_cols=65  Identities=14%  Similarity=0.205  Sum_probs=55.1

Q ss_pred             eeeeeec-cccccchhhHHHHHHHhhcCCCeeEEEeecCCCeEEEEee--ccCHHHHHHHhhccc-ceeEE
Q 011431          383 KEAIFKL-EIHHDNLEAWRAAFSIVSEFIGITKISFDFKVKKMTVVGD--NFDVLSAGTKLNGLC-RTELV  449 (486)
Q Consensus       383 ~~~v~kv-~~~~~~~~~~~~a~k~~~~~~Gv~~v~~d~~~~~~~V~G~--~~d~~~~~~~l~k~~-~~~~~  449 (486)
                      +.+.+.+ .|+|..|.  .++.+.+.+++||.++.++...++++|.-+  .+++..+.+.+++.| .+.+.
T Consensus        74 ~~~~~~v~gm~C~~C~--~~ie~~l~~~~gv~~~~v~~~~~~~~v~~~~~~~~~~~i~~~i~~~Gy~~~~~  142 (151)
T 1p6t_A           74 EKAEFDIEGMTCAACA--NRIEKRLNKIEGVANAPVNFALETVTVEYNPKEASVSDLKEAVDKLGYKLKLK  142 (151)
T ss_dssp             EEEEEEESSCCSSSHH--HHHHHHHTTSSSEEECCEETTTTEEEEEECTTTCCHHHHHHHHHHHTCCEEES
T ss_pred             cccEEEecCCCCHHHH--HHHHHHHhcCCCceEEEEEccCCEEEEEECCCCCCHHHHHHHHHHcCCCeEEc
Confidence            3456677 49999999  999999999999999999999999999843  278899999999988 55553

>1eiw_A Hypothetical protein MTH538; CHEY-like fold, flavodoxin-like fold, (A/B)5 doubly wound fold, parallel beta sheet; NMR {Methanothermobacterthermautotrophicus} SCOP: c.23.3.1

Probab=96.61  E-value=0.0012  Score=54.50  Aligned_cols=71  Identities=10%  Similarity=-0.011  Sum_probs=49.7

Q ss_pred             eecCceEEecccCccCcChHHHHHHHHhcCCCeEEEeCCcCCCCCchHHHHHHHhhccceEEEeecccccChhhHHHHHH
Q 011431           19 RYKHDVFVTFSGEDIRENFGSYLFAALFRESVKTFRDEQIRRGDEIMPALLQAIEESKISLVIFSKRFAFSRWCLEELVK   98 (486)
Q Consensus        19 ~y~~dVFis~~~~D~~~~f~~~L~~~L~~~gi~~~~d~~~~~g~~i~~~i~~~I~~s~~~ivv~S~~y~~S~wcl~El~~   98 (486)
                      +|  .+||||..+|.    ...|...|.+.|+..- |              ..|+.|.+.|++.+++..+|+||..|+..
T Consensus         4 ~~--~lFISh~~~d~----~~~L~~~l~~~~f~~~-~--------------~~I~~~~~vIvL~G~~t~~s~wv~~EI~~   62 (111)
T 1eiw_A            4 EI--RLYITEGEVED----YRVFLERLEQSGLEWR-P--------------ATPEDADAVIVLAGLWGTRRDEILGAVDL   62 (111)
T ss_dssp             CE--EEEECCCCSHH----HHHHHHHHHHHCSCEE-E--------------CCSSSCSEEEEEGGGTTTSHHHHHHHHHH
T ss_pred             eE--EEEEecccHhH----HHHHHHHHhCCCCeee-c--------------CccccCCEEEEEeCCCcCCChHHHHHHHH
Confidence            58  99999999982    3344444444454322 2              45789999999999999999999999865


Q ss_pred             HHHHhcCCCEEEEEE
Q 011431           99 IIECNKLYQTVIPVF  113 (486)
Q Consensus        99 i~~~~~~~~~v~Pif  113 (486)
                      +.+   .+..++-|.
T Consensus        63 A~~---~gkpIigV~   74 (111)
T 1eiw_A           63 ARK---SSKPIITVR   74 (111)
T ss_dssp             HTT---TTCCEEEEC
T ss_pred             HHH---cCCCEEEEE
Confidence            554   444455443

>2aj0_A Probable cadmium-transporting ATPase; ferrodoxin-like fold, beta-alpha-beta-BETA-alpha-beta, metal binding protein, hydrolase; NMR {Listeria monocytogenes} PDB: 2aj1_A

Probab=96.60  E-value=0.004  Score=46.03  Aligned_cols=55  Identities=18%  Similarity=0.311  Sum_probs=45.3

Q ss_pred             eeeeeecc-ccccchhhHHHHHHHhhcCCCeeEEEeecCCCeEEEEeeccCHHHHHHHhhccc
Q 011431          383 KEAIFKLE-IHHDNLEAWRAAFSIVSEFIGITKISFDFKVKKMTVVGDNFDVLSAGTKLNGLC  444 (486)
Q Consensus       383 ~~~v~kv~-~~~~~~~~~~~a~k~~~~~~Gv~~v~~d~~~~~~~V~G~~~d~~~~~~~l~k~~  444 (486)
                      ++..+++. |+|..|.  ..+.+.+.+.+||.++.+|...++++|.++ .+    ...+++.|
T Consensus         3 ~~~~~~v~gm~C~~C~--~~ie~~l~~~~gv~~~~v~~~~~~~~v~~~-~~----~~~i~~~G   58 (71)
T 2aj0_A            3 EKTVYRVDGLSCTNCA--AKFERNVKEIEGVTEAIVNFGASKITVTGE-AS----IQQVEQAG   58 (71)
T ss_dssp             CEEEEEEESCCCHHHH--HHHHHHHHHSTTEEEEEECCSSEEEEEEES-CC----HHHHHHHH
T ss_pred             eEEEEEECCcccHHHH--HHHHHHHHcCCCeEEEEEECCCCEEEEEec-Cc----HHHHHHhC
Confidence            34566675 9999999  999999999999999999999999999987 54    33455555

>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=96.54  E-value=0.0024  Score=62.37  Aligned_cols=131  Identities=5%  Similarity=-0.093  Sum_probs=69.4

Q ss_pred             eeeeeeccCccchhHHHHHHHhhhccccccceEEEEeeecc--HHHHHHHHhhhhcccccccccccccccccccccccc-
Q 011431          229 SYRCWLLCPLFSELRVLTNDVHQLMDNYENSDVTLAKFEGE--VKKLDQRLLRFLESVDKHVASYDRYGSASFEQPRPQ-  305 (486)
Q Consensus       229 vi~I~GmGgGvGKTTLa~~vy~~~~~~F~~~~~~~v~~~~~--l~~lqk~ll~~L~~~d~~~~~~~~~g~~s~l~~~L~-  305 (486)
                      .+-++|.. |.||||+|+.+.+.+........+........  ...++..+. ....         . .       .+. 
T Consensus        48 ~~ll~G~~-G~GKT~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~---------~-~-------~~~~  108 (327)
T 1iqp_A           48 HLLFAGPP-GVGKTTAALALARELFGENWRHNFLELNASDERGINVIREKVK-EFAR---------T-K-------PIGG  108 (327)
T ss_dssp             EEEEESCT-TSSHHHHHHHHHHHHHGGGHHHHEEEEETTCHHHHHTTHHHHH-HHHH---------S-C-------CGGG
T ss_pred             eEEEECcC-CCCHHHHHHHHHHHhcCCcccCceEEeeccccCchHHHHHHHH-HHHh---------h-C-------CcCC
Confidence            36799999 99999999999887633211111222211111  110111110 0000         0 0       111 


Q ss_pred             cCcceeeceecccC--HHHHHHHhcCCCCCCCCCEEEeeCCccccccccccCCCceEecCCCCCchhhhhhcccCC
Q 011431          306 TTSAAHPYVEDVID--DAYMEDITDDSSPSLNLSRINSTSRFEQLWPETISATDTCTEDVTVDNSPSLNLSSCNSS  379 (486)
Q Consensus       306 ~tKr~LlVLDDVw~--~~~~~~l~~~~~~~~~GSrIIiTTR~~~V~~~~~~~~~~~y~v~~L~~~es~~LF~~~a~  379 (486)
                      . ++.+|++|+++.  ......+....-+...++++|+||...+-+..........+++.+|+.++...++...+.
T Consensus       109 ~-~~~vliiDe~~~l~~~~~~~L~~~le~~~~~~~~i~~~~~~~~l~~~l~sr~~~~~~~~l~~~~~~~~l~~~~~  183 (327)
T 1iqp_A          109 A-SFKIIFLDEADALTQDAQQALRRTMEMFSSNVRFILSCNYSSKIIEPIQSRCAIFRFRPLRDEDIAKRLRYIAE  183 (327)
T ss_dssp             C-SCEEEEEETGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHHTEEEEECCCCCHHHHHHHHHHHHH
T ss_pred             C-CCeEEEEeCCCcCCHHHHHHHHHHHHhcCCCCeEEEEeCCccccCHHHHhhCcEEEecCCCHHHHHHHHHHHHH
Confidence            2 577899999975  333444432110123467888888765422111000123689999999999998876543

>1fnn_A CDC6P, cell division control protein 6; ORC1, AAA protein, DNA replication initation factor, cell cycle control factor; HET: ADP; 2.00A {Pyrobaculum aerophilum} SCOP: a.4.5.11 c.37.1.20

Probab=96.50  E-value=0.0024  Score=64.02  Aligned_cols=149  Identities=4%  Similarity=-0.144  Sum_probs=78.6

Q ss_pred             eeeeeeeccCccchhHHHHHHHhhhccccccceEEEEeee--ccHHHHHHHHhhhhcccccccccccccccccccccccc
Q 011431          228 RSYRCWLLCPLFSELRVLTNDVHQLMDNYENSDVTLAKFE--GEVKKLDQRLLRFLESVDKHVASYDRYGSASFEQPRPQ  305 (486)
Q Consensus       228 ~vi~I~GmGgGvGKTTLa~~vy~~~~~~F~~~~~~~v~~~--~~l~~lqk~ll~~L~~~d~~~~~~~~~g~~s~l~~~L~  305 (486)
                      +.+.|+|.. |.|||||++.+.+........ .+..+...  .....+...++..+.......+ .........+...+.
T Consensus        45 ~~~li~G~~-G~GKTtl~~~l~~~~~~~~~~-~~~~i~~~~~~~~~~~~~~l~~~l~~~~~~~~-~~~~~~~~~l~~~l~  121 (389)
T 1fnn_A           45 PRATLLGRP-GTGKTVTLRKLWELYKDKTTA-RFVYINGFIYRNFTAIIGEIARSLNIPFPRRG-LSRDEFLALLVEHLR  121 (389)
T ss_dssp             CEEEEECCT-TSSHHHHHHHHHHHHTTSCCC-EEEEEETTTCCSHHHHHHHHHHHTTCCCCSSC-CCHHHHHHHHHHHHH
T ss_pred             CeEEEECCC-CCCHHHHHHHHHHHHhhhcCe-eEEEEeCccCCCHHHHHHHHHHHhCccCCCCC-CCHHHHHHHHHHHHh
Confidence            478899999 999999999998876443211 12222211  2233344555554432100000 000001112222222


Q ss_pred             c-CcceeeceecccC--HHHHHHHhcCCCC-CC---CCCEEEeeCCccccccccc-----cCCCceEecCCCCCchhhhh
Q 011431          306 T-TSAAHPYVEDVID--DAYMEDITDDSSP-SL---NLSRINSTSRFEQLWPETI-----SATDTCTEDVTVDNSPSLNL  373 (486)
Q Consensus       306 ~-tKr~LlVLDDVw~--~~~~~~l~~~~~~-~~---~GSrIIiTTR~~~V~~~~~-----~~~~~~y~v~~L~~~es~~L  373 (486)
                      . .+..+|++|+++.  ......+...... ..   .+..||+||++.++.....     ......+++++|+.++..++
T Consensus       122 ~~~~~~vlilDE~~~l~~~~~~~L~~~~~~~~~~~~~~~~iI~~~~~~~~~~~l~~~~~~r~~~~~i~~~pl~~~~~~~~  201 (389)
T 1fnn_A          122 ERDLYMFLVLDDAFNLAPDILSTFIRLGQEADKLGAFRIALVIVGHNDAVLNNLDPSTRGIMGKYVIRFSPYTKDQIFDI  201 (389)
T ss_dssp             HTTCCEEEEEETGGGSCHHHHHHHHHHTTCHHHHSSCCEEEEEEESSTHHHHTSCHHHHHHHTTCEEECCCCBHHHHHHH
T ss_pred             hcCCeEEEEEECccccchHHHHHHHHHHHhCCCCCcCCEEEEEEECCchHHHHhCHHhhhcCCCceEEeCCCCHHHHHHH
Confidence            1 1468999999875  3444444421111 11   3667888887764321100     00123689999999999999


Q ss_pred             hcccCC
Q 011431          374 SSCNSS  379 (486)
Q Consensus       374 F~~~a~  379 (486)
                      +...+.
T Consensus       202 l~~~~~  207 (389)
T 1fnn_A          202 LLDRAK  207 (389)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            877643

>1jww_A Potential copper-transporting ATPase; beta-alpha-beta-BETA-alpha-beta, hydrolase; NMR {Bacillus subtilis} SCOP: d.58.17.1 PDB: 2voy_A 1kqk_A

Probab=96.42  E-value=0.0068  Score=45.62  Aligned_cols=63  Identities=16%  Similarity=0.238  Sum_probs=51.9

Q ss_pred             eeeeecc-ccccchhhHHHHHHHhhcCCCeeEEEeecCCCeEEEEee--ccCHHHHHHHhhccc-ceeE
Q 011431          384 EAIFKLE-IHHDNLEAWRAAFSIVSEFIGITKISFDFKVKKMTVVGD--NFDVLSAGTKLNGLC-RTEL  448 (486)
Q Consensus       384 ~~v~kv~-~~~~~~~~~~~a~k~~~~~~Gv~~v~~d~~~~~~~V~G~--~~d~~~~~~~l~k~~-~~~~  448 (486)
                      +..+++. |+|..|.  ..+.+.+.+.+||.++.++...++++|..+  .+++..+...+.+.| .+.+
T Consensus         4 ~~~~~v~gm~C~~C~--~~i~~~l~~~~gv~~~~v~~~~~~~~v~~~~~~~~~~~i~~~i~~~G~~~~~   70 (80)
T 1jww_A            4 KAEFDIEGMTCAACA--NRIEKRLNKIEGVANAPVNFALETVTVEYNPKEASVSDLKEAVDKLGYKLKL   70 (80)
T ss_dssp             EEEEEEESCCCHHHH--HHHHHHHHTSTTEEECCCCSSSSEEEEEECTTTCCHHHHHHHHHHHTSEEEE
T ss_pred             EEEEEECCccCHHHH--HHHHHHHhcCCCeEEEEEEecCCEEEEEECCCCCCHHHHHHHHHHcCCeEEe
Confidence            4456665 9999999  999999999999999999999999999754  267788888888877 4444

>2ew9_A Copper-transporting ATPase 2; copper trafficking, ferrodoxin-like fold, structural genomics, structural proteomics in europe, spine, hydrolase; NMR {Homo sapiens}

Probab=96.09  E-value=0.0083  Score=51.27  Aligned_cols=60  Identities=13%  Similarity=0.004  Sum_probs=52.0

Q ss_pred             eeeeec-cccccchhhHHHHHHHhhcCCCeeEEEeecCCCeEEEEeec--cCHHHHHHHhhcccc
Q 011431          384 EAIFKL-EIHHDNLEAWRAAFSIVSEFIGITKISFDFKVKKMTVVGDN--FDVLSAGTKLNGLCR  445 (486)
Q Consensus       384 ~~v~kv-~~~~~~~~~~~~a~k~~~~~~Gv~~v~~d~~~~~~~V~G~~--~d~~~~~~~l~k~~~  445 (486)
                      .+.+++ .|+|..|.  ..+.+.+.+++||.++.++...++++|..+.  +++..+.+.+.+.|+
T Consensus        81 ~~~~~v~gm~C~~C~--~~ie~~l~~~~gv~~~~v~~~~~~~~v~~~~~~~~~~~i~~~i~~~Gy  143 (149)
T 2ew9_A           81 NIELTITGMTCASCV--HNIESKLTRTNGITYASVALATSKALVKFDPEIIGPRDIIKIIEEIGF  143 (149)
T ss_dssp             EEEEEEESCCSHHHH--HHHHHHHHHSSSCCEEEEETTTTEEEEECCTTTSCHHHHHHHHHHHTC
T ss_pred             eeEEEEEeccCHHHH--HHHHHHHhcCCCeEEEEEEcCCCEEEEEECCCCCCHHHHHHHHHhCCC
Confidence            455666 59999999  9999999999999999999999999998762  678889998988773

>2rop_A Copper-transporting ATPase 2; wilson protein, mobility, protein-protein interaction, alternative splicing, ATP-binding, copper transport cytoplasm; NMR {Homo sapiens}

Probab=95.97  E-value=0.019  Score=52.20  Aligned_cols=66  Identities=12%  Similarity=0.199  Sum_probs=55.7

Q ss_pred             eeeeeecc-ccccchhhHHHHHHHhhcCCCeeEEEeecCCCeEEEEee--ccCHHHHHHHhhccc-ceeEEe
Q 011431          383 KEAIFKLE-IHHDNLEAWRAAFSIVSEFIGITKISFDFKVKKMTVVGD--NFDVLSAGTKLNGLC-RTELVS  450 (486)
Q Consensus       383 ~~~v~kv~-~~~~~~~~~~~a~k~~~~~~Gv~~v~~d~~~~~~~V~G~--~~d~~~~~~~l~k~~-~~~~~~  450 (486)
                      +++.++|. |+|..|.  ..+.+.+.+++||.++.++...++++|..+  .+++..+...+++.| .+.++.
T Consensus       122 ~~~~l~v~Gm~C~~C~--~~ie~~l~~~~GV~~~~v~~~~~~~~v~~~~~~~~~~~i~~~i~~~Gy~~~~~~  191 (202)
T 2rop_A          122 STTLIAIAGMTCASCV--HSIEGMISQLEGVQQISVSLAEGTATVLYNPAVISPEELRAAIEDMGFEASVVS  191 (202)
T ss_dssp             EEEEEEESCCCSTHHH--HHHHHHGGGSSSEEEEEEETTTTEEEEEECTTTCCHHHHHHHHHHHTSCEEEC-
T ss_pred             eEEEEEECCccCHHHH--HHHHHHHHcCCCeEEEEEEccCCEEEEEECCCCCCHHHHHHHHHHcCCceEEcC
Confidence            45677785 9999999  999999999999999999999999999864  268888999999888 565544

>3hyn_A Putative signal transduction protein; DUF1863 family protein, nucleotide-binding protein, structur genomics; HET: MSE; 1.20A {Eubacterium rectale atcc 33656}

Probab=95.94  E-value=0.021  Score=50.70  Aligned_cols=107  Identities=22%  Similarity=0.219  Sum_probs=72.9

Q ss_pred             eecCceEEec--------------ccCccCcChHHHHHHHHhcCCCeEEEeC-CcC-------C-CCCchHHHHHHHhhc
Q 011431           19 RYKHDVFVTF--------------SGEDIRENFGSYLFAALFRESVKTFRDE-QIR-------R-GDEIMPALLQAIEES   75 (486)
Q Consensus        19 ~y~~dVFis~--------------~~~D~~~~f~~~L~~~L~~~gi~~~~d~-~~~-------~-g~~i~~~i~~~I~~s   75 (486)
                      .|++-+|++|              ..+|.  .+...|..--.+..+..|.|- ++.       . -..|.+.|.+.|..|
T Consensus         3 ayrn~~YvaF~~~~~~~~~~~~~~a~~Di--~yy~lL~aWk~n~n~F~F~D~Hd~~y~vrDsS~~e~tIKrrLReRI~~S   80 (189)
T 3hyn_A            3 SYQNANYSAFYVSEPFSESNLGANSTHDF--VYYNMLRMWKGEDNSFPFNDAHDKTYNVRDGSDWEKTLKPRLHTRLDNS   80 (189)
T ss_dssp             -CCCEEEEECCCCSSCCTTSTTGGGSTTH--HHHHHHHHHHHHCTTSSCCBTTTTCCCTTSCCCTTTTHHHHHHHHHHTE
T ss_pred             ccccCcEEEEeccCcccccccCCCccchH--HHHHHHHHHHcCCCceeecchhhccccccccccHHHHHHHHHHHHHHhc
Confidence            3566788999              34453  345555555555566667775 442       2 345888999999999


Q ss_pred             cceEEEeecccccChhhHHHHHHHHHHhcCCCEEEEEEeeec-CCccccccCchH
Q 011431           76 KISLVIFSKRFAFSRWCLEELVKIIECNKLYQTVIPVFYKVL-PSDVRNQLGSFG  129 (486)
Q Consensus        76 ~~~ivv~S~~y~~S~wcl~El~~i~~~~~~~~~v~Pify~v~-~s~vr~q~g~f~  129 (486)
                      +..|+++|++...|.|-..|+..++.  +.+..||-|+-+-+ .+++..-.|.|.
T Consensus        81 k~vIllIs~~T~~s~~v~wEIe~Ai~--~~~~PII~Vy~~~~~~~~i~~~~g~~~  133 (189)
T 3hyn_A           81 KNIILFLSSITANSRALREEMNYGIG--TKGLPVIVIYPDYDKKSDIVDSNGNFK  133 (189)
T ss_dssp             EEEEEECCTTCCCCHHHHHHHHHHTT--TTCCCEEEEETTCCSGGGTBCTTSCBC
T ss_pred             CcEEEEEecCccccchhHHHHHHHHH--hcCCcEEEEECCccccchhhhccccch
Confidence            99999999999999999999887772  35667777765422 334554445543

>2ew9_A Copper-transporting ATPase 2; copper trafficking, ferrodoxin-like fold, structural genomics, structural proteomics in europe, spine, hydrolase; NMR {Homo sapiens}

Probab=95.14  E-value=0.042  Score=46.70  Aligned_cols=65  Identities=8%  Similarity=0.077  Sum_probs=54.1

Q ss_pred             ceeeeeec-cccccchhhHHHHHHHhhcCCCeeEEEeecCCCeEEEEee--ccCHHHHHHHhhccc-ceeE
Q 011431          382 FKEAIFKL-EIHHDNLEAWRAAFSIVSEFIGITKISFDFKVKKMTVVGD--NFDVLSAGTKLNGLC-RTEL  448 (486)
Q Consensus       382 ~~~~v~kv-~~~~~~~~~~~~a~k~~~~~~Gv~~v~~d~~~~~~~V~G~--~~d~~~~~~~l~k~~-~~~~  448 (486)
                      ++++.+.+ .|+|.+|.  ..+.+.+..++||.++.++...++++|..+  ..++..+...+.+.| .+.+
T Consensus         3 ~~~~~~~v~gm~C~~C~--~~ie~~l~~~~gv~~~~v~~~~~~~~v~~~~~~~~~~~i~~~i~~~G~~~~~   71 (149)
T 2ew9_A            3 PQKCFLQIKGMTCASCV--SNIERNLQKEAGVLSVLVALMAGKAEIKYDPEVIQPLEIAQFIQDLGFEAAV   71 (149)
T ss_dssp             CEEEEEEEECCCSSSHH--HHHHHHHHTTSSCCCEEEETTTTEEEEEECTTTCCHHHHHHHHHHHTCEEEE
T ss_pred             cEEEEEEECCeecHHHH--HHHHHHHhcCCCcEEEEEEecCCEEEEEEcCCCCCHHHHHHHHhcCCCceEe
Confidence            45667777 59999999  999999999999999999999999999764  267778888888877 4444

>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding, nucleotide-binding, HY; HET: ADP; 3.11A {Methanocaldococcus jannaschii}

Probab=95.07  E-value=0.024  Score=54.22  Aligned_cols=47  Identities=13%  Similarity=0.068  Sum_probs=31.8

Q ss_pred             CCCCEEEeeCCcccccccccc---CCCceEecCCCCCchhhhhhcccCCC
Q 011431          334 LNLSRINSTSRFEQLWPETIS---ATDTCTEDVTVDNSPSLNLSSCNSSS  380 (486)
Q Consensus       334 ~~GSrIIiTTR~~~V~~~~~~---~~~~~y~v~~L~~~es~~LF~~~a~~  380 (486)
                      ..+..||.||...+.+.....   .-+..++++.++.++-.++|..++..
T Consensus       154 ~~~~~vI~ttn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~il~~~~~~  203 (285)
T 3h4m_A          154 RGDVKIIGATNRPDILDPAILRPGRFDRIIEVPAPDEKGRLEILKIHTRK  203 (285)
T ss_dssp             SSSEEEEEECSCGGGBCHHHHSTTSEEEEEECCCCCHHHHHHHHHHHHTT
T ss_pred             CCCEEEEEeCCCchhcCHHHcCCCcCCeEEEECCCCHHHHHHHHHHHHhc
Confidence            346788888876655421111   12347899999999999999877653

>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=94.72  E-value=0.042  Score=54.53  Aligned_cols=71  Identities=8%  Similarity=-0.100  Sum_probs=40.9

Q ss_pred             cceeeceecccC--HHHHHHHhcCCCCCCCCCEEEeeCCccccccccccCCCceEecCCCCCchhhhhhcccC
Q 011431          308 SAAHPYVEDVID--DAYMEDITDDSSPSLNLSRINSTSRFEQLWPETISATDTCTEDVTVDNSPSLNLSSCNS  378 (486)
Q Consensus       308 Kr~LlVLDDVw~--~~~~~~l~~~~~~~~~GSrIIiTTR~~~V~~~~~~~~~~~y~v~~L~~~es~~LF~~~a  378 (486)
                      ++.+|++||+..  ......++...-+......+|+||.+..-+..........+++.+++.++...++...+
T Consensus       119 ~~~vliiDe~~~l~~~~~~~Ll~~le~~~~~~~~Il~~~~~~~l~~~l~sr~~~i~~~~l~~~~~~~~l~~~~  191 (373)
T 1jr3_A          119 RFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKLPVTILSRCLQFHLKALDVEQIRHQLEHIL  191 (373)
T ss_dssp             SSEEEEEECGGGSCHHHHHHHHHHHHSCCSSEEEEEEESCGGGSCHHHHTTSEEEECCCCCHHHHHHHHHHHH
T ss_pred             CeEEEEEECcchhcHHHHHHHHHHHhcCCCceEEEEEeCChHhCcHHHHhheeEeeCCCCCHHHHHHHHHHHH
Confidence            567899999864  33444443211012235677777654432111111122578999999999988887554

>2rop_A Copper-transporting ATPase 2; wilson protein, mobility, protein-protein interaction, alternative splicing, ATP-binding, copper transport cytoplasm; NMR {Homo sapiens}

Probab=94.53  E-value=0.074  Score=48.23  Aligned_cols=60  Identities=12%  Similarity=0.193  Sum_probs=51.2

Q ss_pred             ceeeeeecc-ccccchhhHHHHHHHhhcCCCeeEEEeecCCCeEEEEee--ccCHHHHHHHhhcc
Q 011431          382 FKEAIFKLE-IHHDNLEAWRAAFSIVSEFIGITKISFDFKVKKMTVVGD--NFDVLSAGTKLNGL  443 (486)
Q Consensus       382 ~~~~v~kv~-~~~~~~~~~~~a~k~~~~~~Gv~~v~~d~~~~~~~V~G~--~~d~~~~~~~l~k~  443 (486)
                      ++++.++|. |+|..|.  .++.+.+.+++||.++.++...++++|..+  .+++..+...+++.
T Consensus        19 ~~~~~l~v~Gm~C~~C~--~~ie~~l~~~~GV~~~~v~~~~~~~~v~~~~~~~~~~~i~~~i~~~   81 (202)
T 2rop_A           19 VVTLQLRIDGMHCKSCV--LNIEENIGQLLGVQSIQVSLENKTAQVKYDPSCTSPVALQRAIEAL   81 (202)
T ss_dssp             -CEEEEEEESGGGSTHH--HHHHHHTTSBTTEEEEEEETTTTEEEEEECTTTCCHHHHHHHHTTS
T ss_pred             cEEEEEEECCeEcHHHH--HHHHHHHhcCCCeEEEEEEecCCEEEEEECCCCCCHHHHHHHHHHh
Confidence            345667775 9999999  999999999999999999999999999865  26778888888876

>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=94.49  E-value=0.019  Score=56.28  Aligned_cols=132  Identities=11%  Similarity=-0.042  Sum_probs=66.8

Q ss_pred             ceeeeeeeccCccchhHHHHHHHhhhccccccceEEEEeeeccHHHHHHHHhhhhccccccccccccccccccccccccc
Q 011431          227 YRSYRCWLLCPLFSELRVLTNDVHQLMDNYENSDVTLAKFEGEVKKLDQRLLRFLESVDKHVASYDRYGSASFEQPRPQT  306 (486)
Q Consensus       227 ~~vi~I~GmGgGvGKTTLa~~vy~~~~~~F~~~~~~~v~~~~~l~~lqk~ll~~L~~~d~~~~~~~~~g~~s~l~~~L~~  306 (486)
                      ...+-|+|.. |.||||||+.+.+.....  ...+..+...    .+...+...+...          .. ..+...+. 
T Consensus        37 ~~~lll~G~~-GtGKT~la~~i~~~~~~~--~~~~~~i~~~----~~~~~~~~~~~~~----------~~-~~~~~~~~-   97 (324)
T 1l8q_A           37 YNPIFIYGSV-GTGKTHLLQAAGNEAKKR--GYRVIYSSAD----DFAQAMVEHLKKG----------TI-NEFRNMYK-   97 (324)
T ss_dssp             CSSEEEECSS-SSSHHHHHHHHHHHHHHT--TCCEEEEEHH----HHHHHHHHHHHHT----------CH-HHHHHHHH-
T ss_pred             CCeEEEECCC-CCcHHHHHHHHHHHHHHC--CCEEEEEEHH----HHHHHHHHHHHcC----------cH-HHHHHHhc-
Confidence            3456689999 999999999999876432  1112222211    1222222222110          00 01111111 


Q ss_pred             CcceeeceecccCHH----HHHHHhcCC-CCCCCCCEEEeeCCccc-----cccc--cccCCCceEecCCCCCchhhhhh
Q 011431          307 TSAAHPYVEDVIDDA----YMEDITDDS-SPSLNLSRINSTSRFEQ-----LWPE--TISATDTCTEDVTVDNSPSLNLS  374 (486)
Q Consensus       307 tKr~LlVLDDVw~~~----~~~~l~~~~-~~~~~GSrIIiTTR~~~-----V~~~--~~~~~~~~y~v~~L~~~es~~LF  374 (486)
                       +..+|++||+....    ....+.... .....|.+||+||.+.-     +...  .......++++++ +.++-..++
T Consensus        98 -~~~vL~iDEi~~l~~~~~~~~~l~~~l~~~~~~~~~iii~~~~~~~~l~~l~~~L~sR~~~~~~i~l~~-~~~e~~~il  175 (324)
T 1l8q_A           98 -SVDLLLLDDVQFLSGKERTQIEFFHIFNTLYLLEKQIILASDRHPQKLDGVSDRLVSRFEGGILVEIEL-DNKTRFKII  175 (324)
T ss_dssp             -TCSEEEEECGGGGTTCHHHHHHHHHHHHHHHHTTCEEEEEESSCGGGCTTSCHHHHHHHHTSEEEECCC-CHHHHHHHH
T ss_pred             -CCCEEEEcCcccccCChHHHHHHHHHHHHHHHCCCeEEEEecCChHHHHHhhhHhhhcccCceEEEeCC-CHHHHHHHH
Confidence             34688999986422    112222100 00124678888875331     1100  0011225689999 999999888


Q ss_pred             cccCC
Q 011431          375 SCNSS  379 (486)
Q Consensus       375 ~~~a~  379 (486)
                      ..++.
T Consensus       176 ~~~~~  180 (324)
T 1l8q_A          176 KEKLK  180 (324)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            87654

>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=94.27  E-value=0.053  Score=52.38  Aligned_cols=72  Identities=6%  Similarity=-0.100  Sum_probs=42.9

Q ss_pred             cceeeceecccC--HHHHHHHhcCCCCCCCCCEEEeeCCccccccccccCCCceEecCCCCCchhhhhhcccCC
Q 011431          308 SAAHPYVEDVID--DAYMEDITDDSSPSLNLSRINSTSRFEQLWPETISATDTCTEDVTVDNSPSLNLSSCNSS  379 (486)
Q Consensus       308 Kr~LlVLDDVw~--~~~~~~l~~~~~~~~~GSrIIiTTR~~~V~~~~~~~~~~~y~v~~L~~~es~~LF~~~a~  379 (486)
                      ++.+|++|++..  ......+....-+.....++|+||....-+..........+++.+++.++...++...+.
T Consensus       102 ~~~vliiDe~~~l~~~~~~~L~~~le~~~~~~~~i~~~~~~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~  175 (319)
T 2chq_A          102 PFKIIFLDEADALTADAQAALRRTMEMYSKSCRFILSCNYVSRIIEPIQSRCAVFRFKPVPKEAMKKRLLEICE  175 (319)
T ss_dssp             CCEEEEEETGGGSCHHHHHTTGGGTSSSSSSEEEEEEESCGGGSCHHHHTTCEEEECCCCCHHHHHHHHHHHHH
T ss_pred             CceEEEEeCCCcCCHHHHHHHHHHHHhcCCCCeEEEEeCChhhcchHHHhhCeEEEecCCCHHHHHHHHHHHHH
Confidence            578899999874  333444443221223467888877655422111111224789999999998888876543

>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=94.01  E-value=0.031  Score=53.27  Aligned_cols=26  Identities=4%  Similarity=-0.350  Sum_probs=21.3

Q ss_pred             ceeeeeeeccCccchhHHHHHHHhhhc
Q 011431          227 YRSYRCWLLCPLFSELRVLTNDVHQLM  253 (486)
Q Consensus       227 ~~vi~I~GmGgGvGKTTLa~~vy~~~~  253 (486)
                      ..-+-++|.. |.|||+||+++.+...
T Consensus        64 ~~~vLl~G~~-GtGKT~la~~ia~~~~   89 (272)
T 1d2n_A           64 LVSVLLEGPP-HSGKTALAAKIAEESN   89 (272)
T ss_dssp             EEEEEEECST-TSSHHHHHHHHHHHHT
T ss_pred             CeEEEEECCC-CCcHHHHHHHHHHHhC
Confidence            3455689999 9999999999988753

>1p6t_A Potential copper-transporting ATPase; COPA, P-type ATPase, water-soluble region, beta-alpha-beta- beta-alpha-beta fold; NMR {Bacillus subtilis} SCOP: d.58.17.1 d.58.17.1 PDB: 2rml_A

Probab=93.87  E-value=0.11  Score=44.15  Aligned_cols=62  Identities=13%  Similarity=0.160  Sum_probs=49.8

Q ss_pred             cceeeeeecc-ccccchhhHHHHHHHhhcCCCeeEEEeecCCCeEEEEee--ccCHHHHHHHhhccc
Q 011431          381 TFKEAIFKLE-IHHDNLEAWRAAFSIVSEFIGITKISFDFKVKKMTVVGD--NFDVLSAGTKLNGLC  444 (486)
Q Consensus       381 k~~~~v~kv~-~~~~~~~~~~~a~k~~~~~~Gv~~v~~d~~~~~~~V~G~--~~d~~~~~~~l~k~~  444 (486)
                      ..++..+.+. |+|..|.  ..+.+.+.+++||.++.++...++++|..+  .+++..+...+++.|
T Consensus         4 ~~~~~~~~v~gm~C~~C~--~~ie~~l~~~~gv~~~~v~~~~~~~~v~~~~~~~~~~~i~~~i~~~G   68 (151)
T 1p6t_A            4 EQKEIAMQVSGMTCAACA--ARIEKGLKRMPGVTDANVNLATETVNVIYDPAETGTAAIQEKIEKLG   68 (151)
T ss_dssp             CCEEEEEEEESCCSSHHH--HHHHHHHTTSSSEEEEEEEGGGTEEEEEECTTTSCHHHHHHHHHHHT
T ss_pred             cceEEEEEECCCcCHHHH--HHHHHHHhcCCCeeEEEEEccCCEEEEEEcCCcCCHHHHHHHHHHcC
Confidence            3445556664 9999999  999999999999999999999999998754  257777777777655

>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein, calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides} PDB: 3syk_A 3zuh_A*

Probab=93.73  E-value=0.023  Score=55.01  Aligned_cols=130  Identities=5%  Similarity=-0.102  Sum_probs=67.2

Q ss_pred             CceeeeeeeccCccchhHHHHHHHhhhccccc--cceEEEEeeeccHHHHHHHHhhhhcccccccccccccccccccccc
Q 011431          226 GYRSYRCWLLCPLFSELRVLTNDVHQLMDNYE--NSDVTLAKFEGEVKKLDQRLLRFLESVDKHVASYDRYGSASFEQPR  303 (486)
Q Consensus       226 ~~~vi~I~GmGgGvGKTTLa~~vy~~~~~~F~--~~~~~~v~~~~~l~~lqk~ll~~L~~~d~~~~~~~~~g~~s~l~~~  303 (486)
                      ...-+-++|-. |.|||+||+.+.+.+.....  ...+..+... .           +..  ...+..     ...+...
T Consensus        66 ~~~~vll~G~~-GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~-~-----------l~~--~~~g~~-----~~~~~~~  125 (309)
T 3syl_A           66 PTLHMSFTGNP-GTGKTTVALKMAGLLHRLGYVRKGHLVSVTRD-D-----------LVG--QYIGHT-----APKTKEV  125 (309)
T ss_dssp             CCCEEEEEECT-TSSHHHHHHHHHHHHHHTTSSSSCCEEEECGG-G-----------TCC--SSTTCH-----HHHHHHH
T ss_pred             CCceEEEECCC-CCCHHHHHHHHHHHHHhcCCcCCCcEEEEcHH-H-----------hhh--hccccc-----HHHHHHH
Confidence            33446689999 99999999988776533211  1112222110 0           100  000000     0111112


Q ss_pred             cccCcceeeceeccc-----------CHHHHHHHhcCCCCCCCCCEEEeeCCcc----------ccccccccCCCceEec
Q 011431          304 PQTTSAAHPYVEDVI-----------DDAYMEDITDDSSPSLNLSRINSTSRFE----------QLWPETISATDTCTED  362 (486)
Q Consensus       304 L~~tKr~LlVLDDVw-----------~~~~~~~l~~~~~~~~~GSrIIiTTR~~----------~V~~~~~~~~~~~y~v  362 (486)
                      +...+..+|++|++.           +......++...-......+||.||...          .+..+    .+..+++
T Consensus       126 ~~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~Ll~~l~~~~~~~~~i~~~~~~~~~~~~~~~~~l~~R----~~~~i~~  201 (309)
T 3syl_A          126 LKRAMGGVLFIDEAYYLYRPDNERDYGQEAIEILLQVMENNRDDLVVILAGYADRMENFFQSNPGFRSR----IAHHIEF  201 (309)
T ss_dssp             HHHHTTSEEEEETGGGSCCCC---CCTHHHHHHHHHHHHHCTTTCEEEEEECHHHHHHHHHHSTTHHHH----EEEEEEE
T ss_pred             HHhcCCCEEEEEChhhhccCCCcccccHHHHHHHHHHHhcCCCCEEEEEeCChHHHHHHHhhCHHHHHh----CCeEEEc
Confidence            211134588899987           3333333332110123456888887542          22211    1357899


Q ss_pred             CCCCCchhhhhhcccCC
Q 011431          363 VTVDNSPSLNLSSCNSS  379 (486)
Q Consensus       363 ~~L~~~es~~LF~~~a~  379 (486)
                      ++++.++-..++..++.
T Consensus       202 ~~~~~~~~~~il~~~l~  218 (309)
T 3syl_A          202 PDYSDEELFEIAGHMLD  218 (309)
T ss_dssp             CCCCHHHHHHHHHHHHH
T ss_pred             CCcCHHHHHHHHHHHHH
Confidence            99999999999877654

>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=93.33  E-value=0.11  Score=48.62  Aligned_cols=45  Identities=2%  Similarity=-0.134  Sum_probs=28.6

Q ss_pred             CCCEEEeeCCcccccccccc---CCCceEecCCCCCchhhhhhcccCC
Q 011431          335 NLSRINSTSRFEQLWPETIS---ATDTCTEDVTVDNSPSLNLSSCNSS  379 (486)
Q Consensus       335 ~GSrIIiTTR~~~V~~~~~~---~~~~~y~v~~L~~~es~~LF~~~a~  379 (486)
                      .+..||.||...+.+.....   .-+..++++.++.++-.++|..++.
T Consensus       144 ~~~~vi~~tn~~~~ld~~l~~~~R~~~~i~i~~p~~~~r~~il~~~~~  191 (262)
T 2qz4_A          144 DHVIVLASTNRADILDGALMRPGRLDRHVFIDLPTLQERREIFEQHLK  191 (262)
T ss_dssp             CCEEEEEEESCGGGGGSGGGSTTSCCEEEECCSCCHHHHHHHHHHHHH
T ss_pred             CCEEEEecCCChhhcCHHHhcCCcCCeEEEeCCcCHHHHHHHHHHHHH
Confidence            35577777765443221111   1345788999999999999877654

>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=92.27  E-value=0.3  Score=47.16  Aligned_cols=25  Identities=0%  Similarity=-0.219  Sum_probs=21.3

Q ss_pred             eeeeeeeccCccchhHHHHHHHhhhc
Q 011431          228 RSYRCWLLCPLFSELRVLTNDVHQLM  253 (486)
Q Consensus       228 ~vi~I~GmGgGvGKTTLa~~vy~~~~  253 (486)
                      +.+-++|.. |.||||||+++.+...
T Consensus        50 ~~vLL~Gp~-GtGKT~la~ala~~~~   74 (301)
T 3cf0_A           50 KGVLFYGPP-GCGKTLLAKAIANECQ   74 (301)
T ss_dssp             SEEEEECSS-SSSHHHHHHHHHHHTT
T ss_pred             ceEEEECCC-CcCHHHHHHHHHHHhC
Confidence            456789999 9999999999988764

>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=91.66  E-value=0.23  Score=48.32  Aligned_cols=118  Identities=5%  Similarity=-0.115  Sum_probs=57.7

Q ss_pred             eeeeeeeccCccchhHHHHHHHhhhccccccceEEEEeee-ccHHHHHHHHhhhhccccccccccccccccccccccccc
Q 011431          228 RSYRCWLLCPLFSELRVLTNDVHQLMDNYENSDVTLAKFE-GEVKKLDQRLLRFLESVDKHVASYDRYGSASFEQPRPQT  306 (486)
Q Consensus       228 ~vi~I~GmGgGvGKTTLa~~vy~~~~~~F~~~~~~~v~~~-~~l~~lqk~ll~~L~~~d~~~~~~~~~g~~s~l~~~L~~  306 (486)
                      ..+=+.|.. |.||||+|+.+.+.+...|     ..+..+ .....++..+......            .      ....
T Consensus        49 ~~~L~~G~~-G~GKT~la~~la~~l~~~~-----~~i~~~~~~~~~i~~~~~~~~~~------------~------~~~~  104 (324)
T 3u61_B           49 HIILHSPSP-GTGKTTVAKALCHDVNADM-----MFVNGSDCKIDFVRGPLTNFASA------------A------SFDG  104 (324)
T ss_dssp             SEEEECSST-TSSHHHHHHHHHHHTTEEE-----EEEETTTCCHHHHHTHHHHHHHB------------C------CCSS
T ss_pred             eEEEeeCcC-CCCHHHHHHHHHHHhCCCE-----EEEcccccCHHHHHHHHHHHHhh------------c------ccCC
Confidence            344455656 9999999999988763222     111111 1122121111100000            0      1112


Q ss_pred             CcceeeceecccCHH---HHHHHhcCCCCCCCCCEEEeeCCccccccccccCCCceEecCCCCCchh
Q 011431          307 TSAAHPYVEDVIDDA---YMEDITDDSSPSLNLSRINSTSRFEQLWPETISATDTCTEDVTVDNSPS  370 (486)
Q Consensus       307 tKr~LlVLDDVw~~~---~~~~l~~~~~~~~~GSrIIiTTR~~~V~~~~~~~~~~~y~v~~L~~~es  370 (486)
                       +..+|++|++..-.   ....+....-......++|+||....-+.........++++++++.++-
T Consensus       105 -~~~vliiDEi~~l~~~~~~~~L~~~le~~~~~~~iI~~~n~~~~l~~~l~sR~~~i~~~~~~~~e~  170 (324)
T 3u61_B          105 -RQKVIVIDEFDRSGLAESQRHLRSFMEAYSSNCSIIITANNIDGIIKPLQSRCRVITFGQPTDEDK  170 (324)
T ss_dssp             -CEEEEEEESCCCGGGHHHHHHHHHHHHHHGGGCEEEEEESSGGGSCTTHHHHSEEEECCCCCHHHH
T ss_pred             -CCeEEEEECCcccCcHHHHHHHHHHHHhCCCCcEEEEEeCCccccCHHHHhhCcEEEeCCCCHHHH
Confidence             56789999998532   3333332110112356788877654422111000123688999987774

>3pvs_A Replication-associated recombination protein A; maintenance of genome stability Pro recombination; 2.50A {Escherichia coli}

Probab=91.40  E-value=0.14  Score=52.85  Aligned_cols=126  Identities=9%  Similarity=0.005  Sum_probs=64.4

Q ss_pred             ceeeeeeeccCccchhHHHHHHHhhhccccccceEEEEeeeccHHHHHHHHhhhhccccccccccccccccccccccccc
Q 011431          227 YRSYRCWLLCPLFSELRVLTNDVHQLMDNYENSDVTLAKFEGEVKKLDQRLLRFLESVDKHVASYDRYGSASFEQPRPQT  306 (486)
Q Consensus       227 ~~vi~I~GmGgGvGKTTLa~~vy~~~~~~F~~~~~~~v~~~~~l~~lqk~ll~~L~~~d~~~~~~~~~g~~s~l~~~L~~  306 (486)
                      ...+-+||-. |.||||||+.+.+.....|..    ..........+.. ++.....               .   ....
T Consensus        50 ~~~vLL~Gpp-GtGKTtlAr~ia~~~~~~f~~----l~a~~~~~~~ir~-~~~~a~~---------------~---~~~~  105 (447)
T 3pvs_A           50 LHSMILWGPP-GTGKTTLAEVIARYANADVER----ISAVTSGVKEIRE-AIERARQ---------------N---RNAG  105 (447)
T ss_dssp             CCEEEEECST-TSSHHHHHHHHHHHTTCEEEE----EETTTCCHHHHHH-HHHHHHH---------------H---HHTT
T ss_pred             CcEEEEECCC-CCcHHHHHHHHHHHhCCCeEE----EEeccCCHHHHHH-HHHHHHH---------------h---hhcC
Confidence            3556699999 999999999998876444321    1111122222211 1111100               0   0012


Q ss_pred             CcceeeceecccCH--HHHHHHhcCCCCCCCCCEEEeeCCccc--cccccccCCCceEecCCCCCchhhhhhcccCC
Q 011431          307 TSAAHPYVEDVIDD--AYMEDITDDSSPSLNLSRINSTSRFEQ--LWPETISATDTCTEDVTVDNSPSLNLSSCNSS  379 (486)
Q Consensus       307 tKr~LlVLDDVw~~--~~~~~l~~~~~~~~~GSrIIiTTR~~~--V~~~~~~~~~~~y~v~~L~~~es~~LF~~~a~  379 (486)
                       +..+|++|++...  .....++... +.+.-.-|..||.+..  +.. .......++.+++|+.++-..++.+.+.
T Consensus       106 -~~~iLfIDEI~~l~~~~q~~LL~~l-e~~~v~lI~att~n~~~~l~~-aL~sR~~v~~l~~l~~edi~~il~~~l~  179 (447)
T 3pvs_A          106 -RRTILFVDEVHRFNKSQQDAFLPHI-EDGTITFIGATTENPSFELNS-ALLSRARVYLLKSLSTEDIEQVLTQAME  179 (447)
T ss_dssp             -CCEEEEEETTTCC------CCHHHH-HTTSCEEEEEESSCGGGSSCH-HHHTTEEEEECCCCCHHHHHHHHHHHHH
T ss_pred             -CCcEEEEeChhhhCHHHHHHHHHHH-hcCceEEEecCCCCcccccCH-HHhCceeEEeeCCcCHHHHHHHHHHHHH
Confidence             5678899998742  2333333211 1222223334665543  211 1111224788999999998888876543

>3j09_A COPA, copper-exporting P-type ATPase A; copper transporter, adenosine triphosph archaeal proteins, cation transport proteins; 10.00A {Archaeoglobus fulgidus}

Probab=91.26  E-value=0.28  Score=53.71  Aligned_cols=59  Identities=8%  Similarity=0.132  Sum_probs=51.9

Q ss_pred             eeeecc-ccccchhhHHHHHHHhhcCCCeeEEEeecCCCeEEEEee--ccCHHHHHHHhhcccc
Q 011431          385 AIFKLE-IHHDNLEAWRAAFSIVSEFIGITKISFDFKVKKMTVVGD--NFDVLSAGTKLNGLCR  445 (486)
Q Consensus       385 ~v~kv~-~~~~~~~~~~~a~k~~~~~~Gv~~v~~d~~~~~~~V~G~--~~d~~~~~~~l~k~~~  445 (486)
                      +.++++ |+|..|.  ..+.+.+.+.+||+++.++...++++|.-+  .+++..+.+.+++.|.
T Consensus         4 ~~l~V~GM~Ca~Ca--~~Ie~~L~~~~GV~~v~Vnl~~~~~~V~~d~~~~~~~~i~~ai~~~Gy   65 (723)
T 3j09_A            4 RTVRVTGMTCAMCV--KSIETAVGSLEGVEEVRVNLATETAFIRFDEKRIDFETIKRVIEDLGY   65 (723)
T ss_dssp             EEEEEETCCSHHHH--HHHHHHHHTSTTEEEEEEETTTTEEEEEECTTTCCHHHHHHHHHHHCC
T ss_pred             EEEEeCCCCchHHH--HHHHHHHhcCCCceEEEEEcCCCEEEEEeCCCcCCHHHHHHHHHhcCC
Confidence            455664 9999999  999999999999999999999999999864  3789999999999873

>1a5t_A Delta prime, HOLB; zinc finger, DNA replication; 2.20A {Escherichia coli K12} SCOP: a.80.1.1 c.37.1.20 PDB: 1jr3_E* 1xxh_E* 1xxi_E* 3glf_E* 3glg_E* 3glh_E* 3gli_E*

Probab=90.65  E-value=1.4  Score=43.19  Aligned_cols=70  Identities=11%  Similarity=-0.033  Sum_probs=40.2

Q ss_pred             cceeeceecccC--HHHHHHHhcCCCCCCCCCEEEeeCCccc-cccccccCCCceEecCCCCCchhhhhhcccC
Q 011431          308 SAAHPYVEDVID--DAYMEDITDDSSPSLNLSRINSTSRFEQ-LWPETISATDTCTEDVTVDNSPSLNLSSCNS  378 (486)
Q Consensus       308 Kr~LlVLDDVw~--~~~~~~l~~~~~~~~~GSrIIiTTR~~~-V~~~~~~~~~~~y~v~~L~~~es~~LF~~~a  378 (486)
                      ++.++|+|++..  ......++...-+-.....+|++|.+.+ +...- ......+++++++.++..+.+...+
T Consensus       108 ~~kvviIdead~l~~~a~naLLk~lEep~~~~~~Il~t~~~~~l~~ti-~SRc~~~~~~~~~~~~~~~~L~~~~  180 (334)
T 1a5t_A          108 GAKVVWVTDAALLTDAAANALLKTLEEPPAETWFFLATREPERLLATL-RSRCRLHYLAPPPEQYAVTWLSREV  180 (334)
T ss_dssp             SCEEEEESCGGGBCHHHHHHHHHHHTSCCTTEEEEEEESCGGGSCHHH-HTTSEEEECCCCCHHHHHHHHHHHC
T ss_pred             CcEEEEECchhhcCHHHHHHHHHHhcCCCCCeEEEEEeCChHhCcHHH-hhcceeeeCCCCCHHHHHHHHHHhc
Confidence            567888999874  3333444421101123567666665543 43211 1122478999999998887776554

>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=90.50  E-value=0.53  Score=45.83  Aligned_cols=47  Identities=6%  Similarity=-0.113  Sum_probs=29.4

Q ss_pred             CCCCEEEeeCCccccccccc-cCCCceEecCCCCCchhhhhhcccCCC
Q 011431          334 LNLSRINSTSRFEQLWPETI-SATDTCTEDVTVDNSPSLNLSSCNSSS  380 (486)
Q Consensus       334 ~~GSrIIiTTR~~~V~~~~~-~~~~~~y~v~~L~~~es~~LF~~~a~~  380 (486)
                      ..+..||.||...+-+.... ..-+..+.++..+.++-.++|..++..
T Consensus       152 ~~~v~vi~atn~~~~ld~al~~Rf~~~i~~~~p~~~~r~~il~~~~~~  199 (322)
T 3eie_A          152 SQGVLVLGATNIPWQLDSAIRRRFERRIYIPLPDLAARTTMFEINVGD  199 (322)
T ss_dssp             CCCEEEEEEESCGGGSCHHHHHHCCEEEECCCCCHHHHHHHHHHHHTT
T ss_pred             CCceEEEEecCChhhCCHHHHcccCeEEEeCCCCHHHHHHHHHHHhcc
Confidence            34566776776544432110 012456788889999999999877654

>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=89.91  E-value=0.15  Score=44.13  Aligned_cols=22  Identities=0%  Similarity=-0.352  Sum_probs=19.3

Q ss_pred             eeeeeeeccCccchhHHHHHHHhh
Q 011431          228 RSYRCWLLCPLFSELRVLTNDVHQ  251 (486)
Q Consensus       228 ~vi~I~GmGgGvGKTTLa~~vy~~  251 (486)
                      .+|.+.|+. |.||||+++.+ ..
T Consensus         2 ~~I~l~G~~-GsGKsT~a~~L-~~   23 (179)
T 3lw7_A            2 KVILITGMP-GSGKSEFAKLL-KE   23 (179)
T ss_dssp             CEEEEECCT-TSCHHHHHHHH-HH
T ss_pred             cEEEEECCC-CCCHHHHHHHH-HH
Confidence            468899999 99999999999 54

>1zu4_A FTSY; GTPase, signal recognition particle, SRP, receptor, protein transport; 1.95A {Mycoplasma mycoides} PDB: 1zu5_A

Probab=89.71  E-value=0.62  Score=45.60  Aligned_cols=27  Identities=4%  Similarity=-0.167  Sum_probs=22.2

Q ss_pred             CceeeeeeeccCccchhHHHHHHHhhhc
Q 011431          226 GYRSYRCWLLCPLFSELRVLTNDVHQLM  253 (486)
Q Consensus       226 ~~~vi~I~GmGgGvGKTTLa~~vy~~~~  253 (486)
                      ..++|+++|.+ |.||||++..+-..+.
T Consensus       104 ~~~vI~ivG~~-G~GKTT~~~~LA~~l~  130 (320)
T 1zu4_A          104 RLNIFMLVGVN-GTGKTTSLAKMANYYA  130 (320)
T ss_dssp             SCEEEEEESST-TSSHHHHHHHHHHHHH
T ss_pred             CCeEEEEECCC-CCCHHHHHHHHHHHHH
Confidence            45789999998 9999999988866543

>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=89.64  E-value=0.76  Score=48.05  Aligned_cols=25  Identities=8%  Similarity=-0.048  Sum_probs=21.6

Q ss_pred             ceeeeeeeccCccchhHHHHHHHhhh
Q 011431          227 YRSYRCWLLCPLFSELRVLTNDVHQL  252 (486)
Q Consensus       227 ~~vi~I~GmGgGvGKTTLa~~vy~~~  252 (486)
                      .+.+-++|.. |+||||||+.+.+.+
T Consensus        77 ~~~lLL~Gpp-GtGKTtla~~la~~l  101 (516)
T 1sxj_A           77 FRAAMLYGPP-GIGKTTAAHLVAQEL  101 (516)
T ss_dssp             CSEEEEECST-TSSHHHHHHHHHHHT
T ss_pred             CcEEEEECCC-CCCHHHHHHHHHHHc
Confidence            3566789999 999999999998876

>3te6_A Regulatory protein SIR3; heterochromatin, gene silencing, SIR complex, HMR, HML, TELO AAA+ domain, structural, nucleus, gene RE; 2.80A {Saccharomyces cerevisiae}

Probab=89.22  E-value=0.85  Score=44.60  Aligned_cols=145  Identities=7%  Similarity=-0.054  Sum_probs=71.1

Q ss_pred             ceeeeeeeccCccchhHHHHHHHhhhccccc---cceEEEEeee----ccHHHHHHHHhhhhcccccccccccccccccc
Q 011431          227 YRSYRCWLLCPLFSELRVLTNDVHQLMDNYE---NSDVTLAKFE----GEVKKLDQRLLRFLESVDKHVASYDRYGSASF  299 (486)
Q Consensus       227 ~~vi~I~GmGgGvGKTTLa~~vy~~~~~~F~---~~~~~~v~~~----~~l~~lqk~ll~~L~~~d~~~~~~~~~g~~s~  299 (486)
                      ...+-|+|.. |.|||++++.+.+.+.....   ...+..+.+.    .....+-..|+..|.+.....+     .....
T Consensus        45 ~~~lli~GpP-GTGKT~~v~~v~~~L~~~~~~~~~~~~~~v~INc~~~~t~~~~~~~I~~~L~g~~~~~~-----~~~~~  118 (318)
T 3te6_A           45 NKLFYITNAD-DSTKFQLVNDVMDELITSSARKELPIFDYIHIDALELAGMDALYEKIWFAISKENLCGD-----ISLEA  118 (318)
T ss_dssp             CCEEEEECCC-SHHHHHHHHHHHHHHHHTTTTTSSCCEEEEEEETTCCC--HHHHHHHHHHHSCCC--CC-----CCHHH
T ss_pred             CCeEEEECCC-CCCHHHHHHHHHHHHHHHhhhccCCceEEEEEeccccCCHHHHHHHHHHHhcCCCCCch-----HHHHH
Confidence            3455689999 99999999999988753221   1112223332    1222345556666644211000     00011


Q ss_pred             cccccc-----cCcceeeceecccCH---HHHHHHhcCCCCCCCCCEE--EeeCCcccccccc------ccCCCceEecC
Q 011431          300 EQPRPQ-----TTSAAHPYVEDVIDD---AYMEDITDDSSPSLNLSRI--NSTSRFEQLWPET------ISATDTCTEDV  363 (486)
Q Consensus       300 l~~~L~-----~tKr~LlVLDDVw~~---~~~~~l~~~~~~~~~GSrI--IiTTR~~~V~~~~------~~~~~~~y~v~  363 (486)
                      |++++.     ..+..+|+||.+..-   ..+-.+..  |.....|++  |.++-..+.....      +......++.+
T Consensus       119 L~~~f~~~~~~~~~~~ii~lDE~d~l~~q~~L~~l~~--~~~~~~s~~~vI~i~n~~d~~~~~L~~~v~SR~~~~~i~F~  196 (318)
T 3te6_A          119 LNFYITNVPKAKKRKTLILIQNPENLLSEKILQYFEK--WISSKNSKLSIICVGGHNVTIREQINIMPSLKAHFTEIKLN  196 (318)
T ss_dssp             HHHHHHHSCGGGSCEEEEEEECCSSSCCTHHHHHHHH--HHHCSSCCEEEEEECCSSCCCHHHHHTCHHHHTTEEEEECC
T ss_pred             HHHHHHHhhhccCCceEEEEecHHHhhcchHHHHHHh--cccccCCcEEEEEEecCcccchhhcchhhhccCCceEEEeC
Confidence            222211     225789999998753   22323322  111234433  3334443321100      00011357788


Q ss_pred             CCCCchhhhhhcccCC
Q 011431          364 TVDNSPSLNLSSCNSS  379 (486)
Q Consensus       364 ~L~~~es~~LF~~~a~  379 (486)
                      +++.+|-.+++...+.
T Consensus       197 pYt~~el~~Il~~Rl~  212 (318)
T 3te6_A          197 KVDKNELQQMIITRLK  212 (318)
T ss_dssp             CCCHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHH
Confidence            8888888887766543

>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=89.08  E-value=0.18  Score=44.57  Aligned_cols=26  Identities=0%  Similarity=-0.156  Sum_probs=22.4

Q ss_pred             ceeeeeeeccCccchhHHHHHHHhhhc
Q 011431          227 YRSYRCWLLCPLFSELRVLTNDVHQLM  253 (486)
Q Consensus       227 ~~vi~I~GmGgGvGKTTLa~~vy~~~~  253 (486)
                      -..+.++|.. |.|||||++.+.+.+.
T Consensus        38 g~~~~l~G~~-G~GKTtL~~~i~~~~~   63 (180)
T 3ec2_A           38 GKGLTFVGSP-GVGKTHLAVATLKAIY   63 (180)
T ss_dssp             CCEEEECCSS-SSSHHHHHHHHHHHHH
T ss_pred             CCEEEEECCC-CCCHHHHHHHHHHHHH
Confidence            3567899999 9999999999988764

>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=88.75  E-value=0.38  Score=46.46  Aligned_cols=29  Identities=7%  Similarity=-0.380  Sum_probs=24.0

Q ss_pred             CCCceeeeeeeccCccchhHHHHHHHhhhc
Q 011431          224 AEGYRSYRCWLLCPLFSELRVLTNDVHQLM  253 (486)
Q Consensus       224 ~~~~~vi~I~GmGgGvGKTTLa~~vy~~~~  253 (486)
                      .....+|+|.|.. |.|||||++.+...+.
T Consensus        28 ~~~~~ii~I~G~s-GsGKSTla~~L~~~l~   56 (290)
T 1odf_A           28 NKCPLFIFFSGPQ-GSGKSFTSIQIYNHLM   56 (290)
T ss_dssp             CCSCEEEEEECCT-TSSHHHHHHHHHHHHH
T ss_pred             CCCCeEEEEECCC-CCCHHHHHHHHHHHhh
Confidence            3456799999999 9999999998876553

>1jbk_A CLPB protein; beta barrel, chaperone; 1.80A {Escherichia coli} SCOP: c.37.1.20

Probab=88.37  E-value=0.44  Score=41.45  Aligned_cols=37  Identities=3%  Similarity=-0.051  Sum_probs=25.6

Q ss_pred             HHHHHHhhcCCCceeeeeeeccCccchhHHHHHHHhhhc
Q 011431          215 DEVLSLLRNAEGYRSYRCWLLCPLFSELRVLTNDVHQLM  253 (486)
Q Consensus       215 ~~v~~ll~~~~~~~vi~I~GmGgGvGKTTLa~~vy~~~~  253 (486)
                      +.+...+... ..+.+-++|.. |.||||||+.+.+.+.
T Consensus        32 ~~l~~~l~~~-~~~~~ll~G~~-G~GKT~l~~~~~~~~~   68 (195)
T 1jbk_A           32 RRTIQVLQRR-TKNNPVLIGEP-GVGKTAIVEGLAQRII   68 (195)
T ss_dssp             HHHHHHHTSS-SSCEEEEECCT-TSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHhcC-CCCceEEECCC-CCCHHHHHHHHHHHHH
Confidence            3444444332 23445689999 9999999999988653

>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=88.16  E-value=0.26  Score=42.72  Aligned_cols=25  Identities=8%  Similarity=-0.314  Sum_probs=20.9

Q ss_pred             eeeeeeeccCccchhHHHHHHHhhhc
Q 011431          228 RSYRCWLLCPLFSELRVLTNDVHQLM  253 (486)
Q Consensus       228 ~vi~I~GmGgGvGKTTLa~~vy~~~~  253 (486)
                      ++|.|.|+. |.||||+++.+-.++.
T Consensus         2 ~~i~l~G~~-GsGKsT~~~~L~~~l~   26 (173)
T 3kb2_A            2 TLIILEGPD-CCFKSTVAAKLSKELK   26 (173)
T ss_dssp             CEEEEECSS-SSSHHHHHHHHHHHHC
T ss_pred             eEEEEECCC-CCCHHHHHHHHHHHhC
Confidence            467899999 9999999999876653

>2w58_A DNAI, primosome component (helicase loader); ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.50A {Geobacillus kaustophilus HTA426}

Probab=88.05  E-value=0.43  Score=42.75  Aligned_cols=27  Identities=7%  Similarity=-0.055  Sum_probs=22.8

Q ss_pred             eeeeeeeccCccchhHHHHHHHhhhccc
Q 011431          228 RSYRCWLLCPLFSELRVLTNDVHQLMDN  255 (486)
Q Consensus       228 ~vi~I~GmGgGvGKTTLa~~vy~~~~~~  255 (486)
                      +.+-|+|.. |.||||||+++++.....
T Consensus        55 ~~~~l~G~~-GtGKT~la~~i~~~~~~~   81 (202)
T 2w58_A           55 KGLYLHGSF-GVGKTYLLAAIANELAKR   81 (202)
T ss_dssp             CEEEEECST-TSSHHHHHHHHHHHHHTT
T ss_pred             CeEEEECCC-CCCHHHHHHHHHHHHHHc
Confidence            566799999 999999999999876543

>3c8u_A Fructokinase; YP_612366.1, putative fructose transport system kinase, STRU genomics, joint center for structural genomics, JCSG; 1.95A {Silicibacter SP}

Probab=87.71  E-value=0.46  Score=43.00  Aligned_cols=28  Identities=7%  Similarity=-0.263  Sum_probs=23.3

Q ss_pred             CCceeeeeeeccCccchhHHHHHHHhhhc
Q 011431          225 EGYRSYRCWLLCPLFSELRVLTNDVHQLM  253 (486)
Q Consensus       225 ~~~~vi~I~GmGgGvGKTTLa~~vy~~~~  253 (486)
                      ..-.+++|.|-. |-|||||++.+...+.
T Consensus        20 ~~g~~v~I~G~s-GsGKSTl~~~l~~~~~   47 (208)
T 3c8u_A           20 PGRQLVALSGAP-GSGKSTLSNPLAAALS   47 (208)
T ss_dssp             CSCEEEEEECCT-TSCTHHHHHHHHHHHH
T ss_pred             CCCeEEEEECCC-CCCHHHHHHHHHHHHh
Confidence            355789999999 9999999999876543

>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=87.50  E-value=0.87  Score=46.62  Aligned_cols=24  Identities=4%  Similarity=-0.227  Sum_probs=20.7

Q ss_pred             eeeeeeeccCccchhHHHHHHHhhh
Q 011431          228 RSYRCWLLCPLFSELRVLTNDVHQL  252 (486)
Q Consensus       228 ~vi~I~GmGgGvGKTTLa~~vy~~~  252 (486)
                      +-|-++|.. |.|||+||+++.+..
T Consensus       168 ~~vLL~Gpp-GtGKT~lA~aia~~~  191 (444)
T 2zan_A          168 RGILLFGPP-GTGKSYLAKAVATEA  191 (444)
T ss_dssp             SEEEEECST-TSSHHHHHHHHHHHC
T ss_pred             ceEEEECCC-CCCHHHHHHHHHHHc
Confidence            456689999 999999999998876

>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=87.20  E-value=0.31  Score=42.63  Aligned_cols=25  Identities=8%  Similarity=-0.292  Sum_probs=20.9

Q ss_pred             eeeeeeeccCccchhHHHHHHHhhhc
Q 011431          228 RSYRCWLLCPLFSELRVLTNDVHQLM  253 (486)
Q Consensus       228 ~vi~I~GmGgGvGKTTLa~~vy~~~~  253 (486)
                      ++|-+.|+. |.||||+++.+-.++.
T Consensus         4 ~~i~l~G~~-GsGKST~a~~La~~l~   28 (178)
T 1qhx_A            4 RMIILNGGS-SAGKSGIVRCLQSVLP   28 (178)
T ss_dssp             CEEEEECCT-TSSHHHHHHHHHHHSS
T ss_pred             eEEEEECCC-CCCHHHHHHHHHHhcC
Confidence            357789999 9999999999977653

>3vfd_A Spastin; ATPase, microtubule severing, hydrolase; 3.30A {Homo sapiens}

Probab=86.91  E-value=1.1  Score=44.85  Aligned_cols=27  Identities=4%  Similarity=-0.235  Sum_probs=21.5

Q ss_pred             eeeeeeeccCccchhHHHHHHHhhhccc
Q 011431          228 RSYRCWLLCPLFSELRVLTNDVHQLMDN  255 (486)
Q Consensus       228 ~vi~I~GmGgGvGKTTLa~~vy~~~~~~  255 (486)
                      +-+-++|-. |.|||+||+++.+.....
T Consensus       149 ~~vLL~Gpp-GtGKT~la~aia~~~~~~  175 (389)
T 3vfd_A          149 RGLLLFGPP-GNGKTMLAKAVAAESNAT  175 (389)
T ss_dssp             SEEEEESST-TSCHHHHHHHHHHHTTCE
T ss_pred             ceEEEECCC-CCCHHHHHHHHHHhhcCc
Confidence            345689999 999999999998775433

>3vaa_A Shikimate kinase, SK; structural genomics, center for structural genomics of infec diseases, csgid, metal binding, transferase; 1.70A {Bacteroides thetaiotaomicron}

Probab=86.76  E-value=0.33  Score=43.60  Aligned_cols=25  Identities=4%  Similarity=-0.320  Sum_probs=21.6

Q ss_pred             ceeeeeeeccCccchhHHHHHHHhhh
Q 011431          227 YRSYRCWLLCPLFSELRVLTNDVHQL  252 (486)
Q Consensus       227 ~~vi~I~GmGgGvGKTTLa~~vy~~~  252 (486)
                      ..+|.|.|+. |.||||+++.+-..+
T Consensus        25 ~~~i~l~G~~-GsGKsTl~~~La~~l   49 (199)
T 3vaa_A           25 MVRIFLTGYM-GAGKTTLGKAFARKL   49 (199)
T ss_dssp             CCEEEEECCT-TSCHHHHHHHHHHHH
T ss_pred             CCEEEEEcCC-CCCHHHHHHHHHHHc
Confidence            3578899999 999999999997665

>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=86.63  E-value=0.31  Score=43.14  Aligned_cols=23  Identities=0%  Similarity=-0.411  Sum_probs=20.4

Q ss_pred             eeeeeeeccCccchhHHHHHHHhh
Q 011431          228 RSYRCWLLCPLFSELRVLTNDVHQ  251 (486)
Q Consensus       228 ~vi~I~GmGgGvGKTTLa~~vy~~  251 (486)
                      .+++++|+. |.|||||++.+...
T Consensus        10 ~~i~l~G~~-GsGKSTl~~~La~~   32 (191)
T 1zp6_A           10 NILLLSGHP-GSGKSTIAEALANL   32 (191)
T ss_dssp             EEEEEEECT-TSCHHHHHHHHHTC
T ss_pred             eEEEEECCC-CCCHHHHHHHHHhc
Confidence            578999999 99999999998664

>1rz3_A Hypothetical protein rbstp0775; MCSG, structural genomics, PSI, protein structure initiative; 1.90A {Geobacillus stearothermophilus} SCOP: c.37.1.6

Probab=86.58  E-value=0.69  Score=41.61  Aligned_cols=27  Identities=11%  Similarity=-0.107  Sum_probs=22.6

Q ss_pred             CCceeeeeeeccCccchhHHHHHHHhhh
Q 011431          225 EGYRSYRCWLLCPLFSELRVLTNDVHQL  252 (486)
Q Consensus       225 ~~~~vi~I~GmGgGvGKTTLa~~vy~~~  252 (486)
                      ....+|+|.|.. |.|||||++.+...+
T Consensus        20 ~~~~~i~i~G~~-GsGKstl~~~l~~~~   46 (201)
T 1rz3_A           20 AGRLVLGIDGLS-RSGKTTLANQLSQTL   46 (201)
T ss_dssp             SSSEEEEEEECT-TSSHHHHHHHHHHHH
T ss_pred             CCCeEEEEECCC-CCCHHHHHHHHHHHH
Confidence            345789999999 999999999886644

>2jaq_A Deoxyguanosine kinase; transferase, deoxyribonucleoside kinase; HET: DCP; 2.3A {Mycoplasma mycoides subsp} PDB: 2jat_A* 2jas_A*

Probab=85.98  E-value=0.38  Score=42.92  Aligned_cols=24  Identities=4%  Similarity=-0.157  Sum_probs=20.6

Q ss_pred             eeeeeeccCccchhHHHHHHHhhhc
Q 011431          229 SYRCWLLCPLFSELRVLTNDVHQLM  253 (486)
Q Consensus       229 vi~I~GmGgGvGKTTLa~~vy~~~~  253 (486)
                      .|.|.|+- |.||||+++.+-..+.
T Consensus         2 ~I~i~G~~-GsGKsT~~~~L~~~l~   25 (205)
T 2jaq_A            2 KIAIFGTV-GAGKSTISAEISKKLG   25 (205)
T ss_dssp             EEEEECCT-TSCHHHHHHHHHHHHC
T ss_pred             EEEEECCC-ccCHHHHHHHHHHhcC
Confidence            57899999 9999999999977653

>1kag_A SKI, shikimate kinase I; transferase, structural genomics, PSI, protein structure initiative; 2.05A {Escherichia coli} SCOP: c.37.1.2

Probab=85.89  E-value=0.37  Score=41.90  Aligned_cols=24  Identities=13%  Similarity=-0.194  Sum_probs=20.7

Q ss_pred             eeeeeeeccCccchhHHHHHHHhhh
Q 011431          228 RSYRCWLLCPLFSELRVLTNDVHQL  252 (486)
Q Consensus       228 ~vi~I~GmGgGvGKTTLa~~vy~~~  252 (486)
                      .+|+|.|+. |.|||||++.+-..+
T Consensus         5 ~~i~l~G~~-GsGKSTl~~~La~~l   28 (173)
T 1kag_A            5 RNIFLVGPM-GAGKSTIGRQLAQQL   28 (173)
T ss_dssp             CCEEEECCT-TSCHHHHHHHHHHHT
T ss_pred             CeEEEECCC-CCCHHHHHHHHHHHh
Confidence            468899999 999999999986654

>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=85.64  E-value=0.35  Score=42.75  Aligned_cols=27  Identities=4%  Similarity=-0.075  Sum_probs=22.4

Q ss_pred             CceeeeeeeccCccchhHHHHHHHhhhc
Q 011431          226 GYRSYRCWLLCPLFSELRVLTNDVHQLM  253 (486)
Q Consensus       226 ~~~vi~I~GmGgGvGKTTLa~~vy~~~~  253 (486)
                      ..++++|.|.. |.|||||+..+...+.
T Consensus         3 ~~~~i~i~G~s-GsGKTTl~~~L~~~l~   29 (169)
T 1xjc_A            3 AMNVWQVVGYK-HSGKTTLMEKWVAAAV   29 (169)
T ss_dssp             -CCEEEEECCT-TSSHHHHHHHHHHHHH
T ss_pred             CCEEEEEECCC-CCCHHHHHHHHHHhhH
Confidence            45789999988 9999999999877654

>2p65_A Hypothetical protein PF08_0063; CLPB, malaria, structural genomics, structural genomics consortium, SGC, unknown function; 1.70A {Plasmodium falciparum}

Probab=85.53  E-value=0.69  Score=40.13  Aligned_cols=25  Identities=0%  Similarity=-0.231  Sum_probs=20.8

Q ss_pred             eeeeeeeccCccchhHHHHHHHhhhc
Q 011431          228 RSYRCWLLCPLFSELRVLTNDVHQLM  253 (486)
Q Consensus       228 ~vi~I~GmGgGvGKTTLa~~vy~~~~  253 (486)
                      +.+-++|.. |.||||||+.+.+...
T Consensus        44 ~~vll~G~~-G~GKT~la~~~~~~~~   68 (187)
T 2p65_A           44 NNPILLGDP-GVGKTAIVEGLAIKIV   68 (187)
T ss_dssp             CEEEEESCG-GGCHHHHHHHHHHHHH
T ss_pred             CceEEECCC-CCCHHHHHHHHHHHHH
Confidence            345689999 9999999999988753

>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=85.38  E-value=0.4  Score=42.16  Aligned_cols=25  Identities=0%  Similarity=-0.359  Sum_probs=21.0

Q ss_pred             ceeeeeeeccCccchhHHHHHHHhhh
Q 011431          227 YRSYRCWLLCPLFSELRVLTNDVHQL  252 (486)
Q Consensus       227 ~~vi~I~GmGgGvGKTTLa~~vy~~~  252 (486)
                      .+.|.|.|+. |.||||+++.+-..+
T Consensus        11 ~~~i~i~G~~-GsGKst~~~~l~~~~   35 (180)
T 3iij_A           11 LPNILLTGTP-GVGKTTLGKELASKS   35 (180)
T ss_dssp             CCCEEEECST-TSSHHHHHHHHHHHH
T ss_pred             CCeEEEEeCC-CCCHHHHHHHHHHHh
Confidence            3567799999 999999999987654

>3bpd_A Uncharacterized protein; heptamer, Mg+2 ION, PSI-2, NYSGXRC, structural genom protein structure initiative; 2.80A {Archaeoglobus fulgidus dsm 4304} SCOP: d.58.61.1

Probab=85.36  E-value=1.1  Score=35.32  Aligned_cols=59  Identities=15%  Similarity=0.247  Sum_probs=43.0

Q ss_pred             eeeeeecc-ccccchhhHHHHHHHhhcCCCeeEEEe-----ecCCC--eEEEEeeccCHHHHHHHhhccc
Q 011431          383 KEAIFKLE-IHHDNLEAWRAAFSIVSEFIGITKISF-----DFKVK--KMTVVGDNFDVLSAGTKLNGLC  444 (486)
Q Consensus       383 ~~~v~kv~-~~~~~~~~~~~a~k~~~~~~Gv~~v~~-----d~~~~--~~~V~G~~~d~~~~~~~l~k~~  444 (486)
                      ..+||-|. .|.....   ..-+.+++++||+.|.+     |.+..  ++||.|+++|-..+.+.+.+.|
T Consensus         7 RRlVLDVlKPh~P~iv---dlA~~l~~~~gV~gVnItV~EvD~eTe~lkItIEG~dIdfd~I~~~IE~~G   73 (100)
T 3bpd_A            7 RRLVLDVLKPHEPKTI---VFALKLSELENVDGVNIHLSEIDQATENIKITILGNNLDYEQIKGVIEDMG   73 (100)
T ss_dssp             EEEEEEEEEESCSCHH---HHHHHHHTSTTEEEEEEEEEEECSSEEEEEEEEEEEEECHHHHHHHHHTTT
T ss_pred             eEEEEEecCCCCCCHH---HHHHHHHhCCCcceEEEEEEEeeccccEEEEEEEecCCCHHHHHHHHHHcC
Confidence            45555553 2444443   45566789999999876     44443  7899999999999999999977

>3trf_A Shikimate kinase, SK; amino acid biosynthesis, transferase; 2.60A {Coxiella burnetii}

Probab=85.33  E-value=0.44  Score=41.95  Aligned_cols=24  Identities=8%  Similarity=-0.247  Sum_probs=20.5

Q ss_pred             eeeeeeeccCccchhHHHHHHHhhh
Q 011431          228 RSYRCWLLCPLFSELRVLTNDVHQL  252 (486)
Q Consensus       228 ~vi~I~GmGgGvGKTTLa~~vy~~~  252 (486)
                      +.|.+.|+. |.||||+++.+-..+
T Consensus         6 ~~i~l~G~~-GsGKst~a~~La~~l   29 (185)
T 3trf_A            6 TNIYLIGLM-GAGKTSVGSQLAKLT   29 (185)
T ss_dssp             CEEEEECST-TSSHHHHHHHHHHHH
T ss_pred             CEEEEECCC-CCCHHHHHHHHHHHh
Confidence            467799999 999999999987665

>2kjq_A DNAA-related protein; solution structure, NESG, structural genomics, PSI-2, protei structure initiative; NMR {Neisseria meningitidis serogroup B}

Probab=85.00  E-value=0.39  Score=41.35  Aligned_cols=26  Identities=15%  Similarity=-0.038  Sum_probs=22.2

Q ss_pred             ceeeeeeeccCccchhHHHHHHHhhhc
Q 011431          227 YRSYRCWLLCPLFSELRVLTNDVHQLM  253 (486)
Q Consensus       227 ~~vi~I~GmGgGvGKTTLa~~vy~~~~  253 (486)
                      -..++|+|-. |.|||||++.+.+...
T Consensus        36 g~~~~l~G~~-G~GKTtL~~~i~~~~~   61 (149)
T 2kjq_A           36 GQFIYVWGEE-GAGKSHLLQAWVAQAL   61 (149)
T ss_dssp             CSEEEEESSS-TTTTCHHHHHHHHHHH
T ss_pred             CCEEEEECCC-CCCHHHHHHHHHHHHH
Confidence            3568899999 9999999999988654

>3t61_A Gluconokinase; PSI-biology, structural genomics, protein structure initiati YORK structural genomics research consortium, nysgrc; 2.20A {Sinorhizobium meliloti}

Probab=84.98  E-value=0.39  Score=43.11  Aligned_cols=25  Identities=8%  Similarity=-0.295  Sum_probs=21.5

Q ss_pred             ceeeeeeeccCccchhHHHHHHHhhh
Q 011431          227 YRSYRCWLLCPLFSELRVLTNDVHQL  252 (486)
Q Consensus       227 ~~vi~I~GmGgGvGKTTLa~~vy~~~  252 (486)
                      ..+|.|.|+. |.||||+|+.+...+
T Consensus        18 ~~~I~l~G~~-GsGKSTla~~L~~~l   42 (202)
T 3t61_A           18 PGSIVVMGVS-GSGKSSVGEAIAEAC   42 (202)
T ss_dssp             SSCEEEECST-TSCHHHHHHHHHHHH
T ss_pred             CeEEEEECCC-CCCHHHHHHHHHHHh
Confidence            4578899999 999999999987664

>1kgd_A CASK, peripheral plasma membrane CASK; maguk, guanylate kinase like domain, protein binding; 1.31A {Homo sapiens} SCOP: c.37.1.1

Probab=84.81  E-value=0.44  Score=42.12  Aligned_cols=24  Identities=0%  Similarity=-0.158  Sum_probs=21.0

Q ss_pred             eeeeeeeccCccchhHHHHHHHhhh
Q 011431          228 RSYRCWLLCPLFSELRVLTNDVHQL  252 (486)
Q Consensus       228 ~vi~I~GmGgGvGKTTLa~~vy~~~  252 (486)
                      ++++|+|.. |.|||||++.+....
T Consensus         6 ~~i~i~Gps-GsGKSTL~~~L~~~~   29 (180)
T 1kgd_A            6 KTLVLLGAH-GVGRRHIKNTLITKH   29 (180)
T ss_dssp             CEEEEECCT-TSSHHHHHHHHHHHC
T ss_pred             CEEEEECCC-CCCHHHHHHHHHhhC
Confidence            578899999 999999999987654

>1nks_A Adenylate kinase; thermophilic, transferase; HET: AMP ADP; 2.57A {Sulfolobus acidocaldarius} SCOP: c.37.1.1

Probab=84.62  E-value=0.5  Score=41.61  Aligned_cols=25  Identities=12%  Similarity=-0.197  Sum_probs=21.1

Q ss_pred             eeeeeeeccCccchhHHHHHHHhhhc
Q 011431          228 RSYRCWLLCPLFSELRVLTNDVHQLM  253 (486)
Q Consensus       228 ~vi~I~GmGgGvGKTTLa~~vy~~~~  253 (486)
                      ++|.|.|+. |.||||+++.+...+.
T Consensus         2 ~~I~i~G~~-GsGKsT~~~~L~~~l~   26 (194)
T 1nks_A            2 KIGIVTGIP-GVGKSTVLAKVKEILD   26 (194)
T ss_dssp             EEEEEEECT-TSCHHHHHHHHHHHHH
T ss_pred             eEEEEECCC-CCCHHHHHHHHHHHHH
Confidence            467789999 9999999999977654

>2og2_A Putative signal recognition particle receptor; nucleotide-binding, protein transport; 2.00A {Arabidopsis thaliana}

Probab=84.53  E-value=1.4  Score=43.86  Aligned_cols=26  Identities=12%  Similarity=-0.199  Sum_probs=22.2

Q ss_pred             ceeeeeeeccCccchhHHHHHHHhhhc
Q 011431          227 YRSYRCWLLCPLFSELRVLTNDVHQLM  253 (486)
Q Consensus       227 ~~vi~I~GmGgGvGKTTLa~~vy~~~~  253 (486)
                      -.+++++|.. |.|||||++.+...+.
T Consensus       157 g~vi~lvG~n-GsGKTTll~~Lag~l~  182 (359)
T 2og2_A          157 PAVIMIVGVN-GGGKTTSLGKLAHRLK  182 (359)
T ss_dssp             SEEEEEECCT-TSCHHHHHHHHHHHHH
T ss_pred             CeEEEEEcCC-CChHHHHHHHHHhhcc
Confidence            4689999999 9999999999877553

>2ga8_A Hypothetical 39.9 kDa protein; YFR007W, YFH7, unknown function; HET: CME; 1.77A {Saccharomyces cerevisiae} PDB: 2gaa_A*

Probab=84.48  E-value=0.69  Score=45.92  Aligned_cols=31  Identities=3%  Similarity=-0.233  Sum_probs=24.7

Q ss_pred             CCceeeeeeeccCccchhHHHHHHHhhhcccc
Q 011431          225 EGYRSYRCWLLCPLFSELRVLTNDVHQLMDNY  256 (486)
Q Consensus       225 ~~~~vi~I~GmGgGvGKTTLa~~vy~~~~~~F  256 (486)
                      +....|.++|+. |.||||+++.+...+...|
T Consensus        22 g~~~~i~l~G~~-G~GKTTl~~~la~~l~~~f   52 (359)
T 2ga8_A           22 NYRVCVILVGSP-GSGKSTIAEELCQIINEKY   52 (359)
T ss_dssp             CSCEEEEEECCT-TSSHHHHHHHHHHHHHHHH
T ss_pred             CCeeEEEEECCC-CCcHHHHHHHHHHHhCCCe
Confidence            345568899999 9999999999887765544

>3b9q_A Chloroplast SRP receptor homolog, alpha subunit CPFTSY; protein translocation, GTP-binding, nucleotide-binding, protein transport; 1.75A {Arabidopsis thaliana}

Probab=84.40  E-value=1.3  Score=42.93  Aligned_cols=26  Identities=12%  Similarity=-0.199  Sum_probs=22.1

Q ss_pred             ceeeeeeeccCccchhHHHHHHHhhhc
Q 011431          227 YRSYRCWLLCPLFSELRVLTNDVHQLM  253 (486)
Q Consensus       227 ~~vi~I~GmGgGvGKTTLa~~vy~~~~  253 (486)
                      -.+++++|.. |.||||+++.+...+.
T Consensus       100 g~vi~lvG~n-GsGKTTll~~Lag~l~  125 (302)
T 3b9q_A          100 PAVIMIVGVN-GGGKTTSLGKLAHRLK  125 (302)
T ss_dssp             CEEEEEECCT-TSCHHHHHHHHHHHHH
T ss_pred             CcEEEEEcCC-CCCHHHHHHHHHHHHH
Confidence            4689999999 9999999999876543

>3ea0_A ATPase, para family; alpha-beta-alpha sandwich, structural genomics, PSI-2, prote structure initiative; HET: ATP; 2.20A {Chlorobium tepidum}

Probab=84.32  E-value=0.49  Score=43.62  Aligned_cols=28  Identities=11%  Similarity=-0.167  Sum_probs=22.6

Q ss_pred             CceeeeeeeccCccchhHHHHHHHhhhc
Q 011431          226 GYRSYRCWLLCPLFSELRVLTNDVHQLM  253 (486)
Q Consensus       226 ~~~vi~I~GmGgGvGKTTLa~~vy~~~~  253 (486)
                      ..++|++++.-||+||||++-++-..+.
T Consensus         3 ~~~vI~v~s~kGGvGKTt~a~~LA~~la   30 (245)
T 3ea0_A            3 AKRVFGFVSAKGGDGGSCIAANFAFALS   30 (245)
T ss_dssp             CCEEEEEEESSTTSSHHHHHHHHHHHHT
T ss_pred             CCeEEEEECCCCCcchHHHHHHHHHHHH
Confidence            4578999988789999999988755443

>2hf9_A Probable hydrogenase nickel incorporation protein HYPB; alpha and beta protein; HET: GSP; 1.90A {Methanocaldococcus jannaschii} PDB: 2hf8_A*

Probab=84.27  E-value=0.77  Score=41.68  Aligned_cols=26  Identities=8%  Similarity=0.019  Sum_probs=22.1

Q ss_pred             CceeeeeeeccCccchhHHHHHHHhhh
Q 011431          226 GYRSYRCWLLCPLFSELRVLTNDVHQL  252 (486)
Q Consensus       226 ~~~vi~I~GmGgGvGKTTLa~~vy~~~  252 (486)
                      ....|.++|-+ |+|||||+..+....
T Consensus        37 ~~~~i~ivG~~-gvGKTtl~~~l~~~~   62 (226)
T 2hf9_A           37 GVVAFDFMGAI-GSGKTLLIEKLIDNL   62 (226)
T ss_dssp             TCEEEEEEEST-TSSHHHHHHHHHHHH
T ss_pred             CCeEEEEEcCC-CCCHHHHHHHHHHHh
Confidence            56788899999 999999998887654

>1ly1_A Polynucleotide kinase; PNK, phosphatase, transferase; 2.00A {Enterobacteria phage T4} SCOP: c.37.1.1

Probab=84.21  E-value=0.47  Score=41.33  Aligned_cols=22  Identities=0%  Similarity=-0.398  Sum_probs=19.3

Q ss_pred             eeeeeeeccCccchhHHHHHHHh
Q 011431          228 RSYRCWLLCPLFSELRVLTNDVH  250 (486)
Q Consensus       228 ~vi~I~GmGgGvGKTTLa~~vy~  250 (486)
                      .+|.+.|+. |.||||+|+.+-.
T Consensus         3 ~~I~i~G~~-GsGKST~a~~L~~   24 (181)
T 1ly1_A            3 KIILTIGCP-GSGKSTWAREFIA   24 (181)
T ss_dssp             EEEEEECCT-TSSHHHHHHHHHH
T ss_pred             eEEEEecCC-CCCHHHHHHHHHh
Confidence            467899999 9999999999865

>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=84.13  E-value=0.92  Score=41.24  Aligned_cols=122  Identities=8%  Similarity=-0.057  Sum_probs=64.1

Q ss_pred             ceeeeeeeccCccchhHHHHHHHhhhccccccceEEEEeeeccHHHHHHHHhhhhccccccccccccccccccccccccc
Q 011431          227 YRSYRCWLLCPLFSELRVLTNDVHQLMDNYENSDVTLAKFEGEVKKLDQRLLRFLESVDKHVASYDRYGSASFEQPRPQT  306 (486)
Q Consensus       227 ~~vi~I~GmGgGvGKTTLa~~vy~~~~~~F~~~~~~~v~~~~~l~~lqk~ll~~L~~~d~~~~~~~~~g~~s~l~~~L~~  306 (486)
                      .+.+-|+|.. |.||||||+.+.+......  ..+..+.... +           ..           .....+ +.+ .
T Consensus        52 ~~~~ll~G~~-G~GKT~la~~l~~~~~~~~--~~~~~~~~~~-~-----------~~-----------~~~~~~-~~~-~  103 (242)
T 3bos_A           52 VQAIYLWGPV-KSGRTHLIHAACARANELE--RRSFYIPLGI-H-----------AS-----------ISTALL-EGL-E  103 (242)
T ss_dssp             CSEEEEECST-TSSHHHHHHHHHHHHHHTT--CCEEEEEGGG-G-----------GG-----------SCGGGG-TTG-G
T ss_pred             CCeEEEECCC-CCCHHHHHHHHHHHHHHcC--CeEEEEEHHH-H-----------HH-----------HHHHHH-Hhc-c
Confidence            4556699999 9999999999988664331  1112221110 0           00           000011 112 2


Q ss_pred             CcceeeceecccCHH--H--HHHHh---cCCCCCCCC-CEEEeeCCcccc-c----ccc--ccCCCceEecCCCCCchhh
Q 011431          307 TSAAHPYVEDVIDDA--Y--MEDIT---DDSSPSLNL-SRINSTSRFEQL-W----PET--ISATDTCTEDVTVDNSPSL  371 (486)
Q Consensus       307 tKr~LlVLDDVw~~~--~--~~~l~---~~~~~~~~G-SrIIiTTR~~~V-~----~~~--~~~~~~~y~v~~L~~~es~  371 (486)
                       +..+|++||+....  .  ...+.   ...  ...+ .++|+||+...- +    ...  .......+++.+++.++..
T Consensus       104 -~~~vliiDe~~~~~~~~~~~~~l~~~l~~~--~~~~~~~ii~~~~~~~~~~~~~~~~l~~r~~~~~~i~l~~~~~~~~~  180 (242)
T 3bos_A          104 -QFDLICIDDVDAVAGHPLWEEAIFDLYNRV--AEQKRGSLIVSASASPMEAGFVLPDLVSRMHWGLTYQLQPMMDDEKL  180 (242)
T ss_dssp             -GSSEEEEETGGGGTTCHHHHHHHHHHHHHH--HHHCSCEEEEEESSCTTTTTCCCHHHHHHHHHSEEEECCCCCGGGHH
T ss_pred             -CCCEEEEeccccccCCHHHHHHHHHHHHHH--HHcCCCeEEEEcCCCHHHHHHhhhhhhhHhhcCceEEeCCCCHHHHH
Confidence             45788999987421  1  22222   111  1113 257777764321 1    000  0011257899999999999


Q ss_pred             hhhcccCC
Q 011431          372 NLSSCNSS  379 (486)
Q Consensus       372 ~LF~~~a~  379 (486)
                      +++...+.
T Consensus       181 ~~l~~~~~  188 (242)
T 3bos_A          181 AALQRRAA  188 (242)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            99887653

>1zuh_A Shikimate kinase; alpha-beta protein, transferase; 1.80A {Helicobacter pylori} PDB: 1zui_A* 3hr7_A 3muf_A* 3mrs_A 3n2e_A*

Probab=84.12  E-value=0.54  Score=40.75  Aligned_cols=26  Identities=4%  Similarity=-0.262  Sum_probs=21.1

Q ss_pred             CceeeeeeeccCccchhHHHHHHHhhh
Q 011431          226 GYRSYRCWLLCPLFSELRVLTNDVHQL  252 (486)
Q Consensus       226 ~~~vi~I~GmGgGvGKTTLa~~vy~~~  252 (486)
                      ..++|+|.|+. |.||||+++.+-.++
T Consensus         6 ~~~~i~l~G~~-GsGKSTva~~La~~l   31 (168)
T 1zuh_A            6 HMQHLVLIGFM-GSGKSSLAQELGLAL   31 (168)
T ss_dssp             --CEEEEESCT-TSSHHHHHHHHHHHH
T ss_pred             ccceEEEECCC-CCCHHHHHHHHHHHh
Confidence            45788999999 999999999986654

>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=84.07  E-value=0.53  Score=41.04  Aligned_cols=25  Identities=20%  Similarity=0.050  Sum_probs=21.2

Q ss_pred             ceeeeeeeccCccchhHHHHHHHhhh
Q 011431          227 YRSYRCWLLCPLFSELRVLTNDVHQL  252 (486)
Q Consensus       227 ~~vi~I~GmGgGvGKTTLa~~vy~~~  252 (486)
                      -.+|+|.|+. |.||||+++.+....
T Consensus         8 g~~i~l~G~~-GsGKSTl~~~l~~~~   32 (175)
T 1knq_A            8 HHIYVLMGVS-GSGKSAVASEVAHQL   32 (175)
T ss_dssp             SEEEEEECST-TSCHHHHHHHHHHHH
T ss_pred             CcEEEEEcCC-CCCHHHHHHHHHHhh
Confidence            3578999999 999999999986654

>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=83.85  E-value=0.48  Score=42.50  Aligned_cols=22  Identities=5%  Similarity=-0.370  Sum_probs=19.4

Q ss_pred             eeeeeeeccCccchhHHHHHHHh
Q 011431          228 RSYRCWLLCPLFSELRVLTNDVH  250 (486)
Q Consensus       228 ~vi~I~GmGgGvGKTTLa~~vy~  250 (486)
                      .+|+|.|+. |.||||+++.+-.
T Consensus         2 ~~i~i~G~~-GsGKSTl~~~L~~   23 (204)
T 2if2_A            2 KRIGLTGNI-GCGKSTVAQMFRE   23 (204)
T ss_dssp             CEEEEEECT-TSSHHHHHHHHHH
T ss_pred             eEEEEECCC-CcCHHHHHHHHHH
Confidence            368999999 9999999999865

>2yvu_A Probable adenylyl-sulfate kinase; transferase, structural genomics, NPPSFA, national P protein structural and functional analyses; 2.10A {Aeropyrum pernix}

Probab=83.83  E-value=0.55  Score=41.52  Aligned_cols=26  Identities=12%  Similarity=-0.293  Sum_probs=22.1

Q ss_pred             ceeeeeeeccCccchhHHHHHHHhhhc
Q 011431          227 YRSYRCWLLCPLFSELRVLTNDVHQLM  253 (486)
Q Consensus       227 ~~vi~I~GmGgGvGKTTLa~~vy~~~~  253 (486)
                      -.+|.+.|+. |.||||+++.+...+.
T Consensus        13 ~~~i~l~G~~-GsGKsT~~~~L~~~l~   38 (186)
T 2yvu_A           13 GIVVWLTGLP-GSGKTTIATRLADLLQ   38 (186)
T ss_dssp             CEEEEEECCT-TSSHHHHHHHHHHHHH
T ss_pred             CcEEEEEcCC-CCCHHHHHHHHHHHHH
Confidence            4678899999 9999999999977653

>4dzz_A Plasmid partitioning protein PARF; deviant walker BOX, DNA segregation, unknown function; HET: ADP; 1.80A {Escherichia coli} PDB: 4e03_A* 4e07_A* 4e09_A*

Probab=83.69  E-value=0.49  Score=42.31  Aligned_cols=25  Identities=8%  Similarity=-0.165  Sum_probs=20.0

Q ss_pred             eeeeeeeccCccchhHHHHHHHhhh
Q 011431          228 RSYRCWLLCPLFSELRVLTNDVHQL  252 (486)
Q Consensus       228 ~vi~I~GmGgGvGKTTLa~~vy~~~  252 (486)
                      ++|++++.-||+||||++-++-..+
T Consensus         2 ~vi~v~s~kgG~GKTt~a~~la~~l   26 (206)
T 4dzz_A            2 KVISFLNPKGGSGKTTAVINIATAL   26 (206)
T ss_dssp             EEEEECCSSTTSSHHHHHHHHHHHH
T ss_pred             eEEEEEeCCCCccHHHHHHHHHHHH
Confidence            5788887777999999998775544

>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=83.42  E-value=0.56  Score=41.28  Aligned_cols=25  Identities=4%  Similarity=-0.226  Sum_probs=21.1

Q ss_pred             eeeeeeeccCccchhHHHHHHHhhhc
Q 011431          228 RSYRCWLLCPLFSELRVLTNDVHQLM  253 (486)
Q Consensus       228 ~vi~I~GmGgGvGKTTLa~~vy~~~~  253 (486)
                      .+|.|.|+. |.||||+++.+-..+.
T Consensus         4 ~~I~i~G~~-GsGKsT~~~~L~~~l~   28 (192)
T 1kht_A            4 KVVVVTGVP-GVGSTTSSQLAMDNLR   28 (192)
T ss_dssp             CEEEEECCT-TSCHHHHHHHHHHHHH
T ss_pred             eEEEEECCC-CCCHHHHHHHHHHHHH
Confidence            467899999 9999999999877553

>3cwq_A Para family chromosome partitioning protein; alpha-beta protein, structural genomics, PSI-2, protein STRU initiative; HET: ADP; 2.47A {Synechocystis SP}

Probab=83.34  E-value=0.54  Score=42.76  Aligned_cols=26  Identities=4%  Similarity=-0.265  Sum_probs=20.2

Q ss_pred             eeeeeeeccCccchhHHHHHHHhhhc
Q 011431          228 RSYRCWLLCPLFSELRVLTNDVHQLM  253 (486)
Q Consensus       228 ~vi~I~GmGgGvGKTTLa~~vy~~~~  253 (486)
                      ++|++++.-||+||||++-++-..+.
T Consensus         1 kvI~v~s~KGGvGKTT~a~~LA~~la   26 (209)
T 3cwq_A            1 MIITVASFKGGVGKTTTAVHLSAYLA   26 (209)
T ss_dssp             CEEEEEESSTTSSHHHHHHHHHHHHH
T ss_pred             CEEEEEcCCCCCcHHHHHHHHHHHHH
Confidence            36788877779999999988765544

>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=83.33  E-value=0.53  Score=41.68  Aligned_cols=22  Identities=5%  Similarity=-0.233  Sum_probs=19.3

Q ss_pred             eeeeeeeccCccchhHHHHHHHh
Q 011431          228 RSYRCWLLCPLFSELRVLTNDVH  250 (486)
Q Consensus       228 ~vi~I~GmGgGvGKTTLa~~vy~  250 (486)
                      .++++.|.. |.|||||++.+..
T Consensus         3 ~ii~l~G~~-GaGKSTl~~~L~~   24 (189)
T 2bdt_A            3 KLYIITGPA-GVGKSTTCKRLAA   24 (189)
T ss_dssp             EEEEEECST-TSSHHHHHHHHHH
T ss_pred             eEEEEECCC-CCcHHHHHHHHhc
Confidence            467899999 9999999999965

>2qor_A Guanylate kinase; phosphotransferase, purine metabolism, structural genomics, structural genomics of pathogenic protozoa consortium; HET: 5GP POP; 1.80A {Plasmodium vivax}

Probab=83.24  E-value=0.52  Score=42.51  Aligned_cols=25  Identities=0%  Similarity=-0.133  Sum_probs=21.4

Q ss_pred             ceeeeeeeccCccchhHHHHHHHhhh
Q 011431          227 YRSYRCWLLCPLFSELRVLTNDVHQL  252 (486)
Q Consensus       227 ~~vi~I~GmGgGvGKTTLa~~vy~~~  252 (486)
                      -++|.+.|+. |.|||||++.+-...
T Consensus        12 ~~~i~l~G~s-GsGKsTl~~~L~~~~   36 (204)
T 2qor_A           12 IPPLVVCGPS-GVGKGTLIKKVLSEF   36 (204)
T ss_dssp             CCCEEEECCT-TSCHHHHHHHHHHHC
T ss_pred             CCEEEEECCC-CCCHHHHHHHHHHhC
Confidence            4578899999 999999999987665

>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=83.19  E-value=0.6  Score=42.04  Aligned_cols=26  Identities=4%  Similarity=-0.277  Sum_probs=21.9

Q ss_pred             CCceeeeeeeccCccchhHHHHHHHhh
Q 011431          225 EGYRSYRCWLLCPLFSELRVLTNDVHQ  251 (486)
Q Consensus       225 ~~~~vi~I~GmGgGvGKTTLa~~vy~~  251 (486)
                      ....+|+|.|.. |.||||+++.+-..
T Consensus        19 ~~~~~i~i~G~~-GsGKSTl~~~L~~~   44 (207)
T 2qt1_A           19 SKTFIIGISGVT-NSGKTTLAKNLQKH   44 (207)
T ss_dssp             CCCEEEEEEEST-TSSHHHHHHHHHTT
T ss_pred             CCCeEEEEECCC-CCCHHHHHHHHHHh
Confidence            345789999999 99999999988654

>4eun_A Thermoresistant glucokinase; putative sugar kinase, enzyme function initiative, EFI, STRU genomics, transferase; 1.60A {Janibacter SP}

Probab=83.15  E-value=0.57  Score=42.05  Aligned_cols=25  Identities=4%  Similarity=-0.145  Sum_probs=21.6

Q ss_pred             ceeeeeeeccCccchhHHHHHHHhhh
Q 011431          227 YRSYRCWLLCPLFSELRVLTNDVHQL  252 (486)
Q Consensus       227 ~~vi~I~GmGgGvGKTTLa~~vy~~~  252 (486)
                      -.+|+|.|.. |.|||||++.+...+
T Consensus        29 g~~i~l~G~~-GsGKSTl~~~L~~~~   53 (200)
T 4eun_A           29 TRHVVVMGVS-GSGKTTIAHGVADET   53 (200)
T ss_dssp             CCEEEEECCT-TSCHHHHHHHHHHHH
T ss_pred             CcEEEEECCC-CCCHHHHHHHHHHhh
Confidence            4688999999 999999999997654

>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=83.01  E-value=0.55  Score=45.87  Aligned_cols=25  Identities=8%  Similarity=-0.005  Sum_probs=20.1

Q ss_pred             CCceeeeeeeccCccchhHHHHHHHh
Q 011431          225 EGYRSYRCWLLCPLFSELRVLTNDVH  250 (486)
Q Consensus       225 ~~~~vi~I~GmGgGvGKTTLa~~vy~  250 (486)
                      .+.++|+|.|=| |+||||.+-++=-
T Consensus        46 ~~aKVIAIaGKG-GVGKTTtavNLA~   70 (314)
T 3fwy_A           46 TGAKVFAVYGKG-GIGKSTTSSNLSA   70 (314)
T ss_dssp             -CCEEEEEECST-TSSHHHHHHHHHH
T ss_pred             CCceEEEEECCC-ccCHHHHHHHHHH
Confidence            478999999977 9999998776533

>2x3d_A SSO6206; unknown function; 2.70A {Sulfolobus solfataricus}

Probab=83.00  E-value=1.5  Score=34.32  Aligned_cols=58  Identities=10%  Similarity=0.198  Sum_probs=42.6

Q ss_pred             eeeeec--cccccchhhHHHHHHHhhcCCCeeEEEe-----ecCCC--eEEEEeeccCHHHHHHHhhccc
Q 011431          384 EAIFKL--EIHHDNLEAWRAAFSIVSEFIGITKISF-----DFKVK--KMTVVGDNFDVLSAGTKLNGLC  444 (486)
Q Consensus       384 ~~v~kv--~~~~~~~~~~~~a~k~~~~~~Gv~~v~~-----d~~~~--~~~V~G~~~d~~~~~~~l~k~~  444 (486)
                      .+||-|  .+|....-   ..-+.+++++||+.|.+     |.+..  ++|+.|+++|-..+.+.+.+.|
T Consensus         6 RlVLDVlKP~h~P~iv---d~A~~l~~~~gV~gVnItv~EvD~eTe~lkItIEG~~idfd~I~~~IE~~G   72 (96)
T 2x3d_A            6 RLVLDVLKPIRGTSIV---DLAERISKLDGVEGVNISVTDMDVETMGLMIIIEGTSLNFDDIRKMLEEEG   72 (96)
T ss_dssp             EEEEEEEEESSSSCHH---HHHHHHHTSTTEEEEEEEEEEECSSEEEEEEEEEESSCCHHHHHHHHHHTT
T ss_pred             EEEEEcccCCCCCCHH---HHHHHHHhCCCcceEEEEEEEeeccccEEEEEEEecCCCHHHHHHHHHHcC
Confidence            444444  34555553   44566789999999876     44443  7999999999999999999977

>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=82.91  E-value=0.51  Score=42.49  Aligned_cols=23  Identities=0%  Similarity=-0.321  Sum_probs=20.1

Q ss_pred             eeeeeeccCccchhHHHHHHHhhh
Q 011431          229 SYRCWLLCPLFSELRVLTNDVHQL  252 (486)
Q Consensus       229 vi~I~GmGgGvGKTTLa~~vy~~~  252 (486)
                      +|.|.|.. |.||||+++.+...+
T Consensus         2 ~I~i~G~~-GsGKsTl~~~L~~~l   24 (214)
T 1gtv_A            2 LIAIEGVD-GAGKRTLVEKLSGAF   24 (214)
T ss_dssp             EEEEEEEE-EEEHHHHHHHHHHHH
T ss_pred             EEEEEcCC-CCCHHHHHHHHHHHH
Confidence            67899999 999999999987655

>2wsm_A Hydrogenase expression/formation protein (HYPB); metal binding protein; 2.30A {Archaeoglobus fulgidus}

Probab=82.84  E-value=0.93  Score=40.94  Aligned_cols=26  Identities=4%  Similarity=-0.027  Sum_probs=22.4

Q ss_pred             CceeeeeeeccCccchhHHHHHHHhhh
Q 011431          226 GYRSYRCWLLCPLFSELRVLTNDVHQL  252 (486)
Q Consensus       226 ~~~vi~I~GmGgGvGKTTLa~~vy~~~  252 (486)
                      ...+|.++|-+ |.|||||+..+....
T Consensus        29 ~~~~i~i~G~~-g~GKTTl~~~l~~~~   54 (221)
T 2wsm_A           29 GTVAVNIMGAI-GSGKTLLIERTIERI   54 (221)
T ss_dssp             TCEEEEEEECT-TSCHHHHHHHHHHHH
T ss_pred             CceEEEEEcCC-CCCHHHHHHHHHHHh
Confidence            56789999999 999999998887654

>2j41_A Guanylate kinase; GMP, GMK, transferase, ATP-binding, nucleotide- binding; HET: 5GP; 1.9A {Staphylococcus aureus}

Probab=82.81  E-value=0.59  Score=41.77  Aligned_cols=24  Identities=4%  Similarity=-0.396  Sum_probs=21.0

Q ss_pred             eeeeeeeccCccchhHHHHHHHhhh
Q 011431          228 RSYRCWLLCPLFSELRVLTNDVHQL  252 (486)
Q Consensus       228 ~vi~I~GmGgGvGKTTLa~~vy~~~  252 (486)
                      .+++|.|.. |.|||||++.+....
T Consensus         7 ~~i~l~G~~-GsGKSTl~~~L~~~~   30 (207)
T 2j41_A            7 LLIVLSGPS-GVGKGTVRKRIFEDP   30 (207)
T ss_dssp             CEEEEECST-TSCHHHHHHHHHHCT
T ss_pred             CEEEEECCC-CCCHHHHHHHHHHhh
Confidence            578999999 999999999987654

>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=82.80  E-value=0.64  Score=41.39  Aligned_cols=26  Identities=4%  Similarity=-0.500  Sum_probs=22.1

Q ss_pred             CCceeeeeeeccCccchhHHHHHHHhh
Q 011431          225 EGYRSYRCWLLCPLFSELRVLTNDVHQ  251 (486)
Q Consensus       225 ~~~~vi~I~GmGgGvGKTTLa~~vy~~  251 (486)
                      ....+|+|.|+. |.||||+++.+-..
T Consensus         6 ~~~~~I~i~G~~-GsGKST~~~~La~~   31 (203)
T 1uf9_A            6 KHPIIIGITGNI-GSGKSTVAALLRSW   31 (203)
T ss_dssp             CCCEEEEEEECT-TSCHHHHHHHHHHT
T ss_pred             cCceEEEEECCC-CCCHHHHHHHHHHC
Confidence            356789999999 99999999988554

>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=82.63  E-value=0.61  Score=41.03  Aligned_cols=24  Identities=8%  Similarity=-0.291  Sum_probs=20.2

Q ss_pred             eeeeeeeccCccchhHHHHHHHhhh
Q 011431          228 RSYRCWLLCPLFSELRVLTNDVHQL  252 (486)
Q Consensus       228 ~vi~I~GmGgGvGKTTLa~~vy~~~  252 (486)
                      .+|.|.|+. |.||||+|+.+-..+
T Consensus         3 ~~I~l~G~~-GsGKsT~a~~La~~l   26 (184)
T 2iyv_A            3 PKAVLVGLP-GSGKSTIGRRLAKAL   26 (184)
T ss_dssp             CSEEEECST-TSSHHHHHHHHHHHH
T ss_pred             CeEEEECCC-CCCHHHHHHHHHHHc
Confidence            357899999 999999999986654

>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=82.57  E-value=1.8  Score=44.91  Aligned_cols=26  Identities=4%  Similarity=-0.258  Sum_probs=22.1

Q ss_pred             ceeeeeeeccCccchhHHHHHHHhhhc
Q 011431          227 YRSYRCWLLCPLFSELRVLTNDVHQLM  253 (486)
Q Consensus       227 ~~vi~I~GmGgGvGKTTLa~~vy~~~~  253 (486)
                      -.+++|+|.. |.|||||++.+...+.
T Consensus       293 GeVI~LVGpN-GSGKTTLl~~LAgll~  318 (503)
T 2yhs_A          293 PFVILMVGVN-GVGKTTTIGKLARQFE  318 (503)
T ss_dssp             TEEEEEECCT-TSSHHHHHHHHHHHHH
T ss_pred             CeEEEEECCC-cccHHHHHHHHHHHhh
Confidence            4689999999 9999999999876543

>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=82.44  E-value=0.66  Score=41.63  Aligned_cols=27  Identities=7%  Similarity=-0.301  Sum_probs=22.6

Q ss_pred             CceeeeeeeccCccchhHHHHHHHhhhc
Q 011431          226 GYRSYRCWLLCPLFSELRVLTNDVHQLM  253 (486)
Q Consensus       226 ~~~vi~I~GmGgGvGKTTLa~~vy~~~~  253 (486)
                      .-.+|.|.|+. |-|||||++.+-..+.
T Consensus        24 ~g~~i~l~G~s-GsGKSTl~~~La~~l~   50 (200)
T 3uie_A           24 KGCVIWVTGLS-GSGKSTLACALNQMLY   50 (200)
T ss_dssp             CCEEEEEECST-TSSHHHHHHHHHHHHH
T ss_pred             CCeEEEEECCC-CCCHHHHHHHHHHHHH
Confidence            34688999999 9999999999976653

>1ukz_A Uridylate kinase; transferase; HET: ADP AMP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1uky_A*

Probab=82.35  E-value=0.78  Score=41.02  Aligned_cols=27  Identities=4%  Similarity=-0.344  Sum_probs=22.6

Q ss_pred             CCceeeeeeeccCccchhHHHHHHHhhh
Q 011431          225 EGYRSYRCWLLCPLFSELRVLTNDVHQL  252 (486)
Q Consensus       225 ~~~~vi~I~GmGgGvGKTTLa~~vy~~~  252 (486)
                      ....+|.|.|+. |.||||+++.+.+..
T Consensus        13 ~~~~~I~l~G~~-GsGKsT~~~~L~~~~   39 (203)
T 1ukz_A           13 DQVSVIFVLGGP-GAGKGTQCEKLVKDY   39 (203)
T ss_dssp             TTCEEEEEECST-TSSHHHHHHHHHHHS
T ss_pred             CCCcEEEEECCC-CCCHHHHHHHHHHHc
Confidence            356789999999 999999999887654

>1via_A Shikimate kinase; structural genomics, transferase; HET: MSE; 1.57A {Campylobacter jejuni} SCOP: c.37.1.2

Probab=82.30  E-value=0.64  Score=40.60  Aligned_cols=23  Identities=4%  Similarity=-0.198  Sum_probs=19.9

Q ss_pred             eeeeeeccCccchhHHHHHHHhhh
Q 011431          229 SYRCWLLCPLFSELRVLTNDVHQL  252 (486)
Q Consensus       229 vi~I~GmGgGvGKTTLa~~vy~~~  252 (486)
                      .|.|.|+. |.||||+++.+-..+
T Consensus         6 ~i~i~G~~-GsGKsTla~~La~~l   28 (175)
T 1via_A            6 NIVFIGFM-GSGKSTLARALAKDL   28 (175)
T ss_dssp             CEEEECCT-TSCHHHHHHHHHHHH
T ss_pred             EEEEEcCC-CCCHHHHHHHHHHHc
Confidence            57789999 999999999987654

>3tr0_A Guanylate kinase, GMP kinase; purines, pyrimidines, nucleosides, nucleotides, transferase; HET: 5GP; 1.85A {Coxiella burnetii}

Probab=82.13  E-value=0.6  Score=41.73  Aligned_cols=24  Identities=8%  Similarity=-0.089  Sum_probs=20.7

Q ss_pred             eeeeeeeccCccchhHHHHHHHhhh
Q 011431          228 RSYRCWLLCPLFSELRVLTNDVHQL  252 (486)
Q Consensus       228 ~vi~I~GmGgGvGKTTLa~~vy~~~  252 (486)
                      .+++|.|.. |.|||||++.+....
T Consensus         8 ~ii~l~Gp~-GsGKSTl~~~L~~~~   31 (205)
T 3tr0_A            8 NLFIISAPS-GAGKTSLVRALVKAL   31 (205)
T ss_dssp             CEEEEECCT-TSCHHHHHHHHHHHS
T ss_pred             cEEEEECcC-CCCHHHHHHHHHhhC
Confidence            578999999 999999999987653

>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=82.11  E-value=0.67  Score=41.11  Aligned_cols=24  Identities=8%  Similarity=-0.213  Sum_probs=20.8

Q ss_pred             eeeeeeccCccchhHHHHHHHhhhc
Q 011431          229 SYRCWLLCPLFSELRVLTNDVHQLM  253 (486)
Q Consensus       229 vi~I~GmGgGvGKTTLa~~vy~~~~  253 (486)
                      .++|+|-- |.|||||++.+...+.
T Consensus         2 ~i~l~G~n-GsGKTTLl~~l~g~l~   25 (178)
T 1ye8_A            2 KIIITGEP-GVGKTTLVKKIVERLG   25 (178)
T ss_dssp             EEEEECCT-TSSHHHHHHHHHHHHG
T ss_pred             EEEEECCC-CCCHHHHHHHHHHHhC
Confidence            57899999 9999999999987654

>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=82.03  E-value=0.78  Score=40.43  Aligned_cols=24  Identities=4%  Similarity=-0.327  Sum_probs=20.7

Q ss_pred             eeeeeeeccCccchhHHHHHHHhhh
Q 011431          228 RSYRCWLLCPLFSELRVLTNDVHQL  252 (486)
Q Consensus       228 ~vi~I~GmGgGvGKTTLa~~vy~~~  252 (486)
                      .+|-+.|+. |.||||+++.+-..+
T Consensus         6 ~~I~l~G~~-GsGKST~~~~L~~~l   29 (193)
T 2rhm_A            6 ALIIVTGHP-ATGKTTLSQALATGL   29 (193)
T ss_dssp             EEEEEEEST-TSSHHHHHHHHHHHH
T ss_pred             eEEEEECCC-CCCHHHHHHHHHHHc
Confidence            577899999 999999999986654

>3asz_A Uridine kinase; cytidine phosphorylation, transferase; HET: C5P; 2.25A {Thermus thermophilus} PDB: 3asy_A*

Probab=81.84  E-value=0.69  Score=41.65  Aligned_cols=26  Identities=4%  Similarity=-0.342  Sum_probs=22.0

Q ss_pred             CceeeeeeeccCccchhHHHHHHHhhh
Q 011431          226 GYRSYRCWLLCPLFSELRVLTNDVHQL  252 (486)
Q Consensus       226 ~~~vi~I~GmGgGvGKTTLa~~vy~~~  252 (486)
                      .-.+|+|.|.. |-|||||++.+...+
T Consensus         5 ~~~~i~i~G~~-GsGKSTl~~~l~~~~   30 (211)
T 3asz_A            5 KPFVIGIAGGT-ASGKTTLAQALARTL   30 (211)
T ss_dssp             CCEEEEEEEST-TSSHHHHHHHHHHHH
T ss_pred             CcEEEEEECCC-CCCHHHHHHHHHHHh
Confidence            34689999999 999999999987654

>3k9g_A PF-32 protein; ssgcid, SBRI, decode biostructures, UW, NIH, niaid, borellia burgdorferi, plasmid partition protein, iodide; 2.25A {Borrelia burgdorferi} PDB: 3k9h_A

Probab=81.84  E-value=0.65  Score=43.65  Aligned_cols=29  Identities=3%  Similarity=-0.286  Sum_probs=23.4

Q ss_pred             CCceeeeeeeccCccchhHHHHHHHhhhc
Q 011431          225 EGYRSYRCWLLCPLFSELRVLTNDVHQLM  253 (486)
Q Consensus       225 ~~~~vi~I~GmGgGvGKTTLa~~vy~~~~  253 (486)
                      ...++|.+++.-||+||||+|-++=..+.
T Consensus        25 ~~~~vI~v~s~kGGvGKTT~a~~LA~~la   53 (267)
T 3k9g_A           25 KKPKIITIASIKGGVGKSTSAIILATLLS   53 (267)
T ss_dssp             -CCEEEEECCSSSSSCHHHHHHHHHHHHT
T ss_pred             CCCeEEEEEeCCCCchHHHHHHHHHHHHH
Confidence            46789999988889999999988765554

>3q9l_A Septum site-determining protein MIND; ATPase, bacterial cell division inhibitor, MINC, MINE, cell hydrolase; HET: ATP; 2.34A {Escherichia coli} PDB: 3r9i_A* 3r9j_A*

Probab=81.58  E-value=0.68  Score=43.10  Aligned_cols=26  Identities=8%  Similarity=-0.290  Sum_probs=20.9

Q ss_pred             eeeeeeeccCccchhHHHHHHHhhhc
Q 011431          228 RSYRCWLLCPLFSELRVLTNDVHQLM  253 (486)
Q Consensus       228 ~vi~I~GmGgGvGKTTLa~~vy~~~~  253 (486)
                      ++|++++..||+||||+|-++-..+.
T Consensus         3 ~vi~v~s~kgGvGKTt~a~~LA~~la   28 (260)
T 3q9l_A            3 RIIVVTSGKGGVGKTTSSAAIATGLA   28 (260)
T ss_dssp             EEEEEECSSTTSSHHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCcHHHHHHHHHHHHH
Confidence            57889888889999999987755443

>2pt5_A Shikimate kinase, SK; aromatic amino acid biosynthesis, P-loop kinase, SHI kinase, shikimate pathway; 2.10A {Aquifex aeolicus}

Probab=81.58  E-value=0.78  Score=39.54  Aligned_cols=23  Identities=9%  Similarity=-0.243  Sum_probs=19.8

Q ss_pred             eeeeeeccCccchhHHHHHHHhhh
Q 011431          229 SYRCWLLCPLFSELRVLTNDVHQL  252 (486)
Q Consensus       229 vi~I~GmGgGvGKTTLa~~vy~~~  252 (486)
                      .|.|.|+. |.||||+++.+-+.+
T Consensus         2 ~I~l~G~~-GsGKsT~a~~L~~~l   24 (168)
T 2pt5_A            2 RIYLIGFM-CSGKSTVGSLLSRSL   24 (168)
T ss_dssp             EEEEESCT-TSCHHHHHHHHHHHH
T ss_pred             eEEEECCC-CCCHHHHHHHHHHHh
Confidence            57889999 999999999986654

>2raq_A Conserved protein MTH889; alpha-beta protein, structural genomics, PSI-2, protein STRU initiative; 3.11A {Methanothermobacter thermautotrophicusorganism_taxid} SCOP: d.58.61.1

Probab=81.43  E-value=1.6  Score=34.23  Aligned_cols=59  Identities=15%  Similarity=0.271  Sum_probs=42.7

Q ss_pred             eeeeeecc-ccccchhhHHHHHHHhhcCCCeeEEEe-----ecCCC--eEEEEeeccCHHHHHHHhhccc
Q 011431          383 KEAIFKLE-IHHDNLEAWRAAFSIVSEFIGITKISF-----DFKVK--KMTVVGDNFDVLSAGTKLNGLC  444 (486)
Q Consensus       383 ~~~v~kv~-~~~~~~~~~~~a~k~~~~~~Gv~~v~~-----d~~~~--~~~V~G~~~d~~~~~~~l~k~~  444 (486)
                      ..+||-|. .|....-   ..-+.+++++||+.|.+     |.+..  ++|+.|+++|-..+.+.+.+.|
T Consensus         7 rRlVLDVlKPh~p~i~---d~A~~l~~~~gV~gVnItv~EvD~eTe~lkitiEG~~id~d~I~~~IE~~G   73 (97)
T 2raq_A            7 IRIVLDILKPHEPIIP---EYAKYLSELRGVEGVNITLMEIDKETENIKVTIQGNDLDFDEITRAIESYG   73 (97)
T ss_dssp             EEEEEEEECCSCSCHH---HHHHHHHHSTTCCEEEEEEEEECSSCEEEEEEEECSSCCHHHHHHHHHHTT
T ss_pred             eEEEEEecCCCCCCHH---HHHHHHHhCCCcceEEEEEEEeeccccEEEEEEEecCCCHHHHHHHHHHcC
Confidence            44555553 2444443   44456778999988876     55544  7999999999999999999977

>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic; photosynthesis, rubisco activase, AAA+ protein; 2.95A {Nicotiana tabacum} PDB: 3zw6_A

Probab=81.42  E-value=0.82  Score=43.93  Aligned_cols=30  Identities=7%  Similarity=-0.343  Sum_probs=23.9

Q ss_pred             CceeeeeeeccCccchhHHHHHHHhhhcccc
Q 011431          226 GYRSYRCWLLCPLFSELRVLTNDVHQLMDNY  256 (486)
Q Consensus       226 ~~~vi~I~GmGgGvGKTTLa~~vy~~~~~~F  256 (486)
                      ..+.+-++|.. |.|||+||+++.+.....|
T Consensus        35 ~p~~lLl~Gpp-GtGKT~la~aiA~~l~~~~   64 (293)
T 3t15_A           35 VPLILGIWGGK-GQGKSFQCELVFRKMGINP   64 (293)
T ss_dssp             CCSEEEEEECT-TSCHHHHHHHHHHHHTCCC
T ss_pred             CCeEEEEECCC-CCCHHHHHHHHHHHhCCCE
Confidence            44566789999 9999999999998874433

>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=81.42  E-value=0.71  Score=39.96  Aligned_cols=24  Identities=8%  Similarity=-0.309  Sum_probs=20.2

Q ss_pred             eeeeeeeccCccchhHHHHHHHhhh
Q 011431          228 RSYRCWLLCPLFSELRVLTNDVHQL  252 (486)
Q Consensus       228 ~vi~I~GmGgGvGKTTLa~~vy~~~  252 (486)
                      ++|.|.|+. |.||||+++.+-..+
T Consensus         3 ~~I~l~G~~-GsGKsT~a~~La~~l   26 (173)
T 1e6c_A            3 EPIFMVGAR-GCGMTTVGRELARAL   26 (173)
T ss_dssp             CCEEEESCT-TSSHHHHHHHHHHHH
T ss_pred             ceEEEECCC-CCCHHHHHHHHHHHh
Confidence            367899999 999999999986654

>2c95_A Adenylate kinase 1; transferase, AP4A, nucleotide kinase, transferase ATP-bindi; HET: B4P; 1.71A {Homo sapiens} PDB: 1z83_A* 3adk_A

Probab=81.37  E-value=0.79  Score=40.51  Aligned_cols=25  Identities=4%  Similarity=-0.423  Sum_probs=21.3

Q ss_pred             ceeeeeeeccCccchhHHHHHHHhhh
Q 011431          227 YRSYRCWLLCPLFSELRVLTNDVHQL  252 (486)
Q Consensus       227 ~~vi~I~GmGgGvGKTTLa~~vy~~~  252 (486)
                      ..+|.+.|+. |.||||+++.+-+.+
T Consensus         9 ~~~I~l~G~~-GsGKsT~~~~La~~l   33 (196)
T 2c95_A            9 TNIIFVVGGP-GSGKGTQCEKIVQKY   33 (196)
T ss_dssp             SCEEEEEECT-TSSHHHHHHHHHHHH
T ss_pred             CCEEEEECCC-CCCHHHHHHHHHHHh
Confidence            3578899999 999999999986654

>2pbr_A DTMP kinase, thymidylate kinase; transferase, nucleotide biosynthesis, TMP-binding, A binding, structural genomics, NPPSFA; 1.96A {Aquifex aeolicus}

Probab=81.22  E-value=0.75  Score=40.52  Aligned_cols=23  Identities=4%  Similarity=-0.353  Sum_probs=20.0

Q ss_pred             eeeeeeccCccchhHHHHHHHhhh
Q 011431          229 SYRCWLLCPLFSELRVLTNDVHQL  252 (486)
Q Consensus       229 vi~I~GmGgGvGKTTLa~~vy~~~  252 (486)
                      +|++.|+- |.||||+++.+-+.+
T Consensus         2 ~I~l~G~~-GsGKsT~~~~L~~~l   24 (195)
T 2pbr_A            2 LIAFEGID-GSGKTTQAKKLYEYL   24 (195)
T ss_dssp             EEEEECST-TSCHHHHHHHHHHHH
T ss_pred             EEEEECCC-CCCHHHHHHHHHHHH
Confidence            57889999 999999999987755

>2bwj_A Adenylate kinase 5; phosphoryl transfer reaction, transferase; HET: AMP; 2.3A {Homo sapiens}

Probab=81.22  E-value=0.81  Score=40.57  Aligned_cols=24  Identities=4%  Similarity=-0.399  Sum_probs=20.9

Q ss_pred             eeeeeeeccCccchhHHHHHHHhhh
Q 011431          228 RSYRCWLLCPLFSELRVLTNDVHQL  252 (486)
Q Consensus       228 ~vi~I~GmGgGvGKTTLa~~vy~~~  252 (486)
                      .+|.+.|+. |.||||+++.+-..+
T Consensus        13 ~~I~l~G~~-GsGKsT~a~~L~~~l   36 (199)
T 2bwj_A           13 KIIFIIGGP-GSGKGTQCEKLVEKY   36 (199)
T ss_dssp             CEEEEEECT-TSSHHHHHHHHHHHH
T ss_pred             CEEEEECCC-CCCHHHHHHHHHHHh
Confidence            578899999 999999999987654

>1tev_A UMP-CMP kinase; ploop, NMP binding region, LID region, conformational changes, transferase; 2.10A {Homo sapiens} SCOP: c.37.1.1

Probab=81.17  E-value=0.83  Score=40.21  Aligned_cols=24  Identities=4%  Similarity=-0.418  Sum_probs=20.3

Q ss_pred             eeeeeeeccCccchhHHHHHHHhhh
Q 011431          228 RSYRCWLLCPLFSELRVLTNDVHQL  252 (486)
Q Consensus       228 ~vi~I~GmGgGvGKTTLa~~vy~~~  252 (486)
                      .+|.+.|+. |.||||+|+.+-..+
T Consensus         4 ~~I~l~G~~-GsGKsT~a~~L~~~~   27 (196)
T 1tev_A            4 LVVFVLGGP-GAGKGTQCARIVEKY   27 (196)
T ss_dssp             EEEEEECCT-TSSHHHHHHHHHHHH
T ss_pred             eEEEEECCC-CCCHHHHHHHHHHHh
Confidence            468899999 999999999886654

>2vli_A Antibiotic resistance protein; transferase, tunicamycin, phosphotransferase; 1.95A {Deinococcus radiodurans}

Probab=81.08  E-value=0.68  Score=40.52  Aligned_cols=24  Identities=4%  Similarity=-0.298  Sum_probs=16.5

Q ss_pred             eeeeeeeccCccchhHHHHHHHhhh
Q 011431          228 RSYRCWLLCPLFSELRVLTNDVHQL  252 (486)
Q Consensus       228 ~vi~I~GmGgGvGKTTLa~~vy~~~  252 (486)
                      .+|.+.|+. |.||||+|+.+-..+
T Consensus         6 ~~I~l~G~~-GsGKST~a~~La~~l   29 (183)
T 2vli_A            6 PIIWINGPF-GVGKTHTAHTLHERL   29 (183)
T ss_dssp             CEEEEECCC-----CHHHHHHHHHS
T ss_pred             eEEEEECCC-CCCHHHHHHHHHHhc
Confidence            467899999 999999999986654

>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=81.01  E-value=0.67  Score=44.80  Aligned_cols=26  Identities=4%  Similarity=-0.253  Sum_probs=21.7

Q ss_pred             CceeeeeeeccCccchhHHHHHHHhhh
Q 011431          226 GYRSYRCWLLCPLFSELRVLTNDVHQL  252 (486)
Q Consensus       226 ~~~vi~I~GmGgGvGKTTLa~~vy~~~  252 (486)
                      .-.+++++|.+ |.||||++..+-..+
T Consensus       104 ~g~vi~lvG~~-GsGKTTl~~~LA~~l  129 (296)
T 2px0_A          104 HSKYIVLFGST-GAGKTTTLAKLAAIS  129 (296)
T ss_dssp             CSSEEEEEEST-TSSHHHHHHHHHHHH
T ss_pred             CCcEEEEECCC-CCCHHHHHHHHHHHH
Confidence            34689999999 999999998886544

>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=81.00  E-value=0.75  Score=41.84  Aligned_cols=24  Identities=4%  Similarity=-0.330  Sum_probs=20.5

Q ss_pred             eeeeeeeccCccchhHHHHHHHhhh
Q 011431          228 RSYRCWLLCPLFSELRVLTNDVHQL  252 (486)
Q Consensus       228 ~vi~I~GmGgGvGKTTLa~~vy~~~  252 (486)
                      .+|+|.|.. |.||||+++.+-...
T Consensus         6 ~~i~i~G~~-GsGKSTl~~~L~~~~   29 (227)
T 1cke_A            6 PVITIDGPS-GAGKGTLCKAMAEAL   29 (227)
T ss_dssp             CEEEEECCT-TSSHHHHHHHHHHHH
T ss_pred             eEEEEECCC-CCCHHHHHHHHHHHh
Confidence            478999999 999999999886543

>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=80.99  E-value=1.2  Score=44.18  Aligned_cols=29  Identities=3%  Similarity=-0.194  Sum_probs=23.9

Q ss_pred             cCCCceeeeeeeccCccchhHHHHHHHhhh
Q 011431          223 NAEGYRSYRCWLLCPLFSELRVLTNDVHQL  252 (486)
Q Consensus       223 ~~~~~~vi~I~GmGgGvGKTTLa~~vy~~~  252 (486)
                      ......+|+|.|.+ |.|||||+.++-..+
T Consensus        75 ~~~~~~~I~i~G~~-G~GKSTl~~~L~~~l  103 (355)
T 3p32_A           75 DSGNAHRVGITGVP-GVGKSTAIEALGMHL  103 (355)
T ss_dssp             GCCCSEEEEEECCT-TSSHHHHHHHHHHHH
T ss_pred             hcCCceEEEEECCC-CCCHHHHHHHHHHHH
Confidence            34567899999999 999999998886544

>2p5t_B PEZT; postsegregational killing system, phosphoryltransferase, HEL helix motif, transcription regulator; 3.20A {Streptococcus pneumoniae}

Probab=80.88  E-value=1  Score=42.15  Aligned_cols=26  Identities=0%  Similarity=-0.314  Sum_probs=21.7

Q ss_pred             CceeeeeeeccCccchhHHHHHHHhhh
Q 011431          226 GYRSYRCWLLCPLFSELRVLTNDVHQL  252 (486)
Q Consensus       226 ~~~vi~I~GmGgGvGKTTLa~~vy~~~  252 (486)
                      ...+|.+.|+. |.||||+|+.+-..+
T Consensus        31 ~~~~i~l~G~~-GsGKSTla~~L~~~l   56 (253)
T 2p5t_B           31 QPIAILLGGQS-GAGKTTIHRIKQKEF   56 (253)
T ss_dssp             SCEEEEEESCG-GGTTHHHHHHHHHHT
T ss_pred             CCeEEEEECCC-CCCHHHHHHHHHHhc
Confidence            34678899999 999999999987654

>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=80.86  E-value=0.73  Score=41.35  Aligned_cols=22  Identities=0%  Similarity=-0.487  Sum_probs=19.2

Q ss_pred             eeeeeeeccCccchhHHHHHHHh
Q 011431          228 RSYRCWLLCPLFSELRVLTNDVH  250 (486)
Q Consensus       228 ~vi~I~GmGgGvGKTTLa~~vy~  250 (486)
                      .+|+|.|+. |-||||+++.+-.
T Consensus         3 ~~i~l~G~~-GsGKST~~~~La~   24 (206)
T 1jjv_A            3 YIVGLTGGI-GSGKTTIANLFTD   24 (206)
T ss_dssp             EEEEEECST-TSCHHHHHHHHHT
T ss_pred             cEEEEECCC-CCCHHHHHHHHHH
Confidence            468999999 9999999998844

>1g3q_A MIND ATPase, cell division inhibitor; alpha-beta-alpha layered, protein-ADP complex, cell cycle, hydrolase; HET: ADP; 2.00A {Pyrococcus furiosus} SCOP: c.37.1.10 PDB: 1g3r_A* 1ion_A*

Probab=80.63  E-value=0.77  Score=42.07  Aligned_cols=26  Identities=15%  Similarity=-0.244  Sum_probs=20.9

Q ss_pred             eeeeeeeccCccchhHHHHHHHhhhc
Q 011431          228 RSYRCWLLCPLFSELRVLTNDVHQLM  253 (486)
Q Consensus       228 ~vi~I~GmGgGvGKTTLa~~vy~~~~  253 (486)
                      ++|.+++..||+||||++-++-..+.
T Consensus         3 ~~i~v~s~kgGvGKTt~a~~LA~~la   28 (237)
T 1g3q_A            3 RIISIVSGKGGTGKTTVTANLSVALG   28 (237)
T ss_dssp             EEEEEECSSTTSSHHHHHHHHHHHHH
T ss_pred             eEEEEecCCCCCCHHHHHHHHHHHHH
Confidence            57888888789999999988765543

>2ged_A SR-beta, signal recognition particle receptor beta subunit; protein transport, G protein, proline isomerization, circular permutation; 2.20A {Saccharomyces cerevisiae}

Probab=80.55  E-value=1.3  Score=38.76  Aligned_cols=25  Identities=12%  Similarity=-0.331  Sum_probs=20.6

Q ss_pred             CceeeeeeeccCccchhHHHHHHHhh
Q 011431          226 GYRSYRCWLLCPLFSELRVLTNDVHQ  251 (486)
Q Consensus       226 ~~~vi~I~GmGgGvGKTTLa~~vy~~  251 (486)
                      ....|.++|.. |+|||||+..+.+.
T Consensus        47 ~~~~i~vvG~~-g~GKSsll~~l~~~   71 (193)
T 2ged_A           47 YQPSIIIAGPQ-NSGKTSLLTLLTTD   71 (193)
T ss_dssp             CCCEEEEECCT-TSSHHHHHHHHHHS
T ss_pred             CCCEEEEECCC-CCCHHHHHHHHhcC
Confidence            44567899999 99999999988654

>1tue_A Replication protein E1; helicase, replication, E1E2 complex, AAA+ protein; 2.10A {Human papillomavirus type 18} SCOP: c.37.1.20

Probab=80.44  E-value=1.6  Score=39.79  Aligned_cols=40  Identities=10%  Similarity=-0.004  Sum_probs=27.6

Q ss_pred             hhHHHHHHHhhcCCCceeeeeeeccCccchhHHHHHHHhhh
Q 011431          212 SLLDEVLSLLRNAEGYRSYRCWLLCPLFSELRVLTNDVHQL  252 (486)
Q Consensus       212 ~~l~~v~~ll~~~~~~~vi~I~GmGgGvGKTTLa~~vy~~~  252 (486)
                      .|+..+..++..-...+.+-++|-. |.||||+|.++.+.+
T Consensus        43 ~f~~~l~~~~~~iPkkn~ili~GPP-GtGKTt~a~ala~~l   82 (212)
T 1tue_A           43 TFLGALKSFLKGTPKKNCLVFCGPA-NTGKSYFGMSFIHFI   82 (212)
T ss_dssp             HHHHHHHHHHHTCTTCSEEEEESCG-GGCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCCcccEEEEECCC-CCCHHHHHHHHHHHh
Confidence            3455555555432223457799999 999999999887755

>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=80.38  E-value=5.9  Score=38.21  Aligned_cols=135  Identities=13%  Similarity=-0.027  Sum_probs=71.2

Q ss_pred             HHHhhcCCCceeeeeeeccCccchhHHHHHHHhhhcccc--ccceEEEEeee---ccHHHHHHHHhhhhccccccccccc
Q 011431          218 LSLLRNAEGYRSYRCWLLCPLFSELRVLTNDVHQLMDNY--ENSDVTLAKFE---GEVKKLDQRLLRFLESVDKHVASYD  292 (486)
Q Consensus       218 ~~ll~~~~~~~vi~I~GmGgGvGKTTLa~~vy~~~~~~F--~~~~~~~v~~~---~~l~~lqk~ll~~L~~~d~~~~~~~  292 (486)
                      ...+...+ ...+=++|-. |.||||+|..+-+... .+  ...++....-.   ..+..++ .+...+..         
T Consensus        10 ~~~i~~~~-~~~~Lf~Gp~-G~GKtt~a~~la~~~~-~~~~~~~d~~~l~~~~~~~~id~ir-~li~~~~~---------   76 (305)
T 2gno_A           10 KRIIEKSE-GISILINGED-LSYPREVSLELPEYVE-KFPPKASDVLEIDPEGENIGIDDIR-TIKDFLNY---------   76 (305)
T ss_dssp             HHHHHTCS-SEEEEEECSS-SSHHHHHHHHHHHHHH-TSCCCTTTEEEECCSSSCBCHHHHH-HHHHHHTS---------
T ss_pred             HHHHHCCC-CcEEEEECCC-CCCHHHHHHHHHHhCc-hhhccCCCEEEEcCCcCCCCHHHHH-HHHHHHhh---------
Confidence            33344333 5566689999 9999999998865421 11  11122222211   2222222 12222210         


Q ss_pred             ccccccccccccccCcceeeceecccC--HHHHHHHhcCCCCCCCCCEEEeeCCcc-ccccccccCCCceEecCCCCCch
Q 011431          293 RYGSASFEQPRPQTTSAAHPYVEDVID--DAYMEDITDDSSPSLNLSRINSTSRFE-QLWPETISATDTCTEDVTVDNSP  369 (486)
Q Consensus       293 ~~g~~s~l~~~L~~tKr~LlVLDDVw~--~~~~~~l~~~~~~~~~GSrIIiTTR~~-~V~~~~~~~~~~~y~v~~L~~~e  369 (486)
                        .       .... ++.++++|++..  ....+.++...-+..+.+++|++|.+. .+...  .... ++++++|++++
T Consensus        77 --~-------p~~~-~~kvviIdead~lt~~a~naLLk~LEep~~~t~fIl~t~~~~kl~~t--I~SR-~~~f~~l~~~~  143 (305)
T 2gno_A           77 --S-------PELY-TRKYVIVHDCERMTQQAANAFLKALEEPPEYAVIVLNTRRWHYLLPT--IKSR-VFRVVVNVPKE  143 (305)
T ss_dssp             --C-------CSSS-SSEEEEETTGGGBCHHHHHHTHHHHHSCCTTEEEEEEESCGGGSCHH--HHTT-SEEEECCCCHH
T ss_pred             --c-------cccC-CceEEEeccHHHhCHHHHHHHHHHHhCCCCCeEEEEEECChHhChHH--HHce-eEeCCCCCHHH
Confidence              0       1112 467788999874  344444442110112467777766443 45422  1223 89999999999


Q ss_pred             hhhhhcccC
Q 011431          370 SLNLSSCNS  378 (486)
Q Consensus       370 s~~LF~~~a  378 (486)
                      ..+.+...+
T Consensus       144 i~~~L~~~~  152 (305)
T 2gno_A          144 FRDLVKEKI  152 (305)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHh
Confidence            988887654

>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=80.35  E-value=0.82  Score=41.38  Aligned_cols=26  Identities=4%  Similarity=-0.438  Sum_probs=22.1

Q ss_pred             ceeeeeeeccCccchhHHHHHHHhhhc
Q 011431          227 YRSYRCWLLCPLFSELRVLTNDVHQLM  253 (486)
Q Consensus       227 ~~vi~I~GmGgGvGKTTLa~~vy~~~~  253 (486)
                      -.+++|.|.. |.|||||++.+.....
T Consensus         8 g~~i~l~Gps-GsGKsTl~~~L~~~~~   33 (208)
T 3tau_A            8 GLLIVLSGPS-GVGKGTVREAVFKDPE   33 (208)
T ss_dssp             CCEEEEECCT-TSCHHHHHHHHHHSTT
T ss_pred             CcEEEEECcC-CCCHHHHHHHHHhhCC
Confidence            3578899999 9999999999977653

>2xxa_A Signal recognition particle protein; protein transport, RNA/RNA binding protein, hydrolase, gtpas; HET: GCP; 3.94A {Escherichia coli} PDB: 2j28_9

Probab=80.31  E-value=1.4  Score=45.04  Aligned_cols=27  Identities=7%  Similarity=-0.367  Sum_probs=21.8

Q ss_pred             CceeeeeeeccCccchhHHHHHHHhhhc
Q 011431          226 GYRSYRCWLLCPLFSELRVLTNDVHQLM  253 (486)
Q Consensus       226 ~~~vi~I~GmGgGvGKTTLa~~vy~~~~  253 (486)
                      ..++|.++|.| |.||||++-++-..+.
T Consensus        99 ~~~vI~ivG~~-GvGKTT~a~~LA~~l~  125 (433)
T 2xxa_A           99 PPAVVLMAGLQ-GAGKTTSVGKLGKFLR  125 (433)
T ss_dssp             SSEEEEEECST-TSSHHHHHHHHHHHHH
T ss_pred             CCeEEEEECCC-CCCHHHHHHHHHHHHH
Confidence            46799999998 9999999887765443

>4gp7_A Metallophosphoesterase; polynucleotide kinase phosphatase, RNA repair, transferase; HET: ATP CIT; 2.00A {Clostridium thermocellum} PDB: 4gp6_A*

Probab=80.25  E-value=0.73  Score=40.34  Aligned_cols=21  Identities=0%  Similarity=-0.357  Sum_probs=18.3

Q ss_pred             eeeeeeeccCccchhHHHHHHH
Q 011431          228 RSYRCWLLCPLFSELRVLTNDV  249 (486)
Q Consensus       228 ~vi~I~GmGgGvGKTTLa~~vy  249 (486)
                      .+++++|.. |-|||||++..+
T Consensus        10 ei~~l~G~n-GsGKSTl~~~~~   30 (171)
T 4gp7_A           10 SLVVLIGSS-GSGKSTFAKKHF   30 (171)
T ss_dssp             EEEEEECCT-TSCHHHHHHHHS
T ss_pred             EEEEEECCC-CCCHHHHHHHHc
Confidence            578899999 999999999644

>1lvg_A Guanylate kinase, GMP kinase; transferase; HET: ADP 5GP; 2.10A {Mus musculus} SCOP: c.37.1.1

Probab=80.22  E-value=0.77  Score=41.29  Aligned_cols=24  Identities=8%  Similarity=-0.178  Sum_probs=20.6

Q ss_pred             eeeeeeeccCccchhHHHHHHHhhh
Q 011431          228 RSYRCWLLCPLFSELRVLTNDVHQL  252 (486)
Q Consensus       228 ~vi~I~GmGgGvGKTTLa~~vy~~~  252 (486)
                      ++++|+|.. |.|||||++.+....
T Consensus         5 ~~i~lvGps-GaGKSTLl~~L~~~~   28 (198)
T 1lvg_A            5 RPVVLSGPS-GAGKSTLLKKLFQEH   28 (198)
T ss_dssp             CCEEEECCT-TSSHHHHHHHHHHHH
T ss_pred             CEEEEECCC-CCCHHHHHHHHHhhC
Confidence            578899999 999999999987643

>3cm0_A Adenylate kinase; ATP-binding, cytoplasm, nucleotide biosynthesis, nucleotide-binding, transferase, structural genomics; 1.80A {Thermus thermophilus}

Probab=80.18  E-value=0.94  Score=39.73  Aligned_cols=24  Identities=4%  Similarity=-0.272  Sum_probs=20.2

Q ss_pred             eeeeeeeccCccchhHHHHHHHhhh
Q 011431          228 RSYRCWLLCPLFSELRVLTNDVHQL  252 (486)
Q Consensus       228 ~vi~I~GmGgGvGKTTLa~~vy~~~  252 (486)
                      ..|.+.|+. |.||||+++.+-+.+
T Consensus         5 ~~I~l~G~~-GsGKST~~~~La~~l   28 (186)
T 3cm0_A            5 QAVIFLGPP-GAGKGTQASRLAQEL   28 (186)
T ss_dssp             EEEEEECCT-TSCHHHHHHHHHHHH
T ss_pred             eEEEEECCC-CCCHHHHHHHHHHHh
Confidence            467899999 999999999986654

>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=80.15  E-value=0.97  Score=39.67  Aligned_cols=25  Identities=8%  Similarity=-0.348  Sum_probs=21.1

Q ss_pred             ceeeeeeeccCccchhHHHHHHHhhh
Q 011431          227 YRSYRCWLLCPLFSELRVLTNDVHQL  252 (486)
Q Consensus       227 ~~vi~I~GmGgGvGKTTLa~~vy~~~  252 (486)
                      ..+|.+.|+. |.||||+++.+-..+
T Consensus         6 ~~~I~l~G~~-GsGKsT~~~~L~~~l   30 (194)
T 1qf9_A            6 PNVVFVLGGP-GSGKGTQCANIVRDF   30 (194)
T ss_dssp             CEEEEEEEST-TSSHHHHHHHHHHHH
T ss_pred             CcEEEEECCC-CCCHHHHHHHHHHHh
Confidence            3578899999 999999999886654

>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=80.03  E-value=0.92  Score=42.37  Aligned_cols=28  Identities=11%  Similarity=-0.306  Sum_probs=22.7

Q ss_pred             CCceeeeeeeccCccchhHHHHHHHhhhc
Q 011431          225 EGYRSYRCWLLCPLFSELRVLTNDVHQLM  253 (486)
Q Consensus       225 ~~~~vi~I~GmGgGvGKTTLa~~vy~~~~  253 (486)
                      ....+|+|.|.. |.||||+|+.+-..+.
T Consensus        20 ~~~~iI~I~G~~-GSGKST~a~~L~~~lg   47 (252)
T 1uj2_A           20 GEPFLIGVSGGT-ASGKSSVCAKIVQLLG   47 (252)
T ss_dssp             -CCEEEEEECST-TSSHHHHHHHHHHHTT
T ss_pred             CCcEEEEEECCC-CCCHHHHHHHHHHHhh
Confidence            356789999999 9999999998866543

---

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	486
d1fyva_	161	c.23.2.1 (A:) Toll-like receptor 1, TLR1 {Human (H	2e-12
d1fyxa_	149	c.23.2.1 (A:) Toll-like receptor 2, TLR2 {Human (H	8e-11
d1jjcb4	104	d.58.13.1 (B:682-785) Phenylalanyl-tRNA synthetase	0.001

>d1fyva_ c.23.2.1 (A:) Toll-like receptor 1, TLR1 {Human (Homo sapiens) [TaxId: 9606]} Length = 161

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: Toll/Interleukin receptor TIR domain
family: Toll/Interleukin receptor TIR domain
domain: Toll-like receptor 1, TLR1
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 62.8 bits (152), Expect = 2e-12
 Identities = 23/119 (19%), Positives = 48/119 (40%), Gaps = 4/119 (3%)

Query: 20  YKHDVFVTFSGEDIRENFGSYLFAALFRESVKTFRDEQ-IRRGDEIMPALLQAIEESKIS 78
            +   F+++SG D      + L   L +E ++    E+    G  I+  ++  IE+S  S
Sbjct: 11  LQFHAFISYSGHD-SFWVKNELLPNLEKEGMQICLHERNFVPGKSIVENIITCIEKSYKS 69

Query: 79  LVIFSKRFAFSRWCLEELVKIIEC--NKLYQTVIPVFYKVLPSDVRNQLGSFGEAFLEH 135
           + + S  F  S WC  EL        ++   ++I +  + +P           ++ +  
Sbjct: 70  IFVLSPNFVQSEWCHYELYFAHHNLFHEGSNSLILILLEPIPQYSIPSSYHKLKSLMAR 128

>d1fyxa_ c.23.2.1 (A:) Toll-like receptor 2, TLR2 {Human (Homo sapiens) [TaxId: 9606]} Length = 149

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: Toll/Interleukin receptor TIR domain
family: Toll/Interleukin receptor TIR domain
domain: Toll-like receptor 2, TLR2
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 57.8 bits (139), Expect = 8e-11
 Identities = 22/121 (18%), Positives = 44/121 (36%), Gaps = 6/121 (4%)

Query: 20  YKHDVFVTFSGEDIRENFGSYLFAAL--FRESVKTFRDEQ-IRRGDEIMPALLQAIEESK 76
             +D FV++S  D      + +   L  F    K    ++    G  I+  ++ +IE+S 
Sbjct: 4   ICYDAFVSYSERD-AYWVENLMVQELENFNPPFKLCLHKRDFIHGKWIIDNIIDSIEKSH 62

Query: 77  ISLVIFSKRFAFSRWCLEELVKIIEC--NKLYQTVIPVFYKVLPSDVRNQLGSFGEAFLE 134
            ++ + S+ F  S WC  EL        ++     I +  + +      Q        + 
Sbjct: 63  KTVFVLSENFVKSEWCKYELDFSHFRLFDENNDAAILILLEPIEKKAIPQRFCKLRKIMN 122

Query: 135 H 135
            
Sbjct: 123 T 123

>d1jjcb4 d.58.13.1 (B:682-785) Phenylalanyl-tRNA synthetase {Thermus thermophilus [TaxId: 274]} Length = 104

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: Anticodon-binding domain of PheRS
family: Anticodon-binding domain of PheRS
domain: Phenylalanyl-tRNA synthetase
species: Thermus thermophilus [TaxId: 274]

 Score = 36.3 bits (84), Expect = 0.001
 Identities = 15/68 (22%), Positives = 27/68 (39%), Gaps = 3/68 (4%)

Query: 12 RRLRDQWRYKHDVFVTFSGEDIRENFGSYLFAALFRESVKTFRDEQIRRGDEIMPALLQA 71
          R     +     +F  + G  + E   S  F   FR   +T RDE++   +E +  + +A
Sbjct: 34 REAAGPYLESLALFDLYQGPPLPEGHKSLAFHLRFRHPKRTLRDEEV---EEAVSRVAEA 90

Query: 72 IEESKISL 79
          +      L
Sbjct: 91 LRARGFGL 98

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	486
d2a5yb3	277	CED-4, NB-ARC domain {Caenorhabditis elegans [TaxI	99.91
d1fyva_	161	Toll-like receptor 1, TLR1 {Human (Homo sapiens) [	99.74
d1fyxa_	149	Toll-like receptor 2, TLR2 {Human (Homo sapiens) [	99.67
d1qupa2	72	Copper chaperone for superoxide dismutase, N-termi	99.01
d1fe0a_	66	ATX1 metallochaperone protein (ATOX1) {Human (Homo	98.96
d1cc8a_	72	ATX1 metallochaperone protein (ATOX1) {Baker's yea	98.96
d2ggpb1	72	Copper transporter domain ccc2a {Baker's yeast (Sa	98.55
d1sb6a_	64	Copper chaperone {Synechocystis sp. pcc 6803, Scat	98.45
d1osda_	72	Mercuric ion binding protein MerP {Ralstonia metal	98.41
d2aw0a_	72	Menkes copper-transporting ATPase {Human (Homo sap	98.27
d2qifa1	69	Copper chaperone {Bacillus subtilis, CopZ [TaxId:	98.23
d1q8la_	84	Menkes copper-transporting ATPase {Human (Homo sap	98.23
d1p6ta2	79	Potential copper-translocating P-type ATPase CopA	98.21
d1p6ta1	72	Potential copper-translocating P-type ATPase CopA	98.2
d1cpza_	68	Copper chaperone {Enterococcus hirae [TaxId: 1354]	98.18
d1kvja_	79	Menkes copper-transporting ATPase {Human (Homo sap	98.15
d1mwza_	73	Metal ion-transporting ATPase ZntA, N-terminal dom	98.08
d1sxjb2	224	Replication factor C4 {Baker's yeast (Saccharomyce	95.5
d1sxjc2	227	Replication factor C3 {Baker's yeast (Saccharomyce	95.36
d1sxje2	252	Replication factor C5 {Baker's yeast (Saccharomyce	95.3
d1njfa_	239	delta prime subunit of DNA polymerase III, N-domai	94.4
d1a5ta2	207	delta prime subunit of DNA polymerase III, N-domai	93.87
d1lw7a2	192	Transcriptional regulator NadR, ribosylnicotinamid	93.77
d1rz3a_	198	Hypothetical protein rbstp0775 {Bacillus stearothe	93.47
d1np6a_	170	Molybdopterin-guanine dinucleotide biosynthesis pr	93.38
d1sxjd2	237	Replication factor C2 {Baker's yeast (Saccharomyce	93.06
d1iqpa2	231	Replication factor C {Archaeon Pyrococcus furiosus	92.99
d1l8qa2	213	Chromosomal replication initiation factor DnaA {Aq	92.95
d1xjca_	165	Molybdopterin-guanine dinucleotide biosynthesis pr	92.55
d1m8pa3	183	ATP sulfurylase C-terminal domain {Fungus (Penicil	92.53
d1kaga_	169	Shikimate kinase (AroK) {Escherichia coli [TaxId:	92.36
d2i3ba1	189	Cancer-related NTPase, C1orf57 {Human (Homo sapien	91.61
d2bdta1	176	Hypothetical protein BH3686 {Bacillus halodurans [	91.55
d1ly1a_	152	Polynucleotide kinase, kinase domain {Bacteriophag	91.44
d1rkba_	173	Adenylate kinase {Human (Homo sapiens), isoenzyme	91.23
d2iyva1	165	Shikimate kinase (AroK) {Mycobacterium tuberculosi	90.97
d1qhxa_	178	Chloramphenicol phosphotransferase {Streptomyces v	90.69
d1khta_	190	Adenylate kinase {Archaeon Methanococcus voltae [T	90.6
d1sq5a_	308	Pantothenate kinase PanK {Escherichia coli [TaxId:	90.1
d1bifa1	213	6-phosphofructo-2-kinase/fructose-2,6-bisphosphata	90.03
d1viaa_	161	Shikimate kinase (AroK) {Campylobacter jejuni [Tax	90.0
d1y63a_	174	Probable kinase LmjF30.1890 {Leishmania major [Tax	89.33
d1knqa_	171	Gluconate kinase {Escherichia coli [TaxId: 562]}	89.18
d1x6va3	195	Adenosine-5'phosphosulfate kinase (APS kinase) {Hu	89.01
d1fnna2	276	CDC6, N-domain {Archaeon Pyrobaculum aerophilum [T	88.99
d1gvnb_	273	Plasmid maintenance system epsilon/zeta, toxin zet	88.72
d1e32a2	258	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	88.4
d1zp6a1	176	Hypothetical protein Atu3015 {Agrobacterium tumefa	88.27
d1e6ca_	170	Shikimate kinase (AroK) {Erwinia chrysanthemi [Tax	88.24
d1ixsb2	239	Holliday junction helicase RuvB {Thermus thermophi	88.21
d1odfa_	286	Hypothetical protein Ygr205W {Baker's yeast (Sacch	87.8
d1g3qa_	237	Cell division regulator MinD {Archaeon Pyrococcus	87.68
d1uj2a_	213	Uridine-cytidine kinase 2 {Human (Homo sapiens) [T	87.42
d2fnaa2	283	Archaeal ATPase SSO1545 {Sulfolobus solfataricus [	87.0
d1w5sa2	287	CDC6-like protein APE0152, N-terminal domain {Aero	86.84
d1cp2a_	269	Nitrogenase iron protein {Clostridium pasteurianum	86.78
d1nksa_	194	Adenylate kinase {Archaeon Sulfolobus acidocaldari	86.45
d1uf9a_	191	Dephospho-CoA kinase {Thermus thermophilus [TaxId:	85.97
d1ye8a1	178	Hypothetical kinase-like protein Aq_1292 {Aquifex	85.48
d1ak2a1	190	Adenylate kinase {Cow (Bos taurus), mitochondrial	85.36
d1f6ba_	186	SAR1 {Chinese hamster (Cricetulus griseus) [TaxId:	84.89
d1ukza_	196	Uridylate kinase {Baker's yeast (Saccharomyces cer	84.61
d1lv7a_	256	AAA domain of cell division protein FtsH {Escheric	84.28
d1hyqa_	232	Cell division regulator MinD {Archaeon Archaeoglob	84.22
d1puja_	273	Probable GTPase YlqF {Bacillus subtilis [TaxId: 14	83.55
d1yj5a2	172	5' polynucleotide kinase-3' phosphatase, C-termina	82.92
d1qf9a_	194	UMP/CMP kinase {Dictyostelium discoideum [TaxId: 4	82.5
d1svia_	195	Probable GTPase EngB {Bacillus subtilis [TaxId: 14	82.3
d1r7ra3	265	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	82.02
d1m7ga_	208	Adenosine-5'phosphosulfate kinase (APS kinase) {Fu	81.75
d2vp4a1	197	Deoxyribonucleoside kinase {Fruit fly (Drosophila	81.52
d1wu7a1	97	Histidyl-tRNA synthetase (HisRS), C-terminal domai	81.43
d1in4a2	238	Holliday junction helicase RuvB {Thermotoga mariti	81.17
d2afhe1	289	Nitrogenase iron protein {Azotobacter vinelandii [	81.0
d3bpda1	91	Uncharacterized protein AF1549 {Archaeoglobus fulg	80.86
d1ihua2	279	Arsenite-translocating ATPase ArsA {Escherichia co	80.62
d2raqa1	93	Uncharacterized protein MTH889 {Methanobacterium t	80.42
d1upta_	169	ADP-ribosylation factor {Human (Homo sapiens), ARL	80.29

>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=99.91  E-value=8.3e-25  Score=212.44  Aligned_cols=177  Identities=11%  Similarity=-0.033  Sum_probs=113.5

Q ss_pred             HHHHHHHhh--cCCCceeeeeeeccCccchhHHHHHHHhhhc----cccccceEEEEeeec--cHHHH---HHHHhhhhc
Q 011431          214 LDEVLSLLR--NAEGYRSYRCWLLCPLFSELRVLTNDVHQLM----DNYENSDVTLAKFEG--EVKKL---DQRLLRFLE  282 (486)
Q Consensus       214 l~~v~~ll~--~~~~~~vi~I~GmGgGvGKTTLa~~vy~~~~----~~F~~~~~~~v~~~~--~l~~l---qk~ll~~L~  282 (486)
                      ++++.+.|.  .+++.++|+|+||| |+||||||+++||+..    ..|++  +.|+.+++  ....+   ...++..++
T Consensus        29 ~~~i~~~L~~~~~~~~~~v~I~Gmg-GiGKTtLA~~v~~~~~~~~~~~f~~--~~Wv~vs~~~~~~~l~~~~~~~~~~~~  105 (277)
T d2a5yb3          29 VDRVIKKLDEMCDLDSFFLFLHGRA-GSGKSVIASQALSKSDQLIGINYDS--IVWLKDSGTAPKSTFDLFTDILLMLKS  105 (277)
T ss_dssp             HHHHHHHHHHHTTSSSEEEEEECST-TSSHHHHHHHHHHHCSSTBTTTBSE--EEEEECCCCSTTHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHhccCCCceEEEEECCC-CCCHHHHHHHHHHhhhhhhhhcCce--EEEEEecCCCCHHHHHHHHHHHHHHhc
Confidence            455555542  35578899999999 9999999999998633    33444  45555543  22222   223333333


Q ss_pred             ccccc-----cccccccccccccccccccCcceeeceecccCHHHHHHHhcCCCCCCCCCEEEeeCCccccccccccCCC
Q 011431          283 SVDKH-----VASYDRYGSASFEQPRPQTTSAAHPYVEDVIDDAYMEDITDDSSPSLNLSRINSTSRFEQLWPETISATD  357 (486)
Q Consensus       283 ~~d~~-----~~~~~~~g~~s~l~~~L~~tKr~LlVLDDVw~~~~~~~l~~~~~~~~~GSrIIiTTR~~~V~~~~~~~~~  357 (486)
                      .....     ............++..|.. +++|+||||||+..+|..+..      .|||||||||+++|+..+. ...
T Consensus       106 ~~~~~~~~~~~~~~~~~~~~~~~~~~L~~-kr~LlVLDDv~~~~~~~~~~~------~~srilvTTR~~~v~~~~~-~~~  177 (277)
T d2a5yb3         106 EDDLLNFPSVEHVTSVVLKRMICNALIDR-PNTLFVFDDVVQEETIRWAQE------LRLRCLVTTRDVEISNAAS-QTC  177 (277)
T ss_dssp             TSCCTTCCCCTTCCHHHHHHHHHHHHTTS-TTEEEEEEEECCHHHHHHHHH------TTCEEEEEESBGGGGGGCC-SCE
T ss_pred             chhhcCCccchhhhhHHHHHHHHHHHhcc-CCeeEecchhhHHhhhhhhcc------cCceEEEEeehHHHHHhcC-CCC
Confidence            22111     0000000011235566777 899999999999999987643      4899999999999984332 123


Q ss_pred             ceEecCCCCCchhhhhhcccCCCcceeeeeeccccccchhhHHHHHHHhhcCCCe
Q 011431          358 TCTEDVTVDNSPSLNLSSCNSSSTFKEAIFKLEIHHDNLEAWRAAFSIVSEFIGI  412 (486)
Q Consensus       358 ~~y~v~~L~~~es~~LF~~~a~~k~~~~v~kv~~~~~~~~~~~~a~k~~~~~~Gv  412 (486)
                      .+|+|++|+.+|||+||+++||....         .+...  ..+.+++..|.|.
T Consensus       178 ~~~~l~~L~~~ea~~Lf~~~~~~~~~---------~~~~~--~~~~~iv~~c~Gl  221 (277)
T d2a5yb3         178 EFIEVTSLEIDECYDFLEAYGMPMPV---------GEKEE--DVLNKTIELSSGN  221 (277)
T ss_dssp             EEEECCCCCHHHHHHHHHHTSCCCC-----------CHHH--HHHHHHHHHHTTC
T ss_pred             ceEECCCCCHHHHHHHHHHHhCCccC---------chhhH--HHHHHHHHHhCCC
Confidence            68999999999999999999996321         22222  4455666666653

>d1fyva_ c.23.2.1 (A:) Toll-like receptor 1, TLR1 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: Toll/Interleukin receptor TIR domain
family: Toll/Interleukin receptor TIR domain
domain: Toll-like receptor 1, TLR1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.74  E-value=3.9e-19  Score=157.88  Aligned_cols=102  Identities=24%  Similarity=0.435  Sum_probs=91.3

Q ss_pred             CCCCCceecCceEEecccCccCcChH-HHHHHHHhcCCCeEEEeC-CcCCCCCchHHHHHHHhhccceEEEeecccccCh
Q 011431           13 RLRDQWRYKHDVFVTFSGEDIRENFG-SYLFAALFRESVKTFRDE-QIRRGDEIMPALLQAIEESKISLVIFSKRFAFSR   90 (486)
Q Consensus        13 ~~~~~~~y~~dVFis~~~~D~~~~f~-~~L~~~L~~~gi~~~~d~-~~~~g~~i~~~i~~~I~~s~~~ivv~S~~y~~S~   90 (486)
                      ....+++|  ||||||+++|.  .|+ ..|...|++.|+++|+|+ ++.+|+.+.++|.++|++|+..|+|+|++|..|.
T Consensus         6 ~~~~~~~y--DvFisys~~D~--~~v~~~L~~~Le~~g~~v~~d~~d~~~G~~~~~~i~~~i~~s~~~i~vlS~~~~~s~   81 (161)
T d1fyva_           6 ELQRNLQF--HAFISYSGHDS--FWVKNELLPNLEKEGMQICLHERNFVPGKSIVENIITCIEKSYKSIFVLSPNFVQSE   81 (161)
T ss_dssp             TSSSCCCE--EEEEECCGGGH--HHHHHTHHHHHHTTTCCEECTTTTCCTTSCHHHHHHHHHHHEEEEEEEESHHHHHHT
T ss_pred             HcCCCCee--EEEEecChhHH--HHHHHHHHHHHHhCCCcceEeccccccccccHHHHHHHHHhCCEEEEEecCccccCh
Confidence            45567889  99999999994  566 579999999999999999 9999999999999999999999999999999999


Q ss_pred             hhHHHHHHHHHH--hcCCCEEEEEEeeecC
Q 011431           91 WCLEELVKIIEC--NKLYQTVIPVFYKVLP  118 (486)
Q Consensus        91 wcl~El~~i~~~--~~~~~~v~Pify~v~~  118 (486)
                      ||..|+..++++  +.+...+|||+++--+
T Consensus        82 w~~~E~~~a~~~~~~~~~~~lIpV~l~~~~  111 (161)
T d1fyva_          82 WCHYELYFAHHNLFHEGSNSLILILLEPIP  111 (161)
T ss_dssp             SHHHHHHTTSCCCSCSSCSSEEEEESSCCC
T ss_pred             HHHHHHHHHHHHHHHcCCCceeEEEEecCc
Confidence            999999999887  5566789999997433

>d1fyxa_ c.23.2.1 (A:) Toll-like receptor 2, TLR2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: Toll/Interleukin receptor TIR domain
family: Toll/Interleukin receptor TIR domain
domain: Toll-like receptor 2, TLR2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.67  E-value=4.8e-18  Score=148.82  Aligned_cols=99  Identities=21%  Similarity=0.340  Sum_probs=87.5

Q ss_pred             CCceecCceEEecccCccCcChH-HHHHHHHhc--CCCeEEEeC-CcCCCCCchHHHHHHHhhccceEEEeecccccChh
Q 011431           16 DQWRYKHDVFVTFSGEDIRENFG-SYLFAALFR--ESVKTFRDE-QIRRGDEIMPALLQAIEESKISLVIFSKRFAFSRW   91 (486)
Q Consensus        16 ~~~~y~~dVFis~~~~D~~~~f~-~~L~~~L~~--~gi~~~~d~-~~~~g~~i~~~i~~~I~~s~~~ivv~S~~y~~S~w   91 (486)
                      .++.|  ||||||+++|.  .|+ .+|...|++  .|+++|+|+ ++.+|+.+.++|.++|++|+..|+|+|++|+.|.|
T Consensus         2 ~~~~Y--DvFiSys~~D~--~~V~~~l~~~LE~~~~g~~~~~~~rd~~~G~~~~~~i~~~i~~S~~~i~vlS~~~l~s~w   77 (149)
T d1fyxa_           2 RNICY--DAFVSYSERDA--YWVENLMVQELENFNPPFKLCLHKRDFIHGKWIIDNIIDSIEKSHKTVFVLSENFVKSEW   77 (149)
T ss_dssp             CSCCE--EEEEECCGGGH--HHHHTHHHHHHTTSSSCCCEEEHHHHCCSSSCHHHHHHHHHHHEEEEEEEECHHHHHHHT
T ss_pred             CCCEE--EEEEECchhhH--HHHHHHHHHHHHhcCCCceEEEecccccccchHHHHHHHHHHhCCEEEEEEcCccccccc
Confidence            56789  99999999993  565 579999976  489999998 99999999999999999999999999999999999


Q ss_pred             hHHHHHHHHHH--hcCCCEEEEEEeeecC
Q 011431           92 CLEELVKIIEC--NKLYQTVIPVFYKVLP  118 (486)
Q Consensus        92 cl~El~~i~~~--~~~~~~v~Pify~v~~  118 (486)
                      |..|+..++..  +.++..+|||+++.-+
T Consensus        78 c~~E~~~a~~~~~~~~~~~iIpV~l~~~~  106 (149)
T d1fyxa_          78 CKYELDFSHFRLFDENNDAAILILLEPIE  106 (149)
T ss_dssp             HHHHSCCSCCTTCGGGTTCCEEEESSCCC
T ss_pred             hHHHHHHHHHHHHHcCCceEEEEEeccCc
Confidence            99999877665  6677899999997444

>d1qupa2 d.58.17.1 (A:2-73) Copper chaperone for superoxide dismutase, N-terminal domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: HMA, heavy metal-associated domain
family: HMA, heavy metal-associated domain
domain: Copper chaperone for superoxide dismutase, N-terminal domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.01  E-value=4.4e-10  Score=84.56  Aligned_cols=63  Identities=17%  Similarity=0.245  Sum_probs=59.3

Q ss_pred             eeeeeeccccccchhhHHHHHHHhhcCCCeeEEEeecCCCeEEEEeeccCHHHHHHHhhccc-ceeE
Q 011431          383 KEAIFKLEIHHDNLEAWRAAFSIVSEFIGITKISFDFKVKKMTVVGDNFDVLSAGTKLNGLC-RTEL  448 (486)
Q Consensus       383 ~~~v~kv~~~~~~~~~~~~a~k~~~~~~Gv~~v~~d~~~~~~~V~G~~~d~~~~~~~l~k~~-~~~~  448 (486)
                      .++.++|+|+|.+|.  .++.+.+.+++||+++.+|...++++|.|+ ++|..+.+.|++.| .|.|
T Consensus         6 ~~~~f~V~M~C~~C~--~~Iek~l~~~~gV~~v~vdl~~~~v~V~~~-~~~~~i~~~I~~~G~~A~l   69 (72)
T d1qupa2           6 YEATYAIPMHCENCV--NDIKACLKNVPGINSLNFDIEQQIMSVESS-VAPSTIINTLRNCGKDAII   69 (72)
T ss_dssp             EEEEEECCCCSTTHH--HHHHHHHTTCTTEEEEEEETTTTEEEEEES-SCHHHHHHHHHHTTCCCEE
T ss_pred             EEEEEEEccCCHHHH--HHHHHHHhcCCCeeEEEEECCCCEEEEEee-CCHHHHHHHHHHhCCCEEE
Confidence            467889999999999  999999999999999999999999999999 99999999999998 5765

>d1fe0a_ d.58.17.1 (A:) ATX1 metallochaperone protein (ATOX1) {Human (Homo sapiens), HAH1 [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: HMA, heavy metal-associated domain
family: HMA, heavy metal-associated domain
domain: ATX1 metallochaperone protein (ATOX1)
species: Human (Homo sapiens), HAH1 [TaxId: 9606]

Probab=98.96  E-value=7e-10  Score=81.88  Aligned_cols=63  Identities=13%  Similarity=0.214  Sum_probs=58.5

Q ss_pred             eeeeeccccccchhhHHHHHHHhhcCCCeeEEEeecCCCeEEEEeeccCHHHHHHHhhccc-ceeEEe
Q 011431          384 EAIFKLEIHHDNLEAWRAAFSIVSEFIGITKISFDFKVKKMTVVGDNFDVLSAGTKLNGLC-RTELVS  450 (486)
Q Consensus       384 ~~v~kv~~~~~~~~~~~~a~k~~~~~~Gv~~v~~d~~~~~~~V~G~~~d~~~~~~~l~k~~-~~~~~~  450 (486)
                      +..++|+|+|.+|.  .++.+.+.+++|| ++.+|...++++|.|+ +++..+++.|++.| .|+++.
T Consensus         2 k~ef~V~M~C~~C~--~~I~~aL~~~~gv-~v~v~~~~~~v~V~~~-~~~~~i~~~I~~~Gy~a~lig   65 (66)
T d1fe0a_           2 KHEFSVDMTCGGCA--EAVSRVLNKLGGV-KYDIDLPNKKVCIESE-HSMDTLLATLKKTGKTVSYLG   65 (66)
T ss_dssp             EEEEEECCCSHHHH--HHHHHHHHHHCSE-EEEEETTTTEEEEEES-SCHHHHHHHHHTTTSCEEEEE
T ss_pred             CEEEEEccCchHHH--HHHHHHHhcCCCc-EEEEEcCCCEEEEEee-CCHHHHHHHHHHhCCeEEEee
Confidence            35678999999999  9999999999998 6999999999999999 99999999999999 798875

>d1cc8a_ d.58.17.1 (A:) ATX1 metallochaperone protein (ATOX1) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: HMA, heavy metal-associated domain
family: HMA, heavy metal-associated domain
domain: ATX1 metallochaperone protein (ATOX1)
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=98.96  E-value=9.1e-10  Score=82.71  Aligned_cols=61  Identities=11%  Similarity=0.123  Sum_probs=57.7

Q ss_pred             cceeeeeeccccccchhhHHHHHHHhhcC-CCeeEEEeecCCCeEEEEeeccCHHHHHHHhhccc
Q 011431          381 TFKEAIFKLEIHHDNLEAWRAAFSIVSEF-IGITKISFDFKVKKMTVVGDNFDVLSAGTKLNGLC  444 (486)
Q Consensus       381 k~~~~v~kv~~~~~~~~~~~~a~k~~~~~-~Gv~~v~~d~~~~~~~V~G~~~d~~~~~~~l~k~~  444 (486)
                      +.++..++|+|||.+|.  .++.+.+.++ |||.++.+|...++++|.|+ +|+..|.+.|++.|
T Consensus         2 ~~kt~~f~V~MtC~~C~--~~Ie~~L~~l~~gV~~v~v~~~~~~v~V~~~-~~~~~i~~~i~~~G   63 (72)
T d1cc8a_           2 EIKHYQFNVVMTCSGCS--GAVNKVLTKLEPDVSKIDISLEKQLVDVYTT-LPYDFILEKIKKTG   63 (72)
T ss_dssp             CCEEEEEEECCCSHHHH--HHHHHHHHTTTTSEEEEEEETTTTEEEEEES-SCHHHHHHHHHTTS
T ss_pred             CcEEEEEEECcCcHHHH--HHHHHHHHcCcCceEEEEEECCCCEEEEeec-CCHHHHHHHHHHHC
Confidence            45788899999999999  9999999999 59999999999999999999 99999999999988

>d2ggpb1 d.58.17.1 (B:1-72) Copper transporter domain ccc2a {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: HMA, heavy metal-associated domain
family: HMA, heavy metal-associated domain
domain: Copper transporter domain ccc2a
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=98.55  E-value=1.2e-07  Score=70.87  Aligned_cols=66  Identities=14%  Similarity=0.185  Sum_probs=59.9

Q ss_pred             eeeeeecc-ccccchhhHHHHHHHhhcCCCeeEEEeecCCCeEEEEee-ccCHHHHHHHhhccc-ceeEEe
Q 011431          383 KEAIFKLE-IHHDNLEAWRAAFSIVSEFIGITKISFDFKVKKMTVVGD-NFDVLSAGTKLNGLC-RTELVS  450 (486)
Q Consensus       383 ~~~v~kv~-~~~~~~~~~~~a~k~~~~~~Gv~~v~~d~~~~~~~V~G~-~~d~~~~~~~l~k~~-~~~~~~  450 (486)
                      ++++|+|. |+|..|.  .++.+.+.+.+||.++.+|+..++++|+.+ .+++..+.+.|++.| .|+++.
T Consensus         2 k~v~l~V~GM~C~~C~--~~Ie~~l~~~~gV~~v~V~~~~~~~~v~~~~~~~~~~i~~~i~~~Gy~a~~~~   70 (72)
T d2ggpb1           2 REVILAVHGMTCSACT--NTINTQLRALKGVTKCDISLVTNECQVTYDNEVTADSIKEIIEDCGFDCEILR   70 (72)
T ss_dssp             EEEEEECTTCCSSTTT--HHHHHHHTTSTTEEEEEECTTTCEEEEEECSSCCHHHHHHHHHHTTCCCEEEE
T ss_pred             eEEEEEECCcccHHHH--HHHHHHHhcCCCceEEEEECCCCEEEEEECCCCCHHHHHHHHHHhCCCeEEcc
Confidence            57889997 9999999  999999999999999999999999999854 399999999999999 788764

>d1sb6a_ d.58.17.1 (A:) Copper chaperone {Synechocystis sp. pcc 6803, Scatx1 [TaxId: 1148]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: HMA, heavy metal-associated domain
family: HMA, heavy metal-associated domain
domain: Copper chaperone
species: Synechocystis sp. pcc 6803, Scatx1 [TaxId: 1148]

Probab=98.45  E-value=1.1e-07  Score=69.43  Aligned_cols=57  Identities=14%  Similarity=0.117  Sum_probs=53.5

Q ss_pred             eeeecc-ccccchhhHHHHHHHhhcCCCeeEEEeecCCCeEEEEeeccCHHHHHHHhhccc
Q 011431          385 AIFKLE-IHHDNLEAWRAAFSIVSEFIGITKISFDFKVKKMTVVGDNFDVLSAGTKLNGLC  444 (486)
Q Consensus       385 ~v~kv~-~~~~~~~~~~~a~k~~~~~~Gv~~v~~d~~~~~~~V~G~~~d~~~~~~~l~k~~  444 (486)
                      +.++|. |+|..|.  .++.+.+.+++||.++.+|...++++|.++ +|+..+.+.|.+.|
T Consensus         3 ~~l~V~gM~C~~C~--~~Ie~~l~~~~gv~~v~v~~~~~~v~v~~~-~~~~~i~~~i~~~G   60 (64)
T d1sb6a_           3 IQLTVPTIACEACA--EAVTKAVQNEDAQATVQVDLTSKKVTITSA-LGEEQLRTAIASAG   60 (64)
T ss_dssp             EEEECTTTTSSSCT--HHHHHHHHHHCTTCEEEEETTTTEEEEESS-SCHHHHHHHHHHHC
T ss_pred             EEEEECCccchhHH--HHHHHHHhcCCCeeEEEccCCCCEEEEccC-CCHHHHHHHHHHcC
Confidence            567775 9999999  999999999999999999999999999999 99999999998877

>d1osda_ d.58.17.1 (A:) Mercuric ion binding protein MerP {Ralstonia metallidurans CH34 [TaxId: 266264]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: HMA, heavy metal-associated domain
family: HMA, heavy metal-associated domain
domain: Mercuric ion binding protein MerP
species: Ralstonia metallidurans CH34 [TaxId: 266264]

Probab=98.41  E-value=3.6e-07  Score=68.13  Aligned_cols=65  Identities=11%  Similarity=0.148  Sum_probs=58.6

Q ss_pred             ceeeeeecc-ccccchhhHHHHHHHhhcCCCeeEEEeecCCCeEEEEee--ccCHHHHHHHhhccc-ceeE
Q 011431          382 FKEAIFKLE-IHHDNLEAWRAAFSIVSEFIGITKISFDFKVKKMTVVGD--NFDVLSAGTKLNGLC-RTEL  448 (486)
Q Consensus       382 ~~~~v~kv~-~~~~~~~~~~~a~k~~~~~~Gv~~v~~d~~~~~~~V~G~--~~d~~~~~~~l~k~~-~~~~  448 (486)
                      .|.++++|+ |+|..|.  ..+.+.+.+.|||.++.+|+..++++|+-+  .+|+..+.+.|++.| .|++
T Consensus         2 tqt~~l~V~Gm~C~~C~--~~Ie~~l~~~~gV~~v~v~~~~~~~~v~~~~~~~~~~~i~~~i~~~Gy~a~v   70 (72)
T d1osda_           2 TQTVTLSVPGMTCSACP--ITVKKAISKVEGVSKVDVTFETRQAVVTFDDAKTSVQKLTKATADAGYPSSV   70 (72)
T ss_dssp             EEEEEEECTTCCSTTHH--HHHHHHHHTSTTEEEEEEETTTTEEEEEEETTTCCHHHHHHHHHHTTCCCEE
T ss_pred             CeEEEEEECCcccHHHH--HHHHHHHHcCCCcEEEEEEcCCCEEEEEECCCCCCHHHHHHHHHhcCCCeEe
Confidence            367889987 9999999  999999999999999999999999999854  389999999999988 6765

>d2aw0a_ d.58.17.1 (A:) Menkes copper-transporting ATPase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: HMA, heavy metal-associated domain
family: HMA, heavy metal-associated domain
domain: Menkes copper-transporting ATPase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.27  E-value=6.9e-07  Score=66.55  Aligned_cols=65  Identities=12%  Similarity=0.154  Sum_probs=58.5

Q ss_pred             ceeeeeecc-ccccchhhHHHHHHHhhcCCCeeEEEeecCCCeEEEEee--ccCHHHHHHHhhccc-ceeE
Q 011431          382 FKEAIFKLE-IHHDNLEAWRAAFSIVSEFIGITKISFDFKVKKMTVVGD--NFDVLSAGTKLNGLC-RTEL  448 (486)
Q Consensus       382 ~~~~v~kv~-~~~~~~~~~~~a~k~~~~~~Gv~~v~~d~~~~~~~V~G~--~~d~~~~~~~l~k~~-~~~~  448 (486)
                      .|+++|+|+ |+|..|.  ..+.+.+.+.+||.++.++...++++|.-+  .+++..+.+.|++.| .|.+
T Consensus         2 t~~~~l~V~GM~C~~C~--~~Ie~~l~~~~GV~~v~v~~~~~~v~v~~d~~~~~~~~i~~~i~~~Gy~a~l   70 (72)
T d2aw0a_           2 TQETVINIDGMTCNSCV--QSIEGVISKKPGVKSIRVSLANSNGTVEYDPLLTSPETLRGAIEDMGFDATL   70 (72)
T ss_dssp             CEEEEEEEECCCSHHHH--HHHHHHHHTSTTCCCEEEETTTTEEEEEECTTTCCHHHHHHHHHHHTSEEEE
T ss_pred             cEEEEEEECCcccHHHH--HHHHHHHhcCCCcEEEEEECCCCEEEEEECCCCCCHHHHHHHHHhhCCCcEe
Confidence            478899997 9999999  999999999999999999999999999843  389999999999988 5654

>d2qifa1 d.58.17.1 (A:1-69) Copper chaperone {Bacillus subtilis, CopZ [TaxId: 1423]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: HMA, heavy metal-associated domain
family: HMA, heavy metal-associated domain
domain: Copper chaperone
species: Bacillus subtilis, CopZ [TaxId: 1423]

Probab=98.23  E-value=1.2e-06  Score=64.54  Aligned_cols=61  Identities=15%  Similarity=0.255  Sum_probs=55.4

Q ss_pred             ceeeeeecc-ccccchhhHHHHHHHhhcCCCeeEEEeecCCCeEEEEee--ccCHHHHHHHhhccc
Q 011431          382 FKEAIFKLE-IHHDNLEAWRAAFSIVSEFIGITKISFDFKVKKMTVVGD--NFDVLSAGTKLNGLC  444 (486)
Q Consensus       382 ~~~~v~kv~-~~~~~~~~~~~a~k~~~~~~Gv~~v~~d~~~~~~~V~G~--~~d~~~~~~~l~k~~  444 (486)
                      +++..++|+ |+|..|.  ..+.+.+.+.|||.++.+|...++++|..+  .+++..+.+.|++.|
T Consensus         1 M~~~tl~V~Gm~C~~C~--~~Ie~~l~~~~GV~~v~v~~~~~~v~v~~d~~~~~~~~i~~~i~~~G   64 (69)
T d2qifa1           1 MEQKTLQVEGMSCQHCV--KAVETSVGELDGVSAVHVNLEAGKVDVSFDADKVSVKDIADAIEDQG   64 (69)
T ss_dssp             CEEEEEEEECCCSHHHH--HHHHHHHHTSTTEEEEEEETTTTEEEEEECTTTCCHHHHHHHHHHTT
T ss_pred             CcEEEEEECCccCHHHH--HHHHHHHhcCCCceEEEEECCCCEEEEEECCCCCCHHHHHHHHHHhC
Confidence            356778885 9999999  999999999999999999999999999975  389999999999877

>d1q8la_ d.58.17.1 (A:) Menkes copper-transporting ATPase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: HMA, heavy metal-associated domain
family: HMA, heavy metal-associated domain
domain: Menkes copper-transporting ATPase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.23  E-value=1.6e-06  Score=66.49  Aligned_cols=68  Identities=10%  Similarity=0.115  Sum_probs=59.6

Q ss_pred             cceeeeeecc-ccccchhhHHHHHHHhhcCCCeeEEEeecCCCeEEEEee--ccCHHHHHHHhhccc-ceeEEe
Q 011431          381 TFKEAIFKLE-IHHDNLEAWRAAFSIVSEFIGITKISFDFKVKKMTVVGD--NFDVLSAGTKLNGLC-RTELVS  450 (486)
Q Consensus       381 k~~~~v~kv~-~~~~~~~~~~~a~k~~~~~~Gv~~v~~d~~~~~~~V~G~--~~d~~~~~~~l~k~~-~~~~~~  450 (486)
                      ....+.|+|+ |+|..|.  .++.+.+.++|||.++++|...++++|+-+  .+++..+.+.|++.| .|.+..
T Consensus         7 ~~~~v~l~V~GMtC~~C~--~~Ie~~l~~~~GV~~v~vn~~~~~v~v~~~~~~~~~~~i~~~I~~~Gy~a~~~~   78 (84)
T d1q8la_           7 GEVVLKMKVEGMTCHSCT--STIEGKIGKLQGVQRIKVSLDNQEATIVYQPHLISVEEMKKQIEAMGFPAFVKK   78 (84)
T ss_dssp             SCEEEEEEECCTTTCSSC--HHHHHHHHTCTTEEEEEECSTTTEEEEEECTTTCCHHHHHHHHHHTTCCEECSC
T ss_pred             CCEEEEEEECCeEcHHHH--HHHHHHHhcCCCceEEEEECCCCEEceeecccccCHHHHHHHHHHhCCccEEcC
Confidence            3467778887 9999999  999999999999999999999999999955  289999999999998 566553

>d1p6ta2 d.58.17.1 (A:73-151) Potential copper-translocating P-type ATPase CopA (YvgX) {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: HMA, heavy metal-associated domain
family: HMA, heavy metal-associated domain
domain: Potential copper-translocating P-type ATPase CopA (YvgX)
species: Bacillus subtilis [TaxId: 1423]

Probab=98.21  E-value=1.5e-06  Score=65.91  Aligned_cols=65  Identities=15%  Similarity=0.228  Sum_probs=58.0

Q ss_pred             eeeeeecc-ccccchhhHHHHHHHhhcCCCeeEEEeecCCCeEEEEee--ccCHHHHHHHhhccc-ceeEE
Q 011431          383 KEAIFKLE-IHHDNLEAWRAAFSIVSEFIGITKISFDFKVKKMTVVGD--NFDVLSAGTKLNGLC-RTELV  449 (486)
Q Consensus       383 ~~~v~kv~-~~~~~~~~~~~a~k~~~~~~Gv~~v~~d~~~~~~~V~G~--~~d~~~~~~~l~k~~-~~~~~  449 (486)
                      +++.++|+ |+|..|.  .++.+.+...+||.++.+|...++++|+-+  .+++..+.+.|++.| .+.+.
T Consensus         2 ~k~~~~V~Gm~C~~C~--~~Ie~~l~~~~gV~~v~v~~~~~~~~v~~~~~~~~~~~i~~~i~~~Gy~~~~~   70 (79)
T d1p6ta2           2 EKAEFDIEGMTCAACA--NRIEKRLNKIEGVANAPVNFALETVTVEYNPKEASVSDLKEAVDKLGYKLKLK   70 (79)
T ss_dssp             EEEEEEESSCCSSSHH--HHHHHHHTTSSSEEECCEETTTTEEEEEECTTTCCHHHHHHHHHHHTCCEEES
T ss_pred             eEEEEEECCcccHHHH--HHHHHHHhcCCCcEEEEEEeCCCEEEEEECCCCCCHHHHHHHHHHHCCceEEC
Confidence            56778887 9999999  999999999999999999999999999854  379999999999999 56653

>d1p6ta1 d.58.17.1 (A:1-72) Potential copper-translocating P-type ATPase CopA (YvgX) {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: HMA, heavy metal-associated domain
family: HMA, heavy metal-associated domain
domain: Potential copper-translocating P-type ATPase CopA (YvgX)
species: Bacillus subtilis [TaxId: 1423]

Probab=98.20  E-value=1.4e-06  Score=64.89  Aligned_cols=63  Identities=13%  Similarity=0.168  Sum_probs=56.7

Q ss_pred             Ccceeeeeecc-ccccchhhHHHHHHHhhcCCCeeEEEeecCCCeEEEE---eeccCHHHHHHHhhcccc
Q 011431          380 STFKEAIFKLE-IHHDNLEAWRAAFSIVSEFIGITKISFDFKVKKMTVV---GDNFDVLSAGTKLNGLCR  445 (486)
Q Consensus       380 ~k~~~~v~kv~-~~~~~~~~~~~a~k~~~~~~Gv~~v~~d~~~~~~~V~---G~~~d~~~~~~~l~k~~~  445 (486)
                      .+.+++.++|. |+|..|.  .++.+.+.+.+||.++.+|...++++|+   |. .++..+.+.|++.|+
T Consensus         3 s~~~~~~l~V~Gm~C~~C~--~~Ie~~l~~~~gV~~v~v~~~~~~~~v~~d~~~-~~~~~i~~~i~~~Gy   69 (72)
T d1p6ta1           3 SEQKEIAMQVSGMTCAACA--ARIEKGLKRMPGVTDANVNLATETVNVIYDPAE-TGTAAIQEKIEKLGY   69 (72)
T ss_dssp             CCCEEEEEEEESCCSSHHH--HHHHHHHTTSSSEEEEEEEGGGTEEEEEECTTT-SCHHHHHHHHHHHTC
T ss_pred             CCceEEEEEECCeecHHHH--HHHHHHHHcCCCcEEEEEEcCCCEEEEEECCCC-CCHHHHHHHHHHhCC
Confidence            45578889997 9999999  9999999999999999999999999997   44 899999999998773

>d1cpza_ d.58.17.1 (A:) Copper chaperone {Enterococcus hirae [TaxId: 1354]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: HMA, heavy metal-associated domain
family: HMA, heavy metal-associated domain
domain: Copper chaperone
species: Enterococcus hirae [TaxId: 1354]

Probab=98.18  E-value=1.7e-06  Score=63.53  Aligned_cols=61  Identities=20%  Similarity=0.289  Sum_probs=54.2

Q ss_pred             eecc-ccccchhhHHHHHHHhhcCCCeeEEEeecCCCeEEEEee--ccCHHHHHHHhhccc-ceeEE
Q 011431          387 FKLE-IHHDNLEAWRAAFSIVSEFIGITKISFDFKVKKMTVVGD--NFDVLSAGTKLNGLC-RTELV  449 (486)
Q Consensus       387 ~kv~-~~~~~~~~~~~a~k~~~~~~Gv~~v~~d~~~~~~~V~G~--~~d~~~~~~~l~k~~-~~~~~  449 (486)
                      ++|+ |+|..|.  .++.+.+.+++||.++.+|...++++|+-+  .+++..+.+.|++.| .|+++
T Consensus         4 l~V~GM~C~~C~--~~Ie~~l~~~~GV~~v~V~~~~~~v~v~~d~~~~~~~~i~~~i~~~Gy~a~vi   68 (68)
T d1cpza_           4 FSVKGMSCNHCV--ARIEEAVGRISGVKKVKVQLKKEKAVVKFDEANVQATEICQAINELGYQAEVI   68 (68)
T ss_dssp             EEESCCCSSSHH--HHHHHHHHTSTTEEEEEEETTTTEEEEEECTTTCCHHHHHHHHHTTSSCEEEC
T ss_pred             EEECCeEcHHHH--HHHHHHHhcCCCcEEEEEECCCCEEEEEECCCCCCHHHHHHHHHhhCCCcEEC
Confidence            3454 9999999  999999999999999999999999999954  389999999999988 67764

>d1kvja_ d.58.17.1 (A:) Menkes copper-transporting ATPase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: HMA, heavy metal-associated domain
family: HMA, heavy metal-associated domain
domain: Menkes copper-transporting ATPase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.15  E-value=1.9e-06  Score=65.37  Aligned_cols=68  Identities=9%  Similarity=0.112  Sum_probs=60.4

Q ss_pred             ceeeeeecc-ccccchhhHHHHHHHhhcCCCeeEEEeecCCCeEEEEee--ccCHHHHHHHhhccc-ceeEEec
Q 011431          382 FKEAIFKLE-IHHDNLEAWRAAFSIVSEFIGITKISFDFKVKKMTVVGD--NFDVLSAGTKLNGLC-RTELVSF  451 (486)
Q Consensus       382 ~~~~v~kv~-~~~~~~~~~~~a~k~~~~~~Gv~~v~~d~~~~~~~V~G~--~~d~~~~~~~l~k~~-~~~~~~~  451 (486)
                      .+++.|.|+ |+|..|.  ..+.+.+.+.|||.++.+|...++++|.-+  .+++..+.+.|++.| .|.+.++
T Consensus         7 ~~~~~l~V~gm~C~~C~--~~ie~~l~~~~gv~~v~v~~~~~~v~v~~d~~~~~~~~i~~~i~~~GY~~~~~~~   78 (79)
T d1kvja_           7 VNSVTISVEGMTCNSCV--WTIEQQIGKVNGVHHIKVSLEEKNATIIYDPKLQTPKTLQEAIDDMGFDAVIHNP   78 (79)
T ss_dssp             CEEEEEEEESCCSTHHH--HHHHHHHHTTTTCSEEEEETTTTEEEEEECTTTCCHHHHHHHHHHHTCEEEECSC
T ss_pred             ceEEEEEECCeecHHHH--HHHHHHHhcCCCceEEEEECCCCEEEEEECCCCCCHHHHHHHHHhcCCCcEeCCC
Confidence            567888886 9999999  999999999999999999999999999953  389999999999988 6766543

>d1mwza_ d.58.17.1 (A:) Metal ion-transporting ATPase ZntA, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: HMA, heavy metal-associated domain
family: HMA, heavy metal-associated domain
domain: Metal ion-transporting ATPase ZntA, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=98.08  E-value=3.6e-06  Score=62.69  Aligned_cols=61  Identities=16%  Similarity=0.186  Sum_probs=54.3

Q ss_pred             eeeeeecc-ccccchhhHHHHHHHhhcCCCeeEEEeecCCCeEEEEeeccCHHHHHHHhhcccc
Q 011431          383 KEAIFKLE-IHHDNLEAWRAAFSIVSEFIGITKISFDFKVKKMTVVGDNFDVLSAGTKLNGLCR  445 (486)
Q Consensus       383 ~~~v~kv~-~~~~~~~~~~~a~k~~~~~~Gv~~v~~d~~~~~~~V~G~~~d~~~~~~~l~k~~~  445 (486)
                      ++..++|. |+|..|.  .++.+.+.+++||.++++|+..++++|..+.-++..+.+.|.+.|+
T Consensus         3 ~k~~~~V~Gm~C~~C~--~~Ie~~l~~~~gV~~v~v~~~~~~~~v~~~~~~~~~i~~~i~~~GY   64 (73)
T d1mwza_           3 TRYSWKVSGMDCAACA--RKVENAVRQLAGVNQVQVLFATEKLVVDADNDIRAQVESALQKAGY   64 (73)
T ss_dssp             CCEEEECTTCCSHHHH--HHHHHHHHTSSSEEEEEEETTTTEEEEEESSCCHHHHHHHHHHHTC
T ss_pred             CEEEEEECCcCCHHHH--HHHHHHHhcCCCceEEEEECCCCEEEEEECCCCHHHHHHHHHHcCC
Confidence            45667787 9999999  9999999999999999999999999999885567889999888773

>d1sxjb2 c.37.1.20 (B:7-230) Replication factor C4 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C4
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=95.50  E-value=0.011  Score=52.44  Aligned_cols=146  Identities=6%  Similarity=0.003  Sum_probs=71.4

Q ss_pred             HHHHHHHhhcCCCceeeeeeeccCccchhHHHHHHHhhhccccccceEEEEee--eccHHHHHHHHhhhhcccccccccc
Q 011431          214 LDEVLSLLRNAEGYRSYRCWLLCPLFSELRVLTNDVHQLMDNYENSDVTLAKF--EGEVKKLDQRLLRFLESVDKHVASY  291 (486)
Q Consensus       214 l~~v~~ll~~~~~~~vi~I~GmGgGvGKTTLa~~vy~~~~~~F~~~~~~~v~~--~~~l~~lqk~ll~~L~~~d~~~~~~  291 (486)
                      ++.+...+... .+..+=++|.. |+||||+|+.+-+.+...+..........  ..+...+...+.......       
T Consensus        24 ~~~L~~~~~~~-~~~~~ll~Gp~-G~GKTt~a~~la~~l~~~~~~~~~~~~n~~~~~~~~~i~~~~~~~~~~~-------   94 (224)
T d1sxjb2          24 IDRLQQIAKDG-NMPHMIISGMP-GIGKTTSVHCLAHELLGRSYADGVLELNASDDRGIDVVRNQIKHFAQKK-------   94 (224)
T ss_dssp             HHHHHHHHHSC-CCCCEEEECST-TSSHHHHHHHHHHHHHGGGHHHHEEEECTTSCCSHHHHHTHHHHHHHBC-------
T ss_pred             HHHHHHHHHcC-CCCeEEEECCC-CCCchhhHHHHHHHHhccccccccccccccccCCceehhhHHHHHHHhh-------
Confidence            34444444432 33334489999 99999999988776654332211111111  112222221211111100       


Q ss_pred             cccccccccccccccCcceeeceecccCH--HHHHHHhcCCCCCCCCCEEEeeCCccc-cccccccCCCceEecCCCCCc
Q 011431          292 DRYGSASFEQPRPQTTSAAHPYVEDVIDD--AYMEDITDDSSPSLNLSRINSTSRFEQ-LWPETISATDTCTEDVTVDNS  368 (486)
Q Consensus       292 ~~~g~~s~l~~~L~~tKr~LlVLDDVw~~--~~~~~l~~~~~~~~~GSrIIiTTR~~~-V~~~~~~~~~~~y~v~~L~~~  368 (486)
                       . .       .... +..++++|++...  .....++...-......++++||.+.+ +.. ........+++++++.+
T Consensus        95 -~-~-------~~~~-~~kviiiDe~d~~~~~~~~~ll~~~e~~~~~~~~i~~~~~~~~i~~-~l~sr~~~i~~~~~~~~  163 (224)
T d1sxjb2          95 -L-H-------LPPG-KHKIVILDEADSMTAGAQQALRRTMELYSNSTRFAFACNQSNKIIE-PLQSQCAILRYSKLSDE  163 (224)
T ss_dssp             -C-C-------CCTT-CCEEEEEESGGGSCHHHHHTTHHHHHHTTTTEEEEEEESCGGGSCH-HHHTTSEEEECCCCCHH
T ss_pred             -c-c-------CCCc-ceEEEEEecccccchhHHHHHhhhccccccceeeeeccCchhhhhh-HHHHHHHHhhhcccchh
Confidence             0 0       1112 5567888988742  222333211101233556666655443 431 11123357899999999


Q ss_pred             hhhhhhcccCC
Q 011431          369 PSLNLSSCNSS  379 (486)
Q Consensus       369 es~~LF~~~a~  379 (486)
                      +-...+.+.+.
T Consensus       164 ~i~~~l~~i~~  174 (224)
T d1sxjb2         164 DVLKRLLQIIK  174 (224)
T ss_dssp             HHHHHHHHHHH
T ss_pred             hhHHHHHHHHH
Confidence            88887776554

>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=95.36  E-value=0.01  Score=52.62  Aligned_cols=144  Identities=4%  Similarity=-0.091  Sum_probs=69.3

Q ss_pred             HHHHHHhhcCCCceeeeeeeccCccchhHHHHHHHhhhccccccceEEEEeee--ccHHHHHHHHhhhhccccccccccc
Q 011431          215 DEVLSLLRNAEGYRSYRCWLLCPLFSELRVLTNDVHQLMDNYENSDVTLAKFE--GEVKKLDQRLLRFLESVDKHVASYD  292 (486)
Q Consensus       215 ~~v~~ll~~~~~~~vi~I~GmGgGvGKTTLa~~vy~~~~~~F~~~~~~~v~~~--~~l~~lqk~ll~~L~~~d~~~~~~~  292 (486)
                      +.+...+... ....+=++|.. |.||||+|+.+.+.+........+......  .+............           
T Consensus        24 ~~L~~~i~~~-~~~~lLl~Gp~-G~GKttl~~~la~~l~~~~~~~~~~e~~~~~~~~~~~~~~~~~~~~-----------   90 (227)
T d1sxjc2          24 TTVRKFVDEG-KLPHLLFYGPP-GTGKTSTIVALAREIYGKNYSNMVLELNASDDRGIDVVRNQIKDFA-----------   90 (227)
T ss_dssp             HHHHHHHHTT-CCCCEEEECSS-SSSHHHHHHHHHHHHHTTSHHHHEEEECTTSCCSHHHHHTHHHHHH-----------
T ss_pred             HHHHHHHHcC-CCCeEEEECCC-CCChhHHHHHHHHHhhcCCCcceeEEecccccCCeeeeecchhhcc-----------
Confidence            3344444332 33334489999 999999999998765432111111111111  11211111110000           


Q ss_pred             ccccccccccccccCcceeeceecccCH--HHHHHHhcCCCCCCCCCEEEeeCCccccccccccCCCceEecCCCCCchh
Q 011431          293 RYGSASFEQPRPQTTSAAHPYVEDVIDD--AYMEDITDDSSPSLNLSRINSTSRFEQLWPETISATDTCTEDVTVDNSPS  370 (486)
Q Consensus       293 ~~g~~s~l~~~L~~tKr~LlVLDDVw~~--~~~~~l~~~~~~~~~GSrIIiTTR~~~V~~~~~~~~~~~y~v~~L~~~es  370 (486)
                            ..+..... +...+++|++...  ..-..++...-.....++++++|.+..-...........+++++++.++-
T Consensus        91 ------~~~~~~~~-~~kiiiiDe~d~~~~~~~~~Ll~~le~~~~~~~~~~~~~~~~~i~~~i~sr~~~i~~~~~~~~~i  163 (227)
T d1sxjc2          91 ------STRQIFSK-GFKLIILDEADAMTNAAQNALRRVIERYTKNTRFCVLANYAHKLTPALLSQCTRFRFQPLPQEAI  163 (227)
T ss_dssp             ------HBCCSSSC-SCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHTTSEEEECCCCCHHHH
T ss_pred             ------ccccccCC-CeEEEEEeccccchhhHHHHHHHHhhhcccceeeccccCcHHHhHHHHHHHHhhhcccccccccc
Confidence                  00111222 4567888998743  33233332111233467777777654422111112335678888988887


Q ss_pred             hhhhcccC
Q 011431          371 LNLSSCNS  378 (486)
Q Consensus       371 ~~LF~~~a  378 (486)
                      ..+..+-+
T Consensus       164 ~~~l~~I~  171 (227)
T d1sxjc2         164 ERRIANVL  171 (227)
T ss_dssp             HHHHHHHH
T ss_pred             cccccccc
Confidence            77666544

>d1sxje2 c.37.1.20 (E:4-255) Replication factor C5 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C5
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=95.30  E-value=0.0087  Score=53.86  Aligned_cols=70  Identities=6%  Similarity=-0.138  Sum_probs=37.9

Q ss_pred             cceeeceecccC--HHHHHHHhcCCCCCCCCCEEEeeCCccccccccccCCCceEecCCCCCchhhhhhccc
Q 011431          308 SAAHPYVEDVID--DAYMEDITDDSSPSLNLSRINSTSRFEQLWPETISATDTCTEDVTVDNSPSLNLSSCN  377 (486)
Q Consensus       308 Kr~LlVLDDVw~--~~~~~~l~~~~~~~~~GSrIIiTTR~~~V~~~~~~~~~~~y~v~~L~~~es~~LF~~~  377 (486)
                      +..++++|++..  ......+....-......++|+||.+.+-........-..+++.+++.++..+.+..-
T Consensus       131 ~~~iiiide~d~l~~~~~~~l~~~~e~~~~~~~~Il~tn~~~~i~~~l~sR~~~i~~~~~~~~~~~~~l~~i  202 (252)
T d1sxje2         131 RYKCVIINEANSLTKDAQAALRRTMEKYSKNIRLIMVCDSMSPIIAPIKSQCLLIRCPAPSDSEISTILSDV  202 (252)
T ss_dssp             CCEEEEEECTTSSCHHHHHHHHHHHHHSTTTEEEEEEESCSCSSCHHHHTTSEEEECCCCCHHHHHHHHHHH
T ss_pred             CceEEEeccccccccccchhhhcccccccccccceeeeccccchhhhhhcchheeeecccchhhHHHHHHHH
Confidence            455788898764  2333333311101344577777776554221111111246778999999888877543

>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=94.40  E-value=0.079  Score=47.21  Aligned_cols=71  Identities=8%  Similarity=-0.118  Sum_probs=39.7

Q ss_pred             cceeeceecccCH--HHHHHHhcCCCCCCCCCEEEeeCCccccccccccCCCceEecCCCCCchhhhhhcccC
Q 011431          308 SAAHPYVEDVIDD--AYMEDITDDSSPSLNLSRINSTSRFEQLWPETISATDTCTEDVTVDNSPSLNLSSCNS  378 (486)
Q Consensus       308 Kr~LlVLDDVw~~--~~~~~l~~~~~~~~~GSrIIiTTR~~~V~~~~~~~~~~~y~v~~L~~~es~~LF~~~a  378 (486)
                      +..++|+|++..-  ..-..|+...-+....+++|+||.+.+-+..........+.+.+++.++-.......+
T Consensus       115 ~~kviiIde~d~l~~~~q~~Llk~lE~~~~~~~~il~tn~~~~i~~~i~SRc~~i~~~~~~~~~i~~~l~~i~  187 (239)
T d1njfa_         115 RFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKLPVTILSRCLQFHLKALDVEQIRHQLEHIL  187 (239)
T ss_dssp             SSEEEEEETGGGSCHHHHHHHHHHHHSCCTTEEEEEEESCGGGSCHHHHTTSEEEECCCCCHHHHHHHHHHHH
T ss_pred             CCEEEEEECcccCCHHHHHHHHHHHhcCCCCeEEEEEcCCccccChhHhhhhcccccccCcHHHhhhHHHHHH
Confidence            5568899998852  2223333111012346677777766553321111223567899999888777665443

>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=93.87  E-value=0.049  Score=47.71  Aligned_cols=69  Identities=12%  Similarity=-0.009  Sum_probs=42.8

Q ss_pred             cceeeceecccC--HHHHHHHhcCCCCCCCCCEEEeeCCccc-cccccccCCCceEecCCCCCchhhhhhccc
Q 011431          308 SAAHPYVEDVID--DAYMEDITDDSSPSLNLSRINSTSRFEQ-LWPETISATDTCTEDVTVDNSPSLNLSSCN  377 (486)
Q Consensus       308 Kr~LlVLDDVw~--~~~~~~l~~~~~~~~~GSrIIiTTR~~~-V~~~~~~~~~~~y~v~~L~~~es~~LF~~~  377 (486)
                      ++.++|+|++..  ......++...-+.....++|+||++.+ ++.. ...-...+.+.+++.++....+...
T Consensus       108 ~~kviIide~d~l~~~a~n~Llk~lEep~~~~~fIl~t~~~~~ll~t-I~SRc~~i~~~~~~~~~~~~~L~~~  179 (207)
T d1a5ta2         108 GAKVVWVTDAALLTDAAANALLKTLEEPPAETWFFLATREPERLLAT-LRSRCRLHYLAPPPEQYAVTWLSRE  179 (207)
T ss_dssp             SCEEEEESCGGGBCHHHHHHHHHHHTSCCTTEEEEEEESCGGGSCHH-HHTTSEEEECCCCCHHHHHHHHHHH
T ss_pred             ccceEEechhhhhhhhhhHHHHHHHHhhcccceeeeeecChhhhhhh-hcceeEEEecCCCCHHHHHHHHHHc
Confidence            566899999874  3344444421102235788888777755 5421 1112357899999999988887643

>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=93.77  E-value=0.014  Score=49.10  Aligned_cols=25  Identities=0%  Similarity=-0.263  Sum_probs=21.8

Q ss_pred             ceeeeeeeccCccchhHHHHHHHhhh
Q 011431          227 YRSYRCWLLCPLFSELRVLTNDVHQL  252 (486)
Q Consensus       227 ~~vi~I~GmGgGvGKTTLa~~vy~~~  252 (486)
                      ++.|.|.|.. |.||||||+.+-++.
T Consensus         7 ~K~I~i~G~~-GsGKTTla~~La~~~   31 (192)
T d1lw7a2           7 AKTVAILGGE-SSGKSVLVNKLAAVF   31 (192)
T ss_dssp             CEEEEEECCT-TSHHHHHHHHHHHHT
T ss_pred             ceEEEEECCC-CCCHHHHHHHHHHHh
Confidence            5678899999 999999999987764

>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=93.47  E-value=0.042  Score=46.75  Aligned_cols=30  Identities=10%  Similarity=-0.078  Sum_probs=25.3

Q ss_pred             CCCceeeeeeeccCccchhHHHHHHHhhhcc
Q 011431          224 AEGYRSYRCWLLCPLFSELRVLTNDVHQLMD  254 (486)
Q Consensus       224 ~~~~~vi~I~GmGgGvGKTTLa~~vy~~~~~  254 (486)
                      ..+..+|||-|-. |-||||||+.+...+..
T Consensus        19 ~~~~~iIgI~G~~-GSGKSTla~~L~~~l~~   48 (198)
T d1rz3a_          19 TAGRLVLGIDGLS-RSGKTTLANQLSQTLRE   48 (198)
T ss_dssp             CSSSEEEEEEECT-TSSHHHHHHHHHHHHHH
T ss_pred             CCCCEEEEEECCC-CCCHHHHHHHHHHHhcc
Confidence            4577899999999 99999999999776543

>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=93.38  E-value=0.015  Score=48.43  Aligned_cols=27  Identities=7%  Similarity=-0.117  Sum_probs=22.7

Q ss_pred             ceeeeeeeccCccchhHHHHHHHhhhcc
Q 011431          227 YRSYRCWLLCPLFSELRVLTNDVHQLMD  254 (486)
Q Consensus       227 ~~vi~I~GmGgGvGKTTLa~~vy~~~~~  254 (486)
                      +.+++|.|.. |.|||||++.+-+.+..
T Consensus         2 ~Pvi~itG~~-GSGKTTL~~~L~~~l~~   28 (170)
T d1np6a_           2 IPLLAFAAWS-GTGKTTLLKKLIPALCA   28 (170)
T ss_dssp             CCEEEEECCT-TSCHHHHHHHHHHHHHH
T ss_pred             CCEEEEEcCC-CCCHHHHHHHHHHHHHH
Confidence            3689999999 99999999999776543

>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=93.06  E-value=0.044  Score=48.39  Aligned_cols=154  Identities=8%  Similarity=-0.001  Sum_probs=70.2

Q ss_pred             HHHHHHhhcCCCceeeeeeeccCccchhHHHHHHHhhhccccc-cceEEEE--eeeccHHHHHHHHhhhhcccccccccc
Q 011431          215 DEVLSLLRNAEGYRSYRCWLLCPLFSELRVLTNDVHQLMDNYE-NSDVTLA--KFEGEVKKLDQRLLRFLESVDKHVASY  291 (486)
Q Consensus       215 ~~v~~ll~~~~~~~vi~I~GmGgGvGKTTLa~~vy~~~~~~F~-~~~~~~v--~~~~~l~~lqk~ll~~L~~~d~~~~~~  291 (486)
                      +.+..++... ....+=++|-. |.||||+++.+.+++..... .......  ............+-..... .  ... 
T Consensus        22 ~~l~~~i~~~-~~~~lll~Gp~-G~GKTtl~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~--~~~-   95 (237)
T d1sxjd2          22 TVLKKTLKSA-NLPHMLFYGPP-GTGKTSTILALTKELYGPDLMKSRILELNASDERGISIVREKVKNFARL-T--VSK-   95 (237)
T ss_dssp             HHHHHHTTCT-TCCCEEEECST-TSSHHHHHHHHHHHHHHHHHHTTSEEEECSSSCCCHHHHTTHHHHHHHS-C--CCC-
T ss_pred             HHHHHHHHcC-CCCeEEEECCC-CCChHHHHHHHHHHHcCCcccccchhheeccccccchHHHHHHHHHhhh-h--hhh-
Confidence            4444555432 23335589999 99999999999887633211 1111111  1112221111111110000 0  000 


Q ss_pred             cccccccccccccccCcceeeceecccC--HHHHHHHhcCCCCCCCCCEEEeeCCcc-ccccccccCCCceEecCCCCCc
Q 011431          292 DRYGSASFEQPRPQTTSAAHPYVEDVID--DAYMEDITDDSSPSLNLSRINSTSRFE-QLWPETISATDTCTEDVTVDNS  368 (486)
Q Consensus       292 ~~~g~~s~l~~~L~~tKr~LlVLDDVw~--~~~~~~l~~~~~~~~~GSrIIiTTR~~-~V~~~~~~~~~~~y~v~~L~~~  368 (486)
                         .....+...... +.-.||+|++..  ......+...........++|+||.+. .++.. .......+++++++.+
T Consensus        96 ---~~~~~~~~~~~~-~~~viiiDe~d~l~~~~~~~l~~~~~~~~~~~~~i~~~~~~~~~~~~-l~sr~~~i~f~~~~~~  170 (237)
T d1sxjd2          96 ---PSKHDLENYPCP-PYKIIILDEADSMTADAQSALRRTMETYSGVTRFCLICNYVTRIIDP-LASQCSKFRFKALDAS  170 (237)
T ss_dssp             ---CCTTHHHHSCCC-SCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHH-HHHHSEEEECCCCCHH
T ss_pred             ---hhHHHHhhcccc-CceEEEEecccccCHHHHHHHhhcccccccccccccccccccccccc-ccchhhhhcccccccc
Confidence               000111122233 445689998763  223332221000122345666665443 33321 1111246889999999


Q ss_pred             hhhhhhcccCC
Q 011431          369 PSLNLSSCNSS  379 (486)
Q Consensus       369 es~~LF~~~a~  379 (486)
                      +...++..-+.
T Consensus       171 ~~~~~L~~i~~  181 (237)
T d1sxjd2         171 NAIDRLRFISE  181 (237)
T ss_dssp             HHHHHHHHHHH
T ss_pred             ccchhhhhhhh
Confidence            98888766543

>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=92.99  E-value=0.053  Score=47.91  Aligned_cols=37  Identities=3%  Similarity=-0.126  Sum_probs=24.9

Q ss_pred             HHHHHHhhcCCCceeeeeeeccCccchhHHHHHHHhhhc
Q 011431          215 DEVLSLLRNAEGYRSYRCWLLCPLFSELRVLTNDVHQLM  253 (486)
Q Consensus       215 ~~v~~ll~~~~~~~vi~I~GmGgGvGKTTLa~~vy~~~~  253 (486)
                      +.+...+... ....+=++|-. |+||||+|+.+-+.+.
T Consensus        34 ~~l~~~i~~~-~~~~lll~Gp~-G~GKTtla~~iak~l~   70 (231)
T d1iqpa2          34 KRLKHYVKTG-SMPHLLFAGPP-GVGKTTAALALARELF   70 (231)
T ss_dssp             HHHHHHHHHT-CCCEEEEESCT-TSSHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcC-CCCeEEEECCC-CCcHHHHHHHHHHHHH
Confidence            3344444332 23334589999 9999999999877654

>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=92.95  E-value=0.022  Score=50.32  Aligned_cols=127  Identities=9%  Similarity=-0.067  Sum_probs=67.0

Q ss_pred             eeeeeccCccchhHHHHHHHhhhccccccceEEEEeeeccHHHHHHHHhhhhcccccccccccccccccccccccccCcc
Q 011431          230 YRCWLLCPLFSELRVLTNDVHQLMDNYENSDVTLAKFEGEVKKLDQRLLRFLESVDKHVASYDRYGSASFEQPRPQTTSA  309 (486)
Q Consensus       230 i~I~GmGgGvGKTTLa~~vy~~~~~~F~~~~~~~v~~~~~l~~lqk~ll~~L~~~d~~~~~~~~~g~~s~l~~~L~~tKr  309 (486)
                      +-|||-. |.|||-|++++.+........  +......    .....+...+....           ...+.+.+.+  -
T Consensus        39 l~l~G~~-G~GKTHLl~A~~~~~~~~~~~--~~~~~~~----~~~~~~~~~~~~~~-----------~~~~~~~~~~--~   98 (213)
T d1l8qa2          39 IFIYGSV-GTGKTHLLQAAGNEAKKRGYR--VIYSSAD----DFAQAMVEHLKKGT-----------INEFRNMYKS--V   98 (213)
T ss_dssp             EEEECSS-SSSHHHHHHHHHHHHHHTTCC--EEEEEHH----HHHHHHHHHHHHTC-----------HHHHHHHHHT--C
T ss_pred             EEEECCC-CCcHHHHHHHHHHHhccCccc--eEEechH----HHHHHHHHHHHccc-----------hhhHHHHHhh--c
Confidence            5699999 999999999999987554322  2222211    12223333332100           0111122322  4


Q ss_pred             eeeceecccC---HHHHHHHh----cCCCCCCCCCEEEeeCCcccccccc-------ccCCCceEecCCCCCchhhhhhc
Q 011431          310 AHPYVEDVID---DAYMEDIT----DDSSPSLNLSRINSTSRFEQLWPET-------ISATDTCTEDVTVDNSPSLNLSS  375 (486)
Q Consensus       310 ~LlVLDDVw~---~~~~~~l~----~~~~~~~~GSrIIiTTR~~~V~~~~-------~~~~~~~y~v~~L~~~es~~LF~  375 (486)
                      -+|++||+..   ...|+..+    +..  ...|..||+||+..--.-..       ......+++++ +++++-.+++.
T Consensus        99 dll~iDDi~~i~~~~~~~~~lf~lin~~--~~~~~~iiits~~~p~~l~~~~~dL~SRL~~g~~~~i~-p~d~~~~~iL~  175 (213)
T d1l8qa2          99 DLLLLDDVQFLSGKERTQIEFFHIFNTL--YLLEKQIILASDRHPQKLDGVSDRLVSRFEGGILVEIE-LDNKTRFKIIK  175 (213)
T ss_dssp             SEEEEECGGGGTTCHHHHHHHHHHHHHH--HHTTCEEEEEESSCGGGCTTSCHHHHHHHHTSEEEECC-CCHHHHHHHHH
T ss_pred             cchhhhhhhhhcCchHHHHHHHHHHHHH--hhccceEEEecCCcchhccccchHHHHHhhCceEEEEC-CCcHHHHHHHH
Confidence            6889999863   24444322    211  24588999999853321000       01123567775 56665566666


Q ss_pred             ccCC
Q 011431          376 CNSS  379 (486)
Q Consensus       376 ~~a~  379 (486)
                      ++|-
T Consensus       176 ~~a~  179 (213)
T d1l8qa2         176 EKLK  179 (213)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            6553

>d1xjca_ c.37.1.10 (A:) Molybdopterin-guanine dinucleotide biosynthesis protein MobB {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Molybdopterin-guanine dinucleotide biosynthesis protein MobB
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=92.55  E-value=0.023  Score=47.60  Aligned_cols=27  Identities=4%  Similarity=-0.071  Sum_probs=23.3

Q ss_pred             eeeeeeeccCccchhHHHHHHHhhhccc
Q 011431          228 RSYRCWLLCPLFSELRVLTNDVHQLMDN  255 (486)
Q Consensus       228 ~vi~I~GmGgGvGKTTLa~~vy~~~~~~  255 (486)
                      ++++|.|.. |.|||||+..+-..+..+
T Consensus         2 kii~I~G~~-gSGKTTli~~l~~~L~~~   28 (165)
T d1xjca_           2 NVWQVVGYK-HSGKTTLMEKWVAAAVRE   28 (165)
T ss_dssp             CEEEEECCT-TSSHHHHHHHHHHHHHHT
T ss_pred             cEEEEEeCC-CCCHHHHHHHHHHHHHhC
Confidence            689999999 999999999988776543

>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=92.53  E-value=0.034  Score=46.43  Aligned_cols=28  Identities=4%  Similarity=-0.370  Sum_probs=23.4

Q ss_pred             eeeeeeeccCccchhHHHHHHHhhhcccc
Q 011431          228 RSYRCWLLCPLFSELRVLTNDVHQLMDNY  256 (486)
Q Consensus       228 ~vi~I~GmGgGvGKTTLa~~vy~~~~~~F  256 (486)
                      .+|-+.|+. |.||||+|+.+-.++...|
T Consensus         7 ~~I~l~G~~-GsGKTTia~~La~~L~~~~   34 (183)
T d1m8pa3           7 FTIFLTGYM-NSGKDAIARALQVTLNQQG   34 (183)
T ss_dssp             EEEEEECST-TSSHHHHHHHHHHHHHHHC
T ss_pred             eEEEEECCC-CCCHHHHHHHHHHHHhhcC
Confidence            567788999 9999999999988775544

>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=92.36  E-value=0.029  Score=45.98  Aligned_cols=24  Identities=8%  Similarity=-0.290  Sum_probs=20.0

Q ss_pred             eeeeeeccCccchhHHHHHHHhhhc
Q 011431          229 SYRCWLLCPLFSELRVLTNDVHQLM  253 (486)
Q Consensus       229 vi~I~GmGgGvGKTTLa~~vy~~~~  253 (486)
                      .|-+.|+. |.||||+|+.+-+++.
T Consensus         4 ~I~l~G~~-GsGKSTvak~La~~L~   27 (169)
T d1kaga_           4 NIFLVGPM-GAGKSTIGRQLAQQLN   27 (169)
T ss_dssp             CEEEECCT-TSCHHHHHHHHHHHTT
T ss_pred             eEEEECCC-CCCHHHHHHHHHHHhC
Confidence            45577999 9999999999977763

>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=91.61  E-value=0.032  Score=46.67  Aligned_cols=27  Identities=7%  Similarity=-0.146  Sum_probs=22.6

Q ss_pred             eeeeeeeccCccchhHHHHHHHhhhccc
Q 011431          228 RSYRCWLLCPLFSELRVLTNDVHQLMDN  255 (486)
Q Consensus       228 ~vi~I~GmGgGvGKTTLa~~vy~~~~~~  255 (486)
                      +.|.|.|.. |.|||||++++...+...
T Consensus         2 k~v~ItG~~-GtGKTtl~~~i~~~l~~~   28 (189)
T d2i3ba1           2 RHVFLTGPP-GVGKTTLIHKASEVLKSS   28 (189)
T ss_dssp             CCEEEESCC-SSCHHHHHHHHHHHHHHT
T ss_pred             cEEEEECCC-CCcHHHHHHHHHHHHHHC
Confidence            457899999 999999999998876543

>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=91.55  E-value=0.044  Score=45.34  Aligned_cols=24  Identities=13%  Similarity=-0.121  Sum_probs=20.3

Q ss_pred             eeeeeeeccCccchhHHHHHHHhhh
Q 011431          228 RSYRCWLLCPLFSELRVLTNDVHQL  252 (486)
Q Consensus       228 ~vi~I~GmGgGvGKTTLa~~vy~~~  252 (486)
                      ++|-|.|+. |.||||+|+.+-.++
T Consensus         3 klI~i~G~~-GsGKTTva~~L~~~~   26 (176)
T d2bdta1           3 KLYIITGPA-GVGKSTTCKRLAAQL   26 (176)
T ss_dssp             EEEEEECST-TSSHHHHHHHHHHHS
T ss_pred             eEEEEECCC-CCCHHHHHHHHHHHc
Confidence            467789999 999999999886654

>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=91.44  E-value=0.045  Score=44.67  Aligned_cols=23  Identities=0%  Similarity=-0.359  Sum_probs=19.1

Q ss_pred             eeeeeeeccCccchhHHHHHHHhh
Q 011431          228 RSYRCWLLCPLFSELRVLTNDVHQ  251 (486)
Q Consensus       228 ~vi~I~GmGgGvGKTTLa~~vy~~  251 (486)
                      ++|-|.|+. |.||||||+.+..+
T Consensus         3 klIii~G~p-GsGKTTla~~L~~~   25 (152)
T d1ly1a_           3 KIILTIGCP-GSGKSTWAREFIAK   25 (152)
T ss_dssp             EEEEEECCT-TSSHHHHHHHHHHH
T ss_pred             EEEEEECCC-CCCHHHHHHHHHHh
Confidence            356689999 99999999988654

>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=91.23  E-value=0.045  Score=45.44  Aligned_cols=23  Identities=0%  Similarity=-0.377  Sum_probs=19.4

Q ss_pred             eeeeeeccCccchhHHHHHHHhhh
Q 011431          229 SYRCWLLCPLFSELRVLTNDVHQL  252 (486)
Q Consensus       229 vi~I~GmGgGvGKTTLa~~vy~~~  252 (486)
                      .|-|.|+. |.||||+|+.+-.++
T Consensus         6 ~I~i~G~p-GsGKTTia~~La~~l   28 (173)
T d1rkba_           6 NILLTGTP-GVGKTTLGKELASKS   28 (173)
T ss_dssp             CEEEECST-TSSHHHHHHHHHHHH
T ss_pred             EEEEECCC-CCCHHHHHHHHHHHH
Confidence            45688999 999999999987664

>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=90.97  E-value=0.05  Score=45.47  Aligned_cols=24  Identities=8%  Similarity=-0.305  Sum_probs=20.5

Q ss_pred             eeeccCccchhHHHHHHHhhhcccc
Q 011431          232 CWLLCPLFSELRVLTNDVHQLMDNY  256 (486)
Q Consensus       232 I~GmGgGvGKTTLa~~vy~~~~~~F  256 (486)
                      +.||. |.||||+++.+.+++.-.|
T Consensus         6 liG~~-G~GKSTig~~La~~l~~~f   29 (165)
T d2iyva1           6 LVGLP-GSGKSTIGRRLAKALGVGL   29 (165)
T ss_dssp             EECST-TSSHHHHHHHHHHHHTCCE
T ss_pred             EECCC-CCCHHHHHHHHHHHhCCCe
Confidence            66999 9999999999988875554

>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=90.69  E-value=0.059  Score=44.74  Aligned_cols=25  Identities=8%  Similarity=-0.292  Sum_probs=21.6

Q ss_pred             eeeeeeeccCccchhHHHHHHHhhhc
Q 011431          228 RSYRCWLLCPLFSELRVLTNDVHQLM  253 (486)
Q Consensus       228 ~vi~I~GmGgGvGKTTLa~~vy~~~~  253 (486)
                      ++|.|.|.. |.||||+|+.+.+++.
T Consensus         4 kiI~l~G~~-GsGKsTva~~L~~~l~   28 (178)
T d1qhxa_           4 RMIILNGGS-SAGKSGIVRCLQSVLP   28 (178)
T ss_dssp             CEEEEECCT-TSSHHHHHHHHHHHSS
T ss_pred             eEEEEECCC-CCCHHHHHHHHHHHcC
Confidence            578888998 9999999999987763

>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=90.60  E-value=0.057  Score=45.25  Aligned_cols=27  Identities=4%  Similarity=-0.192  Sum_probs=23.0

Q ss_pred             eeeeeeeccCccchhHHHHHHHhhhccc
Q 011431          228 RSYRCWLLCPLFSELRVLTNDVHQLMDN  255 (486)
Q Consensus       228 ~vi~I~GmGgGvGKTTLa~~vy~~~~~~  255 (486)
                      ++|.|.|+- |.||||+++.+...+...
T Consensus         2 kiI~i~G~~-GsGKsT~~~~L~~~l~~~   28 (190)
T d1khta_           2 KVVVVTGVP-GVGSTTSSQLAMDNLRKE   28 (190)
T ss_dssp             CEEEEECCT-TSCHHHHHHHHHHHHHTT
T ss_pred             CEEEEECCC-CCCHHHHHHHHHHHHHHc
Confidence            578999999 999999999998776443

>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=90.10  E-value=0.21  Score=46.40  Aligned_cols=34  Identities=6%  Similarity=-0.349  Sum_probs=27.2

Q ss_pred             CCCceeeeeeeccCccchhHHHHHHHhhhcccccc
Q 011431          224 AEGYRSYRCWLLCPLFSELRVLTNDVHQLMDNYEN  258 (486)
Q Consensus       224 ~~~~~vi~I~GmGgGvGKTTLa~~vy~~~~~~F~~  258 (486)
                      .+..-+|||.|-. |.||||+|+.+-..+...+..
T Consensus        77 ~k~P~iIGIaG~s-gSGKSTla~~L~~lL~~~~~~  110 (308)
T d1sq5a_          77 QRIPYIISIAGSV-AVGKSTTARVLQALLSRWPEH  110 (308)
T ss_dssp             CCCCEEEEEEECT-TSSHHHHHHHHHHHHTTSTTC
T ss_pred             CCCCEEEEEeCCC-CCCCcHHHHHHHHHHhhhcCC
Confidence            3567799999999 999999999997766554443

>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=90.03  E-value=0.065  Score=46.11  Aligned_cols=25  Identities=8%  Similarity=-0.254  Sum_probs=21.4

Q ss_pred             eeeeeeeccCccchhHHHHHHHhhhc
Q 011431          228 RSYRCWLLCPLFSELRVLTNDVHQLM  253 (486)
Q Consensus       228 ~vi~I~GmGgGvGKTTLa~~vy~~~~  253 (486)
                      .+|-++|.. |.||||||+++...+.
T Consensus         3 ~li~l~Glp-gsGKSTla~~L~~~l~   27 (213)
T d1bifa1           3 TLIVMVGLP-ARGKTYISKKLTRYLN   27 (213)
T ss_dssp             EEEEEECCT-TSSHHHHHHHHHHHHH
T ss_pred             EEEEEECCC-CCCHHHHHHHHHHHHH
Confidence            467799999 9999999999987654

>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=90.00  E-value=0.067  Score=44.59  Aligned_cols=24  Identities=4%  Similarity=-0.299  Sum_probs=20.0

Q ss_pred             eeeeeccCccchhHHHHHHHhhhcc
Q 011431          230 YRCWLLCPLFSELRVLTNDVHQLMD  254 (486)
Q Consensus       230 i~I~GmGgGvGKTTLa~~vy~~~~~  254 (486)
                      |-+.||. |.||||+++.+-.++.-
T Consensus         3 I~liG~~-GsGKsTi~k~La~~l~~   26 (161)
T d1viaa_           3 IVFIGFM-GSGKSTLARALAKDLDL   26 (161)
T ss_dssp             EEEECCT-TSCHHHHHHHHHHHHTC
T ss_pred             EEEECCC-CCCHHHHHHHHHHHhCC
Confidence            4577999 99999999999877643

>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=89.33  E-value=0.095  Score=43.45  Aligned_cols=24  Identities=4%  Similarity=-0.343  Sum_probs=19.9

Q ss_pred             eeeeeeeccCccchhHHHHHHHhhh
Q 011431          228 RSYRCWLLCPLFSELRVLTNDVHQL  252 (486)
Q Consensus       228 ~vi~I~GmGgGvGKTTLa~~vy~~~  252 (486)
                      ..|.|.|+. |.||||+|+.+.+++
T Consensus         6 ~~I~i~G~~-GsGKTT~~~~La~~l   29 (174)
T d1y63a_           6 INILITGTP-GTGKTSMAEMIAAEL   29 (174)
T ss_dssp             CEEEEECST-TSSHHHHHHHHHHHS
T ss_pred             CEEEEEeCC-CCCHHHHHHHHHHHh
Confidence            345688999 999999999997764

>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=89.18  E-value=0.11  Score=43.05  Aligned_cols=28  Identities=18%  Similarity=0.036  Sum_probs=23.4

Q ss_pred             CCceeeeeeeccCccchhHHHHHHHhhhc
Q 011431          225 EGYRSYRCWLLCPLFSELRVLTNDVHQLM  253 (486)
Q Consensus       225 ~~~~vi~I~GmGgGvGKTTLa~~vy~~~~  253 (486)
                      ...+++-+.|.. |.||||+|+.+-.++.
T Consensus         4 ~~~~iivl~G~~-GsGKsT~a~~La~~l~   31 (171)
T d1knqa_           4 HDHHIYVLMGVS-GSGKSAVASEVAHQLH   31 (171)
T ss_dssp             TTSEEEEEECST-TSCHHHHHHHHHHHHT
T ss_pred             CCCeEEEEECCC-CCCHHHHHHHHHHHhC
Confidence            356788899999 9999999999977653

>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=89.01  E-value=0.083  Score=44.76  Aligned_cols=28  Identities=11%  Similarity=-0.264  Sum_probs=21.8

Q ss_pred             eeeeeeeccCccchhHHHHHHHhhhcccc
Q 011431          228 RSYRCWLLCPLFSELRVLTNDVHQLMDNY  256 (486)
Q Consensus       228 ~vi~I~GmGgGvGKTTLa~~vy~~~~~~F  256 (486)
                      .+|-+.|+. |.||||+|+.+-.++...+
T Consensus        20 ~vI~L~G~p-GSGKTTiAk~La~~l~~~~   47 (195)
T d1x6va3          20 CTVWLTGLS-GAGKTTVSMALEEYLVCHG   47 (195)
T ss_dssp             EEEEEESSC-HHHHHHHHHHHHHHHHHTT
T ss_pred             eEEEEECCC-CCCHHHHHHHHHHHHHhcC
Confidence            456678999 9999999999977654433

>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=88.99  E-value=0.28  Score=43.38  Aligned_cols=31  Identities=10%  Similarity=-0.195  Sum_probs=25.0

Q ss_pred             CceeeeeeeccCccchhHHHHHHHhhhccccc
Q 011431          226 GYRSYRCWLLCPLFSELRVLTNDVHQLMDNYE  257 (486)
Q Consensus       226 ~~~vi~I~GmGgGvGKTTLa~~vy~~~~~~F~  257 (486)
                      ....+-|.|.. |+||||+|+.+.+.+.....
T Consensus        42 ~~~~lll~Gpp-GtGKT~l~~~l~~~l~~~~~   72 (276)
T d1fnna2          42 HYPRATLLGRP-GTGKTVTLRKLWELYKDKTT   72 (276)
T ss_dssp             SCCEEEEECCT-TSSHHHHHHHHHHHHTTSCC
T ss_pred             CCCceEEECCC-CCCHHHHHHHHHHHHhcccC
Confidence            34567799999 99999999999988765443

>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=88.72  E-value=0.14  Score=45.85  Aligned_cols=30  Identities=3%  Similarity=-0.229  Sum_probs=23.3

Q ss_pred             CceeeeeeeccCccchhHHHHHHHhhhcccc
Q 011431          226 GYRSYRCWLLCPLFSELRVLTNDVHQLMDNY  256 (486)
Q Consensus       226 ~~~vi~I~GmGgGvGKTTLa~~vy~~~~~~F  256 (486)
                      ..+.|=++|.. |.||||||+++.+.+...|
T Consensus        31 ~P~~ilL~GpP-GtGKT~la~~la~~~~~~~   60 (273)
T d1gvnb_          31 SPTAFLLGGQP-GSGKTSLRSAIFEETQGNV   60 (273)
T ss_dssp             SCEEEEEECCT-TSCTHHHHHHHHHHTTTCC
T ss_pred             CCEEEEEECCC-CCCHHHHHHHHHHHhhcce
Confidence            34456688998 9999999999988765443

>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=88.40  E-value=0.25  Score=44.41  Aligned_cols=45  Identities=7%  Similarity=-0.017  Sum_probs=30.9

Q ss_pred             CCCEEEeeCCcccccccccc---CCCceEecCCCCCchhhhhhcccCC
Q 011431          335 NLSRINSTSRFEQLWPETIS---ATDTCTEDVTVDNSPSLNLSSCNSS  379 (486)
Q Consensus       335 ~GSrIIiTTR~~~V~~~~~~---~~~~~y~v~~L~~~es~~LF~~~a~  379 (486)
                      .+--||.||..-+-+.....   .-+..++++..+.++-..+|..+..
T Consensus       139 ~~vlvi~tTn~~~~ld~al~r~gRfd~~i~~~~P~~~~R~~il~~~l~  186 (258)
T d1e32a2         139 AHVIVMAATNRPNSIDPALRRFGRFDREVDIGIPDATGRLEILQIHTK  186 (258)
T ss_dssp             SCEEEEEEESCGGGSCGGGTSTTSSCEEEECCCCCHHHHHHHHHHTTT
T ss_pred             CCccEEEeCCCccccchhhhhcccccceeECCCCCHHHHHHHhhhhcc
Confidence            34456668877665432211   2467889999999999999987653

>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=88.27  E-value=0.12  Score=42.82  Aligned_cols=25  Identities=0%  Similarity=-0.461  Sum_probs=21.0

Q ss_pred             ceeeeeeeccCccchhHHHHHHHhhh
Q 011431          227 YRSYRCWLLCPLFSELRVLTNDVHQL  252 (486)
Q Consensus       227 ~~vi~I~GmGgGvGKTTLa~~vy~~~  252 (486)
                      -++|.|.|+. |.||||+|+.+-+++
T Consensus         4 g~iI~l~G~~-GsGKSTia~~La~~l   28 (176)
T d1zp6a1           4 GNILLLSGHP-GSGKSTIAEALANLP   28 (176)
T ss_dssp             TEEEEEEECT-TSCHHHHHHHHHTCS
T ss_pred             CeEEEEECCC-CCCHHHHHHHHHHHh
Confidence            3678899999 999999999886554

>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=88.24  E-value=0.1  Score=43.62  Aligned_cols=25  Identities=8%  Similarity=-0.379  Sum_probs=20.2

Q ss_pred             eeeeeccCccchhHHHHHHHhhhccc
Q 011431          230 YRCWLLCPLFSELRVLTNDVHQLMDN  255 (486)
Q Consensus       230 i~I~GmGgGvGKTTLa~~vy~~~~~~  255 (486)
                      |-+.||. |.||||+|+.+-+++.-.
T Consensus         5 Iil~G~~-GsGKSTia~~LA~~Lg~~   29 (170)
T d1e6ca_           5 IFMVGAR-GCGMTTVGRELARALGYE   29 (170)
T ss_dssp             EEEESCT-TSSHHHHHHHHHHHHTCE
T ss_pred             EEEECCC-CCCHHHHHHHHHHHhCCC
Confidence            4477998 999999999998776433

>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=88.21  E-value=0.16  Score=44.79  Aligned_cols=28  Identities=11%  Similarity=-0.098  Sum_probs=22.1

Q ss_pred             ceeeeeeeccCccchhHHHHHHHhhhccc
Q 011431          227 YRSYRCWLLCPLFSELRVLTNDVHQLMDN  255 (486)
Q Consensus       227 ~~vi~I~GmGgGvGKTTLa~~vy~~~~~~  255 (486)
                      ..-+=++|.. |+||||+|+.+.+....+
T Consensus        35 ~~~~Ll~GPp-G~GKTtla~~la~~~~~~   62 (239)
T d1ixsb2          35 LEHLLLFGPP-GLGKTTLAHVIAHELGVN   62 (239)
T ss_dssp             CCCEEEECCT-TSCHHHHHHHHHHHHTCC
T ss_pred             CCeEEEECCC-CCCHHHHHHHHHHHhCCC
Confidence            3444589999 999999999998876444

>d1odfa_ c.37.1.6 (A:) Hypothetical protein Ygr205W {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Hypothetical protein Ygr205W
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=87.80  E-value=0.27  Score=45.08  Aligned_cols=31  Identities=10%  Similarity=-0.231  Sum_probs=25.4

Q ss_pred             CCceeeeeeeccCccchhHHHHHHHhhhcccc
Q 011431          225 EGYRSYRCWLLCPLFSELRVLTNDVHQLMDNY  256 (486)
Q Consensus       225 ~~~~vi~I~GmGgGvGKTTLa~~vy~~~~~~F  256 (486)
                      +..-+|||-|.. |.|||||+..+...+...+
T Consensus        25 ~~P~iIGi~G~q-GSGKSTl~~~l~~~L~~~~   55 (286)
T d1odfa_          25 KCPLFIFFSGPQ-GSGKSFTSIQIYNHLMEKY   55 (286)
T ss_dssp             CSCEEEEEECCT-TSSHHHHHHHHHHHHHHHH
T ss_pred             CCCEEEEeECCC-CCCHHHHHHHHHHHHHHHh
Confidence            345689999999 9999999999877765554

>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=87.68  E-value=0.12  Score=45.36  Aligned_cols=26  Identities=15%  Similarity=-0.244  Sum_probs=21.1

Q ss_pred             eeeeeeeccCccchhHHHHHHHhhhc
Q 011431          228 RSYRCWLLCPLFSELRVLTNDVHQLM  253 (486)
Q Consensus       228 ~vi~I~GmGgGvGKTTLa~~vy~~~~  253 (486)
                      ++|.++|.-||+||||+|-++-..+.
T Consensus         3 ~vIav~~~kGGvGKTtia~nLA~~la   28 (237)
T d1g3qa_           3 RIISIVSGKGGTGKTTVTANLSVALG   28 (237)
T ss_dssp             EEEEEECSSTTSSHHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCcHHHHHHHHHHHHH
Confidence            68999988779999999988755443

>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=87.42  E-value=0.13  Score=44.67  Aligned_cols=26  Identities=12%  Similarity=-0.258  Sum_probs=21.9

Q ss_pred             eeeeeeeccCccchhHHHHHHHhhhcc
Q 011431          228 RSYRCWLLCPLFSELRVLTNDVHQLMD  254 (486)
Q Consensus       228 ~vi~I~GmGgGvGKTTLa~~vy~~~~~  254 (486)
                      -+|||-|-. |.||||+|+.+...+..
T Consensus         3 ~iIgI~G~~-gSGKSTla~~L~~~l~~   28 (213)
T d1uj2a_           3 FLIGVSGGT-ASGKSSVCAKIVQLLGQ   28 (213)
T ss_dssp             EEEEEECST-TSSHHHHHHHHHHHTTG
T ss_pred             EEEEEECCC-CCCHHHHHHHHHHHhch
Confidence            478999999 99999999998776543

>d2fnaa2 c.37.1.20 (A:1-283) Archaeal ATPase SSO1545 {Sulfolobus solfataricus [TaxId: 2287]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Archaeal ATPase SSO1545
species: Sulfolobus solfataricus [TaxId: 2287]

Probab=87.00  E-value=0.15  Score=45.45  Aligned_cols=27  Identities=7%  Similarity=-0.108  Sum_probs=22.2

Q ss_pred             eeeeeeeccCccchhHHHHHHHhhhccc
Q 011431          228 RSYRCWLLCPLFSELRVLTNDVHQLMDN  255 (486)
Q Consensus       228 ~vi~I~GmGgGvGKTTLa~~vy~~~~~~  255 (486)
                      +.+.|+|.+ |+|||+|++.+.+.....
T Consensus        30 ~~i~i~G~~-G~GKTsLl~~~~~~~~~~   56 (283)
T d2fnaa2          30 PITLVLGLR-RTGKSSIIKIGINELNLP   56 (283)
T ss_dssp             SEEEEEEST-TSSHHHHHHHHHHHHTCC
T ss_pred             CEEEEEcCC-CCcHHHHHHHHHHHCCCC
Confidence            567799999 999999999987765443

>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=86.84  E-value=0.13  Score=46.07  Aligned_cols=27  Identities=7%  Similarity=-0.040  Sum_probs=22.2

Q ss_pred             ceeeeeeeccCccchhHHHHHHHhhhcc
Q 011431          227 YRSYRCWLLCPLFSELRVLTNDVHQLMD  254 (486)
Q Consensus       227 ~~vi~I~GmGgGvGKTTLa~~vy~~~~~  254 (486)
                      ..++.++|.. |.||||+++.+.+.+..
T Consensus        46 ~~~l~l~Gpp-GtGKT~l~~~l~~~l~~   72 (287)
T d1w5sa2          46 NMIYGSIGRV-GIGKTTLAKFTVKRVSE   72 (287)
T ss_dssp             EEEEECTTCC-SSSHHHHHHHHHHHHHH
T ss_pred             ceEEEeECCC-CCCHHHHHHHHHHHHHh
Confidence            3456678999 99999999999987654

>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=86.78  E-value=0.14  Score=46.24  Aligned_cols=25  Identities=12%  Similarity=-0.083  Sum_probs=19.8

Q ss_pred             eeeeeeeccCccchhHHHHHHHhhhc
Q 011431          228 RSYRCWLLCPLFSELRVLTNDVHQLM  253 (486)
Q Consensus       228 ~vi~I~GmGgGvGKTTLa~~vy~~~~  253 (486)
                      +.|+|+|=| |+||||+|-++=..+.
T Consensus         2 r~Iai~gKG-GvGKTT~a~nLA~~LA   26 (269)
T d1cp2a_           2 RQVAIYGKG-GIGKSTTTQNLTSGLH   26 (269)
T ss_dssp             EEEEEEECT-TSSHHHHHHHHHHHHH
T ss_pred             CEEEEECCC-cCCHHHHHHHHHHHHH
Confidence            678999966 9999999987654443

>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=86.45  E-value=0.17  Score=42.25  Aligned_cols=27  Identities=11%  Similarity=-0.146  Sum_probs=22.1

Q ss_pred             eeeeeeeccCccchhHHHHHHHhhhccc
Q 011431          228 RSYRCWLLCPLFSELRVLTNDVHQLMDN  255 (486)
Q Consensus       228 ~vi~I~GmGgGvGKTTLa~~vy~~~~~~  255 (486)
                      ++|-|.|+. |.||||+++.+-..+..+
T Consensus         2 kiivi~G~~-GsGKTT~~~~La~~L~~~   28 (194)
T d1nksa_           2 KIGIVTGIP-GVGKSTVLAKVKEILDNQ   28 (194)
T ss_dssp             EEEEEEECT-TSCHHHHHHHHHHHHHTT
T ss_pred             eEEEEECCC-CCCHHHHHHHHHHHHHHc
Confidence            567788999 999999999997766443

>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=85.97  E-value=0.18  Score=42.78  Aligned_cols=22  Identities=5%  Similarity=-0.535  Sum_probs=19.4

Q ss_pred             CceeeeeeeccCccchhHHHHHH
Q 011431          226 GYRSYRCWLLCPLFSELRVLTND  248 (486)
Q Consensus       226 ~~~vi~I~GmGgGvGKTTLa~~v  248 (486)
                      ...+|||.|+. |.||||+|+.+
T Consensus         2 ~p~IIgitG~~-gSGKstva~~l   23 (191)
T d1uf9a_           2 HPIIIGITGNI-GSGKSTVAALL   23 (191)
T ss_dssp             CCEEEEEEECT-TSCHHHHHHHH
T ss_pred             CCEEEEEECCC-CCCHHHHHHHH
Confidence            35689999999 99999999876

>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=85.48  E-value=0.18  Score=41.88  Aligned_cols=24  Identities=8%  Similarity=-0.208  Sum_probs=20.5

Q ss_pred             eeeeeccCccchhHHHHHHHhhhcc
Q 011431          230 YRCWLLCPLFSELRVLTNDVHQLMD  254 (486)
Q Consensus       230 i~I~GmGgGvGKTTLa~~vy~~~~~  254 (486)
                      |.|.|-. |.|||||++.+-..+..
T Consensus         3 i~I~G~~-G~GKSTLl~~i~~~l~~   26 (178)
T d1ye8a1           3 IIITGEP-GVGKTTLVKKIVERLGK   26 (178)
T ss_dssp             EEEECCT-TSSHHHHHHHHHHHHGG
T ss_pred             EEEECCC-CcHHHHHHHHHHhcCCC
Confidence            6789999 99999999999876543

>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=85.36  E-value=0.22  Score=42.16  Aligned_cols=26  Identities=8%  Similarity=-0.160  Sum_probs=21.2

Q ss_pred             CCceeeeeeeccCccchhHHHHHHHhhh
Q 011431          225 EGYRSYRCWLLCPLFSELRVLTNDVHQL  252 (486)
Q Consensus       225 ~~~~vi~I~GmGgGvGKTTLa~~vy~~~  252 (486)
                      +++++| +.|+. |.||||+|+.+-.+.
T Consensus         2 ~~~rii-l~G~p-GSGKsT~a~~La~~~   27 (190)
T d1ak2a1           2 KGVRAV-LLGPP-GAGKGTQAPKLAKNF   27 (190)
T ss_dssp             CCCEEE-EECCT-TSSHHHHHHHHHHHH
T ss_pred             CccEEE-EECCC-CCCHHHHHHHHHHHh
Confidence            467777 78998 999999999886543

>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=84.89  E-value=0.33  Score=40.09  Aligned_cols=22  Identities=9%  Similarity=-0.227  Sum_probs=17.8

Q ss_pred             eeeeeeeccCccchhHHHHHHHh
Q 011431          228 RSYRCWLLCPLFSELRVLTNDVH  250 (486)
Q Consensus       228 ~vi~I~GmGgGvGKTTLa~~vy~  250 (486)
                      .-|.++|-. |+|||||...+..
T Consensus        14 ~kI~lvG~~-~vGKTsLl~~l~~   35 (186)
T d1f6ba_          14 GKLVFLGLD-NAGKTTLLHMLKD   35 (186)
T ss_dssp             EEEEEEEET-TSSHHHHHHHHSC
T ss_pred             CEEEEECCC-CCCHHHHHHHHhC
Confidence            345699999 9999999987743

>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=84.61  E-value=0.27  Score=41.82  Aligned_cols=28  Identities=4%  Similarity=-0.329  Sum_probs=23.5

Q ss_pred             CCCceeeeeeeccCccchhHHHHHHHhhh
Q 011431          224 AEGYRSYRCWLLCPLFSELRVLTNDVHQL  252 (486)
Q Consensus       224 ~~~~~vi~I~GmGgGvGKTTLa~~vy~~~  252 (486)
                      ++...+|-|.|.. |.||||+|+.+..+.
T Consensus         5 ~~~~~iI~i~Gpp-GSGKsT~a~~La~~~   32 (196)
T d1ukza_           5 PDQVSVIFVLGGP-GAGKGTQCEKLVKDY   32 (196)
T ss_dssp             TTTCEEEEEECST-TSSHHHHHHHHHHHS
T ss_pred             CCCCcEEEEECCC-CCCHHHHHHHHHHHh
Confidence            3467888899998 999999999997754

>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=84.28  E-value=0.8  Score=40.98  Aligned_cols=43  Identities=5%  Similarity=-0.147  Sum_probs=28.9

Q ss_pred             CCEEEeeCCcccccccccc---CCCceEecCCCCCchhhhhhcccC
Q 011431          336 LSRINSTSRFEQLWPETIS---ATDTCTEDVTVDNSPSLNLSSCNS  378 (486)
Q Consensus       336 GSrIIiTTR~~~V~~~~~~---~~~~~y~v~~L~~~es~~LF~~~a  378 (486)
                      +--||-||.+-+-+.....   .-+..+++...+.++-.++|..+.
T Consensus       150 ~v~vIatTn~~~~ld~al~R~gRfd~~i~i~~P~~~~R~~il~~~l  195 (256)
T d1lv7a_         150 GIIVIAATNRPDVLDPALLRPGRFDRQVVVGLPDVRGREQILKVHM  195 (256)
T ss_dssp             CEEEEEEESCTTTSCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHH
T ss_pred             CEEEEEeCCCcccCCHhHcCCCCCCEEEECCCcCHHHHHHHHHHhc
Confidence            4456667876555432221   246788999999999888987664

>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=84.22  E-value=0.23  Score=43.21  Aligned_cols=27  Identities=11%  Similarity=-0.204  Sum_probs=21.2

Q ss_pred             ceeeeeeeccCccchhHHHHHHHhhhc
Q 011431          227 YRSYRCWLLCPLFSELRVLTNDVHQLM  253 (486)
Q Consensus       227 ~~vi~I~GmGgGvGKTTLa~~vy~~~~  253 (486)
                      .|+|+|++--||+||||+|.++=..+.
T Consensus         1 ~kvIav~s~KGGvGKTtia~nlA~~la   27 (232)
T d1hyqa_           1 VRTITVASGKGGTGKTTITANLGVALA   27 (232)
T ss_dssp             CEEEEEEESSSCSCHHHHHHHHHHHHH
T ss_pred             CEEEEEECCCCCChHHHHHHHHHHHHH
Confidence            378999977669999999987755444

>d1puja_ c.37.1.8 (A:) Probable GTPase YlqF {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 YlqF
species: Bacillus subtilis [TaxId: 1423]

Probab=83.55  E-value=2.6  Score=37.59  Aligned_cols=47  Identities=13%  Similarity=0.125  Sum_probs=31.3

Q ss_pred             HHHHHHHhhccceEEEeecccccChhhHHHHHHHHHHhcCCCEEEEEEeeec
Q 011431           66 PALLQAIEESKISLVIFSKRFAFSRWCLEELVKIIECNKLYQTVIPVFYKVL  117 (486)
Q Consensus        66 ~~i~~~I~~s~~~ivv~S~~y~~S~wcl~El~~i~~~~~~~~~v~Pify~v~  117 (486)
                      ..+.++|+.+.+.|.|+--+-.-|.+|- +|..++  +  +..+|-|+=+.+
T Consensus         7 r~i~~~i~~~DvIl~V~DaR~P~ss~~~-~l~~~~--~--~Kp~IlVlNK~D   53 (273)
T d1puja_           7 REVTEKLKLIDIVYELVDARIPMSSRNP-MIEDIL--K--NKPRIMLLNKAD   53 (273)
T ss_dssp             HHHHHHGGGCSEEEEEEETTSTTTTSCH-HHHHHC--S--SSCEEEEEECGG
T ss_pred             HHHHHHHHhCCEEEEEEECCCCCCCCCH-HHHHHH--c--CCCeEEEEECcc
Confidence            3677889999999999998888888874 343333  2  233444544444

>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=82.92  E-value=0.32  Score=40.82  Aligned_cols=25  Identities=0%  Similarity=-0.226  Sum_probs=20.7

Q ss_pred             CceeeeeeeccCccchhHHHHHHHhh
Q 011431          226 GYRSYRCWLLCPLFSELRVLTNDVHQ  251 (486)
Q Consensus       226 ~~~vi~I~GmGgGvGKTTLa~~vy~~  251 (486)
                      ...+|=++|+. |.||||+|+.+...
T Consensus        13 ~p~liil~G~p-GsGKST~a~~l~~~   37 (172)
T d1yj5a2          13 NPEVVVAVGFP-GAGKSTFIQEHLVS   37 (172)
T ss_dssp             SCCEEEEECCT-TSSHHHHHHHHTGG
T ss_pred             CCEEEEEECCC-CCCHHHHHHHHHHh
Confidence            45677799999 99999999987553

>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=82.50  E-value=0.37  Score=40.76  Aligned_cols=26  Identities=8%  Similarity=-0.349  Sum_probs=21.9

Q ss_pred             CceeeeeeeccCccchhHHHHHHHhhh
Q 011431          226 GYRSYRCWLLCPLFSELRVLTNDVHQL  252 (486)
Q Consensus       226 ~~~vi~I~GmGgGvGKTTLa~~vy~~~  252 (486)
                      ...+|-|.|.. |.||||+|+.+.++.
T Consensus         5 kp~iI~i~G~p-GSGKsT~a~~La~~~   30 (194)
T d1qf9a_           5 KPNVVFVLGGP-GSGKGTQCANIVRDF   30 (194)
T ss_dssp             CCEEEEEEEST-TSSHHHHHHHHHHHH
T ss_pred             CCcEEEEECCC-CCCHHHHHHHHHHHH
Confidence            45688899999 999999999887654

>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=82.30  E-value=0.35  Score=40.96  Aligned_cols=25  Identities=4%  Similarity=-0.088  Sum_probs=22.1

Q ss_pred             CCceeeeeeeccCccchhHHHHHHHh
Q 011431          225 EGYRSYRCWLLCPLFSELRVLTNDVH  250 (486)
Q Consensus       225 ~~~~vi~I~GmGgGvGKTTLa~~vy~  250 (486)
                      .++..|+|+|-. |.|||||.+.+.+
T Consensus        21 ~~~~~I~lvG~~-n~GKSTLin~L~g   45 (195)
T d1svia_          21 GGLPEIALAGRS-NVGKSSFINSLIN   45 (195)
T ss_dssp             SCCCEEEEEEBT-TSSHHHHHHHHHT
T ss_pred             CCCCEEEEECCC-CCCHHHHHHHhcC
Confidence            456679999999 9999999999975

>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=82.02  E-value=0.7  Score=41.51  Aligned_cols=44  Identities=11%  Similarity=-0.029  Sum_probs=30.5

Q ss_pred             CCEEEeeCCcccccccccc---CCCceEecCCCCCchhhhhhcccCC
Q 011431          336 LSRINSTSRFEQLWPETIS---ATDTCTEDVTVDNSPSLNLSSCNSS  379 (486)
Q Consensus       336 GSrIIiTTR~~~V~~~~~~---~~~~~y~v~~L~~~es~~LF~~~a~  379 (486)
                      +--||-||..-+-+.....   .-+..++++..+.++-..+|..+..
T Consensus       146 ~v~vi~ttn~~~~ld~al~r~gRf~~~i~~~~p~~~~R~~il~~~l~  192 (265)
T d1r7ra3         146 NVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDEKSRVAILKANLR  192 (265)
T ss_dssp             CCEEEECCBSCTTTSCGGGSSTTSEEEEECCCCCCHHHHHHHHHHTT
T ss_pred             CEEEEEeCCCchhCCHHHhCCCCccEEEEecchHHHHHHHHHHHHhc
Confidence            4567788877665422211   2356789999999999999987654

>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=81.75  E-value=0.45  Score=41.24  Aligned_cols=27  Identities=15%  Similarity=-0.097  Sum_probs=22.1

Q ss_pred             CceeeeeeeccCccchhHHHHHHHhhhc
Q 011431          226 GYRSYRCWLLCPLFSELRVLTNDVHQLM  253 (486)
Q Consensus       226 ~~~vi~I~GmGgGvGKTTLa~~vy~~~~  253 (486)
                      .-.+|=+.|+. |.||||||+.+..++.
T Consensus        23 kg~vIwltGls-GsGKTTia~~L~~~l~   49 (208)
T d1m7ga_          23 RGLTIWLTGLS-ASGKSTLAVELEHQLV   49 (208)
T ss_dssp             SCEEEEEECST-TSSHHHHHHHHHHHHH
T ss_pred             CCeEEEEECCC-CCCHHHHHHHHHHHHH
Confidence            34577788999 9999999999987663

>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=81.52  E-value=0.29  Score=41.44  Aligned_cols=26  Identities=4%  Similarity=-0.446  Sum_probs=21.3

Q ss_pred             CceeeeeeeccCccchhHHHHHHHhhh
Q 011431          226 GYRSYRCWLLCPLFSELRVLTNDVHQL  252 (486)
Q Consensus       226 ~~~vi~I~GmGgGvGKTTLa~~vy~~~  252 (486)
                      ...+|+|-|.- |.||||+++.+.+.+
T Consensus         8 kp~~I~ieG~~-GsGKTTl~~~L~~~l   33 (197)
T d2vp4a1           8 QPFTVLIEGNI-GSGKTTYLNHFEKYK   33 (197)
T ss_dssp             CCEEEEEECST-TSCHHHHHHTTGGGT
T ss_pred             CceEEEEECCC-CCCHHHHHHHHHHHh
Confidence            44588999999 999999999876543

>d1wu7a1 c.51.1.1 (A:330-426) Histidyl-tRNA synthetase (HisRS), C-terminal domain {Archaeon Thermoplasma acidophilum [TaxId: 2303]}

class: Alpha and beta proteins (a/b)
fold: Anticodon-binding domain-like
superfamily: Class II aaRS ABD-related
family: Anticodon-binding domain of Class II aaRS
domain: Histidyl-tRNA synthetase (HisRS), C-terminal domain
species: Archaeon Thermoplasma acidophilum [TaxId: 2303]

Probab=81.43  E-value=1.5  Score=32.69  Aligned_cols=59  Identities=14%  Similarity=0.040  Sum_probs=43.4

Q ss_pred             CceEEecccCccCcChHHHHHHHHhcCCCeEEEeCCcCCCCCchHHHHHHHhhccceEEEeec
Q 011431           22 HDVFVTFSGEDIRENFGSYLFAALFRESVKTFRDEQIRRGDEIMPALLQAIEESKISLVIFSK   84 (486)
Q Consensus        22 ~dVFis~~~~D~~~~f~~~L~~~L~~~gi~~~~d~~~~~g~~i~~~i~~~I~~s~~~ivv~S~   84 (486)
                      .+|||..-|.+. ..++..|...|++.||++.+|.   .+..+...+..|-..---.++|+-+
T Consensus         4 ~~V~i~~~g~~~-~~~~~~l~~~Lr~~gi~v~~d~---~~~~l~kq~~~A~~~~~~~~iiiG~   62 (97)
T d1wu7a1           4 KSVYICRVGKIN-SSIMNEYSRKLRERGMNVTVEI---MERGLSAQLKYASAIGADFAVIFGE   62 (97)
T ss_dssp             CEEEEEEESSCC-HHHHHHHHHHHHTTTCEEEECC---SCCCHHHHHHHHHHTTCSEEEEEEH
T ss_pred             ceEEEEEeCHHH-HHHHHHHHHHHHHCCCEEEEEC---CCCcHHHHHHHHHhcCCCeEEecCC
Confidence            489999888875 4788999999999999999985   3456776666665544444555543

>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=81.17  E-value=0.3  Score=42.81  Aligned_cols=26  Identities=8%  Similarity=-0.235  Sum_probs=20.8

Q ss_pred             eeeeeeccCccchhHHHHHHHhhhccc
Q 011431          229 SYRCWLLCPLFSELRVLTNDVHQLMDN  255 (486)
Q Consensus       229 vi~I~GmGgGvGKTTLa~~vy~~~~~~  255 (486)
                      -+=++|-. |.||||+|+.+-+.....
T Consensus        37 ~~L~~GPp-GtGKT~lA~~la~~~~~~   62 (238)
T d1in4a2          37 HVLLAGPP-GLGKTTLAHIIASELQTN   62 (238)
T ss_dssp             CEEEESST-TSSHHHHHHHHHHHHTCC
T ss_pred             eEEEECCC-CCcHHHHHHHHHhccCCC
Confidence            34489988 999999999998776444

>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=81.00  E-value=0.34  Score=44.05  Aligned_cols=22  Identities=14%  Similarity=-0.059  Sum_probs=17.3

Q ss_pred             ceeeeeeeccCccchhHHHHHHH
Q 011431          227 YRSYRCWLLCPLFSELRVLTNDV  249 (486)
Q Consensus       227 ~~vi~I~GmGgGvGKTTLa~~vy  249 (486)
                      .+.|.|.|=| |+||||++-++=
T Consensus         2 Mr~IaisgKG-GVGKTT~a~NLA   23 (289)
T d2afhe1           2 MRQCAIYGKG-GIGKSTTTQNLV   23 (289)
T ss_dssp             CEEEEEEECT-TSSHHHHHHHHH
T ss_pred             ccEEEEECCC-CCCHHHHHHHHH
Confidence            3567889966 999999887663

>d3bpda1 d.58.61.1 (A:1-91) Uncharacterized protein AF1549 {Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: MTH889-like
family: MTH889-like
domain: Uncharacterized protein AF1549
species: Archaeoglobus fulgidus [TaxId: 2234]

Probab=80.86  E-value=2  Score=31.48  Aligned_cols=59  Identities=17%  Similarity=0.262  Sum_probs=42.0

Q ss_pred             eeeeeecc-ccccchhhHHHHHHHhhcCCCeeEEEe-----ecCCC--eEEEEeeccCHHHHHHHhhccc
Q 011431          383 KEAIFKLE-IHHDNLEAWRAAFSIVSEFIGITKISF-----DFKVK--KMTVVGDNFDVLSAGTKLNGLC  444 (486)
Q Consensus       383 ~~~v~kv~-~~~~~~~~~~~a~k~~~~~~Gv~~v~~-----d~~~~--~~~V~G~~~d~~~~~~~l~k~~  444 (486)
                      +++||-|. -|-....  .-| ..+++++||+.|.+     |.+..  ++|+.|+.+|-..+.+.+.+.|
T Consensus         5 rRlVLDVlKPh~p~~~--~~A-~~l~~~~gV~~VnitV~EiD~~t~~i~ItiEG~~idyd~i~~~IE~~G   71 (91)
T d3bpda1           5 RRLVLDVLKPHEPKTI--VFA-LKLSELENVDGVNIHLSEIDQATENIKITILGNNLDYEQIKGVIEDMG   71 (91)
T ss_dssp             EEEEEEEEEESCSCHH--HHH-HHHHTSTTEEEEEEEEEEECSSEEEEEEEEEEEEECHHHHHHHHHTTT
T ss_pred             eEEEEEeecCCCCCHH--HHH-HHHhccCCcceEEEEEEEecccceEEEEEEEecCCCHHHHHHHHHHcC
Confidence            34555553 2333343  444 44899999999876     44443  7899999999999999999977

>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=80.62  E-value=0.59  Score=41.85  Aligned_cols=25  Identities=0%  Similarity=-0.348  Sum_probs=20.2

Q ss_pred             CCCceeeeeeeccCccchhHHHHHHH
Q 011431          224 AEGYRSYRCWLLCPLFSELRVLTNDV  249 (486)
Q Consensus       224 ~~~~~vi~I~GmGgGvGKTTLa~~vy  249 (486)
                      .++.++|-..|=| |+||||++-++=
T Consensus        17 ~~~~~iii~sGKG-GVGKTT~a~nLA   41 (279)
T d1ihua2          17 RNEHGLIMLMGKG-GVGKTTMAAAIA   41 (279)
T ss_dssp             TTSCEEEEEECST-TSSHHHHHHHHH
T ss_pred             cCCCEEEEEECCC-CCCHHHHHHHHH
Confidence            4578899889987 999999876553

>d2raqa1 d.58.61.1 (A:3-95) Uncharacterized protein MTH889 {Methanobacterium thermoautotrophicum [TaxId: 145262]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: MTH889-like
family: MTH889-like
domain: Uncharacterized protein MTH889
species: Methanobacterium thermoautotrophicum [TaxId: 145262]

Probab=80.42  E-value=2.1  Score=31.51  Aligned_cols=59  Identities=15%  Similarity=0.268  Sum_probs=42.4

Q ss_pred             eeeeeecc-ccccchhhHHHHHHHhhcCCCeeEEEe-----ecCCC--eEEEEeeccCHHHHHHHhhccc
Q 011431          383 KEAIFKLE-IHHDNLEAWRAAFSIVSEFIGITKISF-----DFKVK--KMTVVGDNFDVLSAGTKLNGLC  444 (486)
Q Consensus       383 ~~~v~kv~-~~~~~~~~~~~a~k~~~~~~Gv~~v~~-----d~~~~--~~~V~G~~~d~~~~~~~l~k~~  444 (486)
                      +.+||-|. -|....   -..-+.+++++||+.|.+     |.+..  ++||.|+.+|-..+.+.+.+.|
T Consensus         5 RRlVLDVlKPh~P~i---~e~A~~l~~~~gV~~VnitV~EiD~et~~i~itiEG~~idyd~i~~~IE~~G   71 (93)
T d2raqa1           5 IRIVLDILKPHEPII---PEYAKYLSELRGVEGVNITLMEIDKETENIKVTIQGNDLDFDEITRAIESYG   71 (93)
T ss_dssp             EEEEEEEECCSCSCH---HHHHHHHHHSTTCCEEEEEEEEECSSCEEEEEEEECSSCCHHHHHHHHHHTT
T ss_pred             EEEEEEeecCCCCCH---HHHHHHHhccCCcceEEEEEEEecccceEEEEEEEecCCCHHHHHHHHHHcC
Confidence            34555553 243333   345566788999988876     55544  7899999999999999999977

>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=80.29  E-value=0.37  Score=39.09  Aligned_cols=24  Identities=13%  Similarity=-0.194  Sum_probs=19.3

Q ss_pred             CceeeeeeeccCccchhHHHHHHHhh
Q 011431          226 GYRSYRCWLLCPLFSELRVLTNDVHQ  251 (486)
Q Consensus       226 ~~~vi~I~GmGgGvGKTTLa~~vy~~  251 (486)
                      .++ |.|+|-. |+|||||++.+.+.
T Consensus         5 e~k-I~ivG~~-~vGKSSLi~~~~~~   28 (169)
T d1upta_           5 EMR-ILILGLD-GAGKTTILYRLQVG   28 (169)
T ss_dssp             CEE-EEEECST-TSSHHHHHHHHHHS
T ss_pred             ceE-EEEECCC-CCCHHHHHHHHhCC
Confidence            344 5699999 99999999988654