Citrus Sinensis ID: 024705

---

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----
Protein Sequence
MVQLLQPFRFSSIAPRRFFSLFPSFSQNGRRDAITCIGMNIHSLSSAAEVPEFDDEPHDDAKIMQKDNALRLALSQLANDFGKESMLSLKRFFGSRRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVKVLLLKHF
Secondary Structure (PSIPRED)
cccccccccccccccccccccccccccccccccEEEcccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHcccccEEEcccccccccccEEccccHHHHHHHcccccccccEEEEEccccccHHHHHHHHHHHHHHcccEEEEEcccccccHHHHHHHccccccccccccccHHHHHHHHHHHHHHccccEEEEEEEEcccccccccccccccHHHHHHHHHHHHHHHHHHccccccEEEEEEEHHHHHHHccc
Secondary Structure Prediction (SSPRO)
ccEEcccccccccccHHHHcccccccccccccEEEEHccccccccHHcHccccccccccccccccHHHHHHHHHHHHHHHcccccEEEcccccccccEEEEccccHHHHHHHccccccccEEEEEEccccccHHHHHHHHHHHHHHcccEEEEEEcHHcccHHHHHHHcccHHHHEEcccccHHHHHHHHHHHHHcccEEEEEEEcHHEEcccHEEccccccccHHHHHHHHHHHHHHHHHHHHccccEEEEEHHHHHHHcccc
Coil and Loop (DISEMBL)
mvqllqpfrfssiaprrffslfpsfsqngrrdaiTCIGmnihslssaaevpefddephddakIMQKDNALRLALSQLANDFGKESMLSLKRFfgsrrgpvistgsLKLDLAlgigglpkgriveiygreasgkTTLALHVIKEAQKLGGycayldvenaldpslaeamgidaenlliaqpdsaENLLSVVDTLTKSGSIDVIVVDSVAAlipkceigvpingmysDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVKVLLLKHF
Flexible Loop (DISEMBL)
mvqllqpfrfssiaprrfFSLFPSFSQNGRRDAITCIGMNIHSLSSAAEVPEFDDEPHDDAKIMQKDNALRLALSQLANDFGKESMLSLKRFFGSRRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVKVLLLKHF
Low Complexity Region (SEG)
MVQLLQPFRFSSIAprrffslfpsfsQNGRRDAITCIGMNIHSLSSAAEVPEFDDEPHDDAKIMQKDNALRLALSQLANDFGKESMLSLKRFFGSRRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTKSGsidvivvdsvaaLIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVKVLLLKHF
Disordered region (IsUnstruct)
******PFRFSSIAPRRFFSLFPSFSQNGRRDAITCIGMNIHSL*************************LRLALSQLANDFGKESMLSLKRFFGSRRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVKVLLL***
Disordered Region (DISOPRED)
*******FRFSSIAPRRFFSLFPSFS*********************************************LALSQLANDFGKESMLSLKRFFGSRRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVKVLLLKHF
Disordered Region (DISEMBL)
MVQLLQPFRFSSIAPRRFFSLFPSFSQNGRRDAITCIGMNIHSLSSAAEVPEFDDEPHDDAKIMQKDNALRLALSQLANDFGKESMLSLKRFFGSRRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVKVLLLKHF
Disordered Region (DISPRO)
*VQLLQPFRFSSIAPRRFFSLFPSFSQNGRRDAITCIGMNI**********************MQKDNALRLALSQLANDFGKESMLSLKRFFGSRRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVKVLLLKHF
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MVQLLQPFRFSSIAPRRFFSLFPSFSQNGRRDAITCIGMNIHSLSSAAEVPEFDDEPHDDAKIMQKDNALRLALSQLANDFGKESMLSLKRFFGSRRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVKVLLLKHF
Positional Conservation
no confident homologs detected

---

Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	264	2.2.26 [Sep-21-2011]
Q8RY99	389	DNA repair protein recA h	yes	no	0.943	0.640	0.641	1e-81
A5FXB8	343	Protein RecA OS=Acidiphil	yes	no	0.738	0.568	0.543	7e-56
Q89I84	362	Protein RecA OS=Bradyrhiz	yes	no	0.738	0.538	0.533	5e-55
B9JFS7	361	Protein RecA OS=Agrobacte	yes	no	0.746	0.545	0.543	1e-54
Q3ST50	362	Protein RecA OS=Nitrobact	yes	no	0.738	0.538	0.517	3e-54
P24074	351	Protein RecA OS=Rhizobium	N/A	no	0.723	0.544	0.537	3e-54
B0CH00	361	Protein RecA OS=Brucella	yes	no	0.738	0.540	0.543	5e-54
Q1MFZ8	364	Protein RecA OS=Rhizobium	yes	no	0.731	0.530	0.532	5e-54
P65976	361	Protein RecA OS=Brucella	yes	no	0.738	0.540	0.543	5e-54
P65975	361	Protein RecA OS=Brucella	yes	no	0.738	0.540	0.543	5e-54

>sp|Q8RY99|RECAM_ARATH DNA repair protein recA homolog 2, mitochondrial OS=Arabidopsis thaliana GN=At3g10140 PE=2 SV=1

 Score =  303 bits (775), Expect = 1e-81,   Method: Compositional matrix adjust.
 Identities = 161/251 (64%), Positives = 194/251 (77%), Gaps = 2/251 (0%)

Query: 9   RFSSIAPRRFFSLFPSFSQ-NGRRDAITCIGMNIHSLSSAAEVPEFD-DEPHDDAKIMQK 66
           R S  +P + F  F   SQ NGRR  + C G     LSS  E  + + DE  DD K+ +K
Sbjct: 3   RLSWASPIQRFRFFSYLSQLNGRRSVLACSGYENRYLSSLVEASDCELDEVPDDRKVAEK 62

Query: 67  DNALRLALSQLANDFGKESMLSLKRFFGSRRGPVISTGSLKLDLALGIGGLPKGRIVEIY 126
           D AL LALSQL+ DF K+S LSL+RF+  RR  VISTGSL LDLALG+GGLPKGR+VE+Y
Sbjct: 63  DTALHLALSQLSGDFDKDSKLSLQRFYRKRRVSVISTGSLNLDLALGVGGLPKGRMVEVY 122

Query: 127 GREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENL 186
           G+EASGKTTLALH+IKEAQKLGGYCAYLD ENA+DPSLAE++G++ E LLI++P SAE +
Sbjct: 123 GKEASGKTTLALHIIKEAQKLGGYCAYLDAENAMDPSLAESIGVNTEELLISRPSSAEKM 182

Query: 187 LSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQS 246
           L++VD LTKSGS+DVIVVDSVAAL P+CE+  P+   Y D QSRIMTQALRKIHYS+  S
Sbjct: 183 LNIVDVLTKSGSVDVIVVDSVAALAPQCELDAPVGERYRDTQSRIMTQALRKIHYSVGYS 242

Query: 247 HTLIIFLNQVK 257
            TLI+FLNQV+
Sbjct: 243 QTLIVFLNQVR 253

Involved in recombination ability and DNA strand transfer activity.
Arabidopsis thaliana (taxid: 3702)

>sp|A5FXB8|RECA_ACICJ Protein RecA OS=Acidiphilium cryptum (strain JF-5) GN=recA PE=3 SV=1

 Score =  217 bits (553), Expect = 7e-56,   Method: Compositional matrix adjust.
 Identities = 106/195 (54%), Positives = 145/195 (74%)

Query: 64  MQKDNALRLALSQLANDFGKESMLSLKRFFGSRRGPVISTGSLKLDLALGIGGLPKGRIV 123
           M+K+ AL  AL+Q+   FGK S++ +     S    VISTGSL LDLALGIGGLP+GR++
Sbjct: 1   MEKNKALDAALAQIERAFGKGSIMRMGSRSESEAIDVISTGSLGLDLALGIGGLPRGRVI 60

Query: 124 EIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSA 183
           EIYG E+SGKTTLALH + EAQK GG CA++D E+ALDP  A  +G+D +NLLI+QPD+ 
Sbjct: 61  EIYGPESSGKTTLALHAVAEAQKRGGTCAFVDAEHALDPIYARKLGVDVDNLLISQPDTG 120

Query: 184 ENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSL 243
           E  L + DTL +SG+IDV+VVDSVAAL+P+ E+   +   +    +R+M+QALRK+  S+
Sbjct: 121 EQALEIADTLVRSGAIDVLVVDSVAALVPRAELEGEMGDSHVGLHARLMSQALRKLTGSI 180

Query: 244 CQSHTLIIFLNQVKV 258
            +S TL+IFLNQ+++
Sbjct: 181 SRSKTLVIFLNQIRL 195

Can catalyze the hydrolysis of ATP in the presence of single-stranded DNA, the ATP-dependent uptake of single-stranded DNA by duplex DNA, and the ATP-dependent hybridization of homologous single-stranded DNAs. It interacts with LexA causing its activation and leading to its autocatalytic cleavage.

Acidiphilium cryptum (strain JF-5) (taxid: 349163)

>sp|Q89I84|RECA_BRAJA Protein RecA OS=Bradyrhizobium japonicum (strain USDA 110) GN=recA PE=3 SV=1

 Score =  214 bits (545), Expect = 5e-55,   Method: Compositional matrix adjust.
 Identities = 104/195 (53%), Positives = 143/195 (73%)

Query: 64  MQKDNALRLALSQLANDFGKESMLSLKRFFGSRRGPVISTGSLKLDLALGIGGLPKGRIV 123
           M K  AL  ALSQ+   FGK S++ L +   S     +S+GSL LD+ALGIGGLPKGR+V
Sbjct: 14  MDKSKALAAALSQIERQFGKGSVMKLGKNDRSMDVEAVSSGSLGLDIALGIGGLPKGRVV 73

Query: 124 EIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSA 183
           EIYG E+SGKTTLALH + EAQK GG CA++D E+ALDP  A  +G++ + LLI+QPD+ 
Sbjct: 74  EIYGPESSGKTTLALHTVAEAQKKGGICAFIDAEHALDPVYARKLGVNIDELLISQPDTG 133

Query: 184 ENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSL 243
           E  L + DTL +SG++DV+VVDSVAAL+PK E+   +       Q+R+M+QALRK+  S+
Sbjct: 134 EQALEICDTLVRSGAVDVLVVDSVAALVPKAELEGEMGDALPGLQARLMSQALRKLTASI 193

Query: 244 CQSHTLIIFLNQVKV 258
            +SHT++IF+NQ+++
Sbjct: 194 NKSHTMVIFINQIRM 208

Can catalyze the hydrolysis of ATP in the presence of single-stranded DNA, the ATP-dependent uptake of single-stranded DNA by duplex DNA, and the ATP-dependent hybridization of homologous single-stranded DNAs. It interacts with LexA causing its activation and leading to its autocatalytic cleavage.

Bradyrhizobium japonicum (strain USDA 110) (taxid: 224911)

>sp|B9JFS7|RECA_AGRRK Protein RecA OS=Agrobacterium radiobacter (strain K84 / ATCC BAA-868) GN=recA PE=3 SV=1

 Score =  213 bits (542), Expect = 1e-54,   Method: Compositional matrix adjust.
 Identities = 107/197 (54%), Positives = 141/197 (71%)

Query: 62  KIMQKDNALRLALSQLANDFGKESMLSLKRFFGSRRGPVISTGSLKLDLALGIGGLPKGR 121
           K + K  AL  ALSQ+   FGK S++ L           +STGSL LD+ALGIGGLPKGR
Sbjct: 12  KSVDKSKALEAALSQIERSFGKGSIMKLGSNENVVEIETVSTGSLSLDIALGIGGLPKGR 71

Query: 122 IVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPD 181
           IVEIYG E+SGKTTLAL  I EAQK GG CA++D E+ALDP  A  +G+D +NLLI+QPD
Sbjct: 72  IVEIYGPESSGKTTLALQTIAEAQKKGGICAFVDAEHALDPVYARKLGVDLQNLLISQPD 131

Query: 182 SAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHY 241
           + E  L + DTL +SG+IDV+VVDSVAAL P+ EI   +       Q+R+M+QALRK+  
Sbjct: 132 TGEQALEITDTLVRSGAIDVLVVDSVAALTPRAEIEGEMGDSLPGLQARLMSQALRKLTA 191

Query: 242 SLCQSHTLIIFLNQVKV 258
           S+ +S+T++IF+NQ+++
Sbjct: 192 SISKSNTMVIFINQIRM 208

Can catalyze the hydrolysis of ATP in the presence of single-stranded DNA, the ATP-dependent uptake of single-stranded DNA by duplex DNA, and the ATP-dependent hybridization of homologous single-stranded DNAs. It interacts with LexA causing its activation and leading to its autocatalytic cleavage.

Agrobacterium radiobacter (strain K84 / ATCC BAA-868) (taxid: 311403)

>sp|Q3ST50|RECA_NITWN Protein RecA OS=Nitrobacter winogradskyi (strain Nb-255 / ATCC 25391) GN=recA PE=3 SV=1

 Score =  212 bits (539), Expect = 3e-54,   Method: Compositional matrix adjust.
 Identities = 101/195 (51%), Positives = 144/195 (73%)

Query: 64  MQKDNALRLALSQLANDFGKESMLSLKRFFGSRRGPVISTGSLKLDLALGIGGLPKGRIV 123
           M K  AL  ALSQ+   FGK S++ L +   S    VIS+GSL LD+ALG+GGLPKGRIV
Sbjct: 14  MDKSKALSAALSQIERQFGKGSVMKLGKNDKSMDVEVISSGSLGLDIALGVGGLPKGRIV 73

Query: 124 EIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSA 183
           E+YG E+SGKTTLALH + EAQK GG CA++D E+ALDP  A  +G++ ++LLI+QPD  
Sbjct: 74  EVYGPESSGKTTLALHAVAEAQKKGGICAFIDAEHALDPVYARKLGVNVDDLLISQPDHG 133

Query: 184 ENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSL 243
           E  L + DTL +SG++DV+++DSVAAL+P+ E+   +       Q+R+M+QALRK+  S+
Sbjct: 134 EQALEIADTLVRSGAVDVLIIDSVAALVPRAELEGEMGDALPGLQARLMSQALRKLTASI 193

Query: 244 CQSHTLIIFLNQVKV 258
            +S+T++IF+NQ+++
Sbjct: 194 NKSNTMVIFINQIRM 208

Can catalyze the hydrolysis of ATP in the presence of single-stranded DNA, the ATP-dependent uptake of single-stranded DNA by duplex DNA, and the ATP-dependent hybridization of homologous single-stranded DNAs. It interacts with LexA causing its activation and leading to its autocatalytic cleavage.

Nitrobacter winogradskyi (strain Nb-255 / ATCC 25391) (taxid: 323098)

>sp|P24074|RECA_RHILV Protein RecA OS=Rhizobium leguminosarum bv. viciae GN=recA PE=3 SV=1

 Score =  211 bits (538), Expect = 3e-54,   Method: Compositional matrix adjust.
 Identities = 107/199 (53%), Positives = 142/199 (71%), Gaps = 8/199 (4%)

Query: 64  MQKDNALRLALSQLANDFGKESMLSLKRFFGSRRGPV----ISTGSLKLDLALGIGGLPK 119
           M K  AL  ALSQ+   FGK S++ L    GS    V    ISTGSL LD+ALG+GGLP+
Sbjct: 1   MDKSKALEAALSQIERSFGKGSIMKL----GSNENVVEIETISTGSLGLDIALGVGGLPR 56

Query: 120 GRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQ 179
           GRI+EIYG E+SGKTTLAL  I EAQK GG CA++D E+ALDP  A  +G+D +NLLI+Q
Sbjct: 57  GRIIEIYGPESSGKTTLALQTIAEAQKKGGICAFVDAEHALDPVYARKLGVDLQNLLISQ 116

Query: 180 PDSAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKI 239
           PD+ E  L + DTL +SG +DV+VVDSVAAL P+ EI   +       Q+R+M+QALRK+
Sbjct: 117 PDTGEQALEITDTLVRSGRVDVLVVDSVAALTPRAEIEGEMGDTVPGLQARLMSQALRKL 176

Query: 240 HYSLCQSHTLIIFLNQVKV 258
             S+ +S+T++IF+NQ+++
Sbjct: 177 TASISKSNTMVIFINQIRM 195

Can catalyze the hydrolysis of ATP in the presence of single-stranded DNA, the ATP-dependent uptake of single-stranded DNA by duplex DNA, and the ATP-dependent hybridization of homologous single-stranded DNAs. It interacts with LexA causing its activation and leading to its autocatalytic cleavage.

Rhizobium leguminosarum bv. viciae (taxid: 387)

>sp|B0CH00|RECA_BRUSI Protein RecA OS=Brucella suis (strain ATCC 23445 / NCTC 10510) GN=recA PE=3 SV=1

 Score =  211 bits (536), Expect = 5e-54,   Method: Compositional matrix adjust.
 Identities = 106/195 (54%), Positives = 141/195 (72%)

Query: 64  MQKDNALRLALSQLANDFGKESMLSLKRFFGSRRGPVISTGSLKLDLALGIGGLPKGRIV 123
           + K  AL  ALSQ+   FGK S++ L +         +STGSL LD+ALG+GGLPKGRIV
Sbjct: 14  VDKTKALDAALSQIERAFGKGSIMRLGQNDQVVEIETVSTGSLSLDIALGVGGLPKGRIV 73

Query: 124 EIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSA 183
           EIYG E+SGKTTLALH I EAQK GG CA++D E+ALDP  A  +G+D ENLLI+QPD+ 
Sbjct: 74  EIYGPESSGKTTLALHTIAEAQKKGGICAFVDAEHALDPVYARKLGVDLENLLISQPDTG 133

Query: 184 ENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSL 243
           E  L + DTL +SG+IDV+VVDSVAAL P+ EI   +       Q+R+M+QALRK+  S+
Sbjct: 134 EQALEITDTLVRSGAIDVLVVDSVAALTPRAEIEGEMGDSLPGLQARLMSQALRKLTGSI 193

Query: 244 CQSHTLIIFLNQVKV 258
            +S+ ++IF+NQ+++
Sbjct: 194 SRSNCMVIFINQIRM 208

Can catalyze the hydrolysis of ATP in the presence of single-stranded DNA, the ATP-dependent uptake of single-stranded DNA by duplex DNA, and the ATP-dependent hybridization of homologous single-stranded DNAs. It interacts with LexA causing its activation and leading to its autocatalytic cleavage.

Brucella suis (strain ATCC 23445 / NCTC 10510) (taxid: 470137)

>sp|Q1MFZ8|RECA_RHIL3 Protein RecA OS=Rhizobium leguminosarum bv. viciae (strain 3841) GN=recA PE=3 SV=1

 Score =  211 bits (536), Expect = 5e-54,   Method: Compositional matrix adjust.
 Identities = 107/201 (53%), Positives = 144/201 (71%), Gaps = 8/201 (3%)

Query: 62  KIMQKDNALRLALSQLANDFGKESMLSLKRFFGSRRGPV----ISTGSLKLDLALGIGGL 117
           K + K  AL  ALSQ+   FGK S++ L    GS    V    ISTGSL LD+ALG+GGL
Sbjct: 12  KSVDKSKALEAALSQIERSFGKGSIMKL----GSNENVVEIETISTGSLGLDIALGVGGL 67

Query: 118 PKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLI 177
           P+GRI+EIYG E+SGKTTLAL  I EAQK GG CA++D E+ALDP  A  +G+D +NLLI
Sbjct: 68  PRGRIIEIYGPESSGKTTLALQTIAEAQKKGGICAFVDAEHALDPVYARKLGVDLQNLLI 127

Query: 178 AQPDSAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALR 237
           +QPD+ E  L + DTL +SG++DV+VVDSVAAL P+ EI   +       Q+R+M+QALR
Sbjct: 128 SQPDTGEQALEITDTLVRSGAVDVLVVDSVAALTPRAEIEGEMGDSLPGLQARLMSQALR 187

Query: 238 KIHYSLCQSHTLIIFLNQVKV 258
           K+  S+ +S+T++IF+NQ+++
Sbjct: 188 KLTASISKSNTMVIFINQIRM 208

Can catalyze the hydrolysis of ATP in the presence of single-stranded DNA, the ATP-dependent uptake of single-stranded DNA by duplex DNA, and the ATP-dependent hybridization of homologous single-stranded DNAs. It interacts with LexA causing its activation and leading to its autocatalytic cleavage.

Rhizobium leguminosarum bv. viciae (strain 3841) (taxid: 216596)

>sp|P65976|RECA_BRUSU Protein RecA OS=Brucella suis biovar 1 (strain 1330) GN=recA PE=3 SV=1

 Score =  211 bits (536), Expect = 5e-54,   Method: Compositional matrix adjust.
 Identities = 106/195 (54%), Positives = 141/195 (72%)

Query: 64  MQKDNALRLALSQLANDFGKESMLSLKRFFGSRRGPVISTGSLKLDLALGIGGLPKGRIV 123
           + K  AL  ALSQ+   FGK S++ L +         +STGSL LD+ALG+GGLPKGRIV
Sbjct: 14  VDKTKALDAALSQIERAFGKGSIMRLGQNDQVVEIETVSTGSLSLDIALGVGGLPKGRIV 73

Query: 124 EIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSA 183
           EIYG E+SGKTTLALH I EAQK GG CA++D E+ALDP  A  +G+D ENLLI+QPD+ 
Sbjct: 74  EIYGPESSGKTTLALHTIAEAQKKGGICAFVDAEHALDPVYARKLGVDLENLLISQPDTG 133

Query: 184 ENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSL 243
           E  L + DTL +SG+IDV+VVDSVAAL P+ EI   +       Q+R+M+QALRK+  S+
Sbjct: 134 EQALEITDTLVRSGAIDVLVVDSVAALTPRAEIEGEMGDSLPGLQARLMSQALRKLTGSI 193

Query: 244 CQSHTLIIFLNQVKV 258
            +S+ ++IF+NQ+++
Sbjct: 194 SRSNCMVIFINQIRM 208

Can catalyze the hydrolysis of ATP in the presence of single-stranded DNA, the ATP-dependent uptake of single-stranded DNA by duplex DNA, and the ATP-dependent hybridization of homologous single-stranded DNAs. It interacts with LexA causing its activation and leading to its autocatalytic cleavage.

Brucella suis biovar 1 (strain 1330) (taxid: 204722)

>sp|P65975|RECA_BRUME Protein RecA OS=Brucella melitensis biotype 1 (strain 16M / ATCC 23456 / NCTC 10094) GN=recA PE=3 SV=1

 Score =  211 bits (536), Expect = 5e-54,   Method: Compositional matrix adjust.
 Identities = 106/195 (54%), Positives = 141/195 (72%)

Query: 64  MQKDNALRLALSQLANDFGKESMLSLKRFFGSRRGPVISTGSLKLDLALGIGGLPKGRIV 123
           + K  AL  ALSQ+   FGK S++ L +         +STGSL LD+ALG+GGLPKGRIV
Sbjct: 14  VDKTKALDAALSQIERAFGKGSIMRLGQNDQVVEIETVSTGSLSLDIALGVGGLPKGRIV 73

Query: 124 EIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSA 183
           EIYG E+SGKTTLALH I EAQK GG CA++D E+ALDP  A  +G+D ENLLI+QPD+ 
Sbjct: 74  EIYGPESSGKTTLALHTIAEAQKKGGICAFVDAEHALDPVYARKLGVDLENLLISQPDTG 133

Query: 184 ENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSL 243
           E  L + DTL +SG+IDV+VVDSVAAL P+ EI   +       Q+R+M+QALRK+  S+
Sbjct: 134 EQALEITDTLVRSGAIDVLVVDSVAALTPRAEIEGEMGDSLPGLQARLMSQALRKLTGSI 193

Query: 244 CQSHTLIIFLNQVKV 258
            +S+ ++IF+NQ+++
Sbjct: 194 SRSNCMVIFINQIRM 208

Can catalyze the hydrolysis of ATP in the presence of single-stranded DNA, the ATP-dependent uptake of single-stranded DNA by duplex DNA, and the ATP-dependent hybridization of homologous single-stranded DNAs. It interacts with LexA causing its activation and leading to its autocatalytic cleavage.

Brucella melitensis biotype 1 (strain 16M / ATCC 23456 / NCTC 10094) (taxid: 224914)

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	264
359496049	398	PREDICTED: DNA repair protein recA homol	0.875	0.580	0.737	4e-94
356571990	386	PREDICTED: DNA repair protein recA homol	0.890	0.608	0.706	4e-89
357509615	394	RecA [Medicago truncatula] gi|355500111|	0.901	0.604	0.679	1e-85
224139890	323	predicted protein [Populus trichocarpa]	0.731	0.597	0.813	1e-80
6143863	389	putative RecA protein [Arabidopsis thali	0.943	0.640	0.641	5e-80
22330951	389	DNA repair protein recA-like 2 [Arabidop	0.943	0.640	0.641	6e-80
255586516	388	DNA repair protein reca, putative [Ricin	0.954	0.649	0.648	5e-77
449449809	401	PREDICTED: DNA repair protein recA homol	0.943	0.620	0.610	2e-73
133711814	395	putative recA protein [Solanum lycopersi	0.943	0.630	0.637	6e-70
224086956	335	predicted protein [Populus trichocarpa]	0.704	0.555	0.692	2e-68

>gi|359496049|ref|XP_002278976.2| PREDICTED: DNA repair protein recA homolog 2, mitochondrial-like [Vitis vinifera] gi|296087050|emb|CBI33377.3| unnamed protein product [Vitis vinifera]

 Score =  350 bits (897), Expect = 4e-94,   Method: Compositional matrix adjust.
 Identities = 171/232 (73%), Positives = 201/232 (86%), Gaps = 1/232 (0%)

Query: 27  QNGRRDAITCIGMNIHSLSSAAEVPEFD-DEPHDDAKIMQKDNALRLALSQLANDFGKES 85
           Q G+RDA+ CIGM+  SLSS+ E  E + DE  +D K  +KD ALRLA+S+LA DFG+ES
Sbjct: 29  QTGKRDAVACIGMHTRSLSSSVEFLEIECDEYGNDVKAAEKDTALRLAISRLAGDFGRES 88

Query: 86  MLSLKRFFGSRRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQ 145
           MLSL+RFF SR  PVISTGSLKLDLALGIGGLPKGRIVEIYG+EASGKTTLALH+IKEAQ
Sbjct: 89  MLSLQRFFVSRHAPVISTGSLKLDLALGIGGLPKGRIVEIYGQEASGKTTLALHIIKEAQ 148

Query: 146 KLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTKSGSIDVIVVD 205
           KLGGYCAYLDVENA++PS AE+MG++ +NLLI+ PDSAENLLS+V+TLTKSGS+DVIVVD
Sbjct: 149 KLGGYCAYLDVENAMNPSFAESMGVNVDNLLISPPDSAENLLSMVNTLTKSGSMDVIVVD 208

Query: 206 SVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVK 257
           SVAAL+P+ E+ V I G Y D QS+IM QALRKIHYSLC+S TLIIF+NQV+
Sbjct: 209 SVAALVPQHELDVVIGGTYQDVQSQIMAQALRKIHYSLCRSETLIIFVNQVR 260

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356571990|ref|XP_003554153.1| PREDICTED: DNA repair protein recA homolog 2, mitochondrial-like [Glycine max]

 Score =  333 bits (855), Expect = 4e-89,   Method: Compositional matrix adjust.
 Identities = 171/242 (70%), Positives = 198/242 (81%), Gaps = 7/242 (2%)

Query: 21  LFPSFSQNGRRDAITCIGMNIHSLSSAAEVPEFD-DEPHDDAKIMQKDNALRLALSQLAN 79
           L   F QNG R  ++ IGM   SLSSAAE  +F+ D  HDD K  +KDNAL LA+SQLA+
Sbjct: 14  LLSPFCQNGGRQIMSRIGMTACSLSSAAEASDFECDAIHDDVKAAEKDNALCLAVSQLAS 73

Query: 80  DFGKESMLSLKRFFGSRRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALH 139
           +F KESMLSL++ FG RR  VISTGSLKLDLALGIGGLPKGRIVEIYGREA+GKTTLA+ 
Sbjct: 74  EFSKESMLSLQKIFGVRRAHVISTGSLKLDLALGIGGLPKGRIVEIYGREAAGKTTLAIQ 133

Query: 140 VIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTKSGSI 199
           +IKEAQKLGGYCAYLDVENALD SL E+MGID ENLLI+ PD AENLLS+VDTLTKSG++
Sbjct: 134 IIKEAQKLGGYCAYLDVENALDFSLMESMGIDTENLLISHPDCAENLLSMVDTLTKSGAV 193

Query: 200 DVIVVDSVAALIPKCE---IGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQV 256
           DVIV+DSVAAL+PKCE   +GV  N    D QSR+MTQALRKIHYSL  S TLI+F+NQ+
Sbjct: 194 DVIVIDSVAALVPKCELDQLGVTTN---RDLQSRMMTQALRKIHYSLSHSQTLIVFINQI 250

Query: 257 KV 258
           ++
Sbjct: 251 RL 252

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357509615|ref|XP_003625096.1| RecA [Medicago truncatula] gi|355500111|gb|AES81314.1| RecA [Medicago truncatula]

 Score =  322 bits (824), Expect = 1e-85,   Method: Compositional matrix adjust.
 Identities = 163/240 (67%), Positives = 198/240 (82%), Gaps = 2/240 (0%)

Query: 21  LFPSFSQNGRRDAITCIGMNIHSLSSAAEVPEFD-DEPHDDAKIMQKDNALRLALSQLAN 79
           L+PS  +NG R+ +T IG+N  SLS+ AE  + + DE HDD K  +K+NAL LA+SQLA+
Sbjct: 20  LYPS-RKNGFREIMTRIGVNTCSLSTTAEASDLECDEIHDDVKAAEKNNALCLAVSQLAS 78

Query: 80  DFGKESMLSLKRFFGSRRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALH 139
           +F KESMLSL++FF  R   V+STGSLKLD+ALGIGGLPKGRIVEIYGREA+GKTTLAL 
Sbjct: 79  EFSKESMLSLQKFFRVRYANVVSTGSLKLDIALGIGGLPKGRIVEIYGREAAGKTTLALQ 138

Query: 140 VIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTKSGSI 199
           +IKEAQKLGGYCAYLDVE+ALD SL E+MG++ +NLLI+ PD AENLLS+VDTLTKSG++
Sbjct: 139 IIKEAQKLGGYCAYLDVESALDLSLVESMGVNTKNLLISNPDCAENLLSMVDTLTKSGAV 198

Query: 200 DVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVKVL 259
           DVIVVDSVAAL+PKCE+         D  SRIMTQALRKIHYSL +S TL+IF+NQVK++
Sbjct: 199 DVIVVDSVAALVPKCELDQLGVATSQDLHSRIMTQALRKIHYSLSRSQTLLIFVNQVKIV 258

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224139890|ref|XP_002323326.1| predicted protein [Populus trichocarpa] gi|222867956|gb|EEF05087.1| predicted protein [Populus trichocarpa]

 Score =  305 bits (781), Expect = 1e-80,   Method: Compositional matrix adjust.
 Identities = 157/193 (81%), Positives = 176/193 (91%)

Query: 65  QKDNALRLALSQLANDFGKESMLSLKRFFGSRRGPVISTGSLKLDLALGIGGLPKGRIVE 124
           QKDNALRLAL+QLA +FG+ESMLSL+RFF SRR PVISTGSLKLDLALGIGGLPKGR+VE
Sbjct: 1   QKDNALRLALTQLAGEFGRESMLSLQRFFNSRRAPVISTGSLKLDLALGIGGLPKGRMVE 60

Query: 125 IYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAE 184
           IYG+EASGKTTLALH+IKEAQKLGGYCAYLDVENA+DP L E+MGI+ ENLLI+ PD AE
Sbjct: 61  IYGKEASGKTTLALHIIKEAQKLGGYCAYLDVENAMDPLLPESMGINTENLLISHPDCAE 120

Query: 185 NLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLC 244
           NLLSVVDTLTKSGS+DVIVVDSVAAL+P+ EI   + G + D QSR+MTQALRKI+YSLC
Sbjct: 121 NLLSVVDTLTKSGSVDVIVVDSVAALVPQREIDTAVGGTFEDIQSRLMTQALRKINYSLC 180

Query: 245 QSHTLIIFLNQVK 257
           QS TLIIFLNQV+
Sbjct: 181 QSQTLIIFLNQVR 193

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|6143863|gb|AAF04410.1|AC010927_3 putative RecA protein [Arabidopsis thaliana]

 Score =  303 bits (776), Expect = 5e-80,   Method: Compositional matrix adjust.
 Identities = 161/251 (64%), Positives = 194/251 (77%), Gaps = 2/251 (0%)

Query: 9   RFSSIAPRRFFSLFPSFSQ-NGRRDAITCIGMNIHSLSSAAEVPEFD-DEPHDDAKIMQK 66
           R S  +P + F  F   SQ NGRR  + C G     LSS  E  + + DE  DD K+ +K
Sbjct: 3   RLSWASPIQRFRFFSYLSQLNGRRSVLACSGYENRYLSSLVEASDCELDEVPDDRKVAEK 62

Query: 67  DNALRLALSQLANDFGKESMLSLKRFFGSRRGPVISTGSLKLDLALGIGGLPKGRIVEIY 126
           D AL LALSQL+ DF K+S LSL+RF+  RR  VISTGSL LDLALG+GGLPKGR+VE+Y
Sbjct: 63  DTALHLALSQLSGDFDKDSKLSLQRFYRKRRVSVISTGSLNLDLALGVGGLPKGRMVEVY 122

Query: 127 GREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENL 186
           G+EASGKTTLALH+IKEAQKLGGYCAYLD ENA+DPSLAE++G++ E LLI++P SAE +
Sbjct: 123 GKEASGKTTLALHIIKEAQKLGGYCAYLDAENAMDPSLAESIGVNTEELLISRPSSAEKM 182

Query: 187 LSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQS 246
           L++VD LTKSGS+DVIVVDSVAAL P+CE+  P+   Y D QSRIMTQALRKIHYS+  S
Sbjct: 183 LNIVDVLTKSGSVDVIVVDSVAALAPQCELDAPVGERYRDTQSRIMTQALRKIHYSVGYS 242

Query: 247 HTLIIFLNQVK 257
            TLI+FLNQV+
Sbjct: 243 QTLIVFLNQVR 253

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|22330951|ref|NP_187625.2| DNA repair protein recA-like 2 [Arabidopsis thaliana] gi|75158993|sp|Q8RY99.1|RECAM_ARATH RecName: Full=DNA repair protein recA homolog 2, mitochondrial; AltName: Full=Recombinase A homolog 2; Flags: Precursor gi|18996122|gb|AAL79768.1| RecA protein [Arabidopsis thaliana] gi|22531124|gb|AAM97066.1| putative RecA protein [Arabidopsis thaliana] gi|23198012|gb|AAN15533.1| putative RecA protein [Arabidopsis thaliana] gi|332641343|gb|AEE74864.1| DNA repair protein recA-like 2 [Arabidopsis thaliana]

 Score =  303 bits (775), Expect = 6e-80,   Method: Compositional matrix adjust.
 Identities = 161/251 (64%), Positives = 194/251 (77%), Gaps = 2/251 (0%)

Query: 9   RFSSIAPRRFFSLFPSFSQ-NGRRDAITCIGMNIHSLSSAAEVPEFD-DEPHDDAKIMQK 66
           R S  +P + F  F   SQ NGRR  + C G     LSS  E  + + DE  DD K+ +K
Sbjct: 3   RLSWASPIQRFRFFSYLSQLNGRRSVLACSGYENRYLSSLVEASDCELDEVPDDRKVAEK 62

Query: 67  DNALRLALSQLANDFGKESMLSLKRFFGSRRGPVISTGSLKLDLALGIGGLPKGRIVEIY 126
           D AL LALSQL+ DF K+S LSL+RF+  RR  VISTGSL LDLALG+GGLPKGR+VE+Y
Sbjct: 63  DTALHLALSQLSGDFDKDSKLSLQRFYRKRRVSVISTGSLNLDLALGVGGLPKGRMVEVY 122

Query: 127 GREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENL 186
           G+EASGKTTLALH+IKEAQKLGGYCAYLD ENA+DPSLAE++G++ E LLI++P SAE +
Sbjct: 123 GKEASGKTTLALHIIKEAQKLGGYCAYLDAENAMDPSLAESIGVNTEELLISRPSSAEKM 182

Query: 187 LSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQS 246
           L++VD LTKSGS+DVIVVDSVAAL P+CE+  P+   Y D QSRIMTQALRKIHYS+  S
Sbjct: 183 LNIVDVLTKSGSVDVIVVDSVAALAPQCELDAPVGERYRDTQSRIMTQALRKIHYSVGYS 242

Query: 247 HTLIIFLNQVK 257
            TLI+FLNQV+
Sbjct: 243 QTLIVFLNQVR 253

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255586516|ref|XP_002533897.1| DNA repair protein reca, putative [Ricinus communis] gi|223526148|gb|EEF28487.1| DNA repair protein reca, putative [Ricinus communis]

 Score =  293 bits (750), Expect = 5e-77,   Method: Compositional matrix adjust.
 Identities = 168/259 (64%), Positives = 199/259 (76%), Gaps = 7/259 (2%)

Query: 1   MVQLLQPFRFSSIAPRRFFS-LFPSFSQNGRRDAITCIGMNIHSLSSAAEVPEFD-DEPH 58
           M   L   R  S+   R  S  FPS SQN R +AIT +G     L S     +F+ D+  
Sbjct: 1   MAPFLHSLRLHSLPRFRLCSSFFPSLSQNMRNEAITSLGRGPRLLCSL----DFECDKLI 56

Query: 59  DDAKIMQKDNALRLALSQLANDFGKESMLSLKRFFGSRRGPVISTGSLKLDLALGIGGLP 118
           DD++ M+K N L LAL +++ +F +ESMLSL RFF SR+  VISTGSLKLDLALGIGGLP
Sbjct: 57  DDSEAMEKHNKLFLALKEISGEFCRESMLSLHRFFSSRQASVISTGSLKLDLALGIGGLP 116

Query: 119 KGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIA 178
           KGR+VEIYG+EASGKTTLALH+IKEAQK GGYCAYLD ENALDPSL E+MG++ ENLLI+
Sbjct: 117 KGRMVEIYGQEASGKTTLALHIIKEAQKCGGYCAYLDAENALDPSLVESMGVNTENLLIS 176

Query: 179 QPDSAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRK 238
            PDSAENLLSVVDTLTKSGS+DVIVVDSVAAL+P+ E+   + G   D QSRIM+QA+RK
Sbjct: 177 PPDSAENLLSVVDTLTKSGSVDVIVVDSVAALVPQLELDTML-GSTEDRQSRIMSQAVRK 235

Query: 239 IHYSLCQSHTLIIFLNQVK 257
           I+YSL QS TLIIFLNQV+
Sbjct: 236 INYSLSQSKTLIIFLNQVR 254

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449449809|ref|XP_004142657.1| PREDICTED: DNA repair protein recA homolog 2, mitochondrial-like [Cucumis sativus]

 Score =  281 bits (719), Expect = 2e-73,   Method: Compositional matrix adjust.
 Identities = 155/254 (61%), Positives = 194/254 (76%), Gaps = 5/254 (1%)

Query: 8   FRFSSIA---PRRFFSLFPSFSQNGRRDAITCIGMNIHSLSSAAEVPEFD-DEPHDDAKI 63
           FRF  +    P RF SL  S  Q GRRD I+ +G++    SS  +V E++ D  +DD K 
Sbjct: 10  FRFCRLKHFEPSRFSSLSHSLLQ-GRRDVISYVGIDACHFSSLVDVWEYECDMLNDDTKT 68

Query: 64  MQKDNALRLALSQLANDFGKESMLSLKRFFGSRRGPVISTGSLKLDLALGIGGLPKGRIV 123
            +KD AL  A+SQ+A DFGK+S L L+RF  SR  PVISTGSLKLD+ALGIGGLPKGRI+
Sbjct: 69  TEKDTALHSAISQVAADFGKDSKLFLQRFLSSRFAPVISTGSLKLDIALGIGGLPKGRII 128

Query: 124 EIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSA 183
           EIYG+EASGKTTLALH+IKEAQKLGGYCAY D ENA+D S AE+MG++ +NLLI+ P SA
Sbjct: 129 EIYGQEASGKTTLALHIIKEAQKLGGYCAYFDAENAMDMSFAESMGVNVDNLLISPPASA 188

Query: 184 ENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSL 243
           ENLL  V+TL +SGS+DV+VVD+VAAL+P+CE+  PI     D++ R+M QALRKIHYSL
Sbjct: 189 ENLLCAVNTLVRSGSVDVVVVDTVAALVPQCELDAPIGSSERDSRPRVMNQALRKIHYSL 248

Query: 244 CQSHTLIIFLNQVK 257
             S TL++F+NQV+
Sbjct: 249 KLSQTLVVFINQVR 262

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|133711814|gb|ABO36632.1| putative recA protein [Solanum lycopersicum]

 Score =  270 bits (689), Expect = 6e-70,   Method: Compositional matrix adjust.
 Identities = 162/254 (63%), Positives = 195/254 (76%), Gaps = 5/254 (1%)

Query: 4   LLQPFRFSSIAPRRFFSLFPSFSQNGRRDAITCIGMNIHSLSSAAEVPEFDDEPHDDAKI 63
           +LQ  RF S +  R  S+FP  S       +    ++ ++ S+  E+    DE  DD K 
Sbjct: 2   VLQFLRFIS-SSSRCLSVFPLSSFKPENGMVWRRMLSAYASSAEGEL----DEIQDDTKT 56

Query: 64  MQKDNALRLALSQLANDFGKESMLSLKRFFGSRRGPVISTGSLKLDLALGIGGLPKGRIV 123
            +K +AL  ALSQL  DF KES LSL+RFFG+RR PVI TGSL+LDLALG+GGLPKGRIV
Sbjct: 57  SEKASALHSALSQLEGDFCKESRLSLQRFFGARRTPVIPTGSLRLDLALGLGGLPKGRIV 116

Query: 124 EIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSA 183
           EIYG+EASGKTTLALHVI+EAQKLGGYCAYLDVEN ++PSLAEA+G++ ENLLI+QPDSA
Sbjct: 117 EIYGQEASGKTTLALHVIREAQKLGGYCAYLDVENGMNPSLAEAIGVNVENLLISQPDSA 176

Query: 184 ENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSL 243
           ENLLS+V+TLTKSGS+DVIVVDSVAAL+P+ EI   +       QS+IMTQALRKIHYSL
Sbjct: 177 ENLLSIVNTLTKSGSMDVIVVDSVAALVPQLEIDATLCDSPKGLQSKIMTQALRKIHYSL 236

Query: 244 CQSHTLIIFLNQVK 257
             S TLIIF+NQV+
Sbjct: 237 GNSSTLIIFINQVR 250

Source: Solanum lycopersicum

Species: Solanum lycopersicum

Genus: Solanum

Family: Solanaceae

Order: Solanales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224086956|ref|XP_002308017.1| predicted protein [Populus trichocarpa] gi|222853993|gb|EEE91540.1| predicted protein [Populus trichocarpa]

 Score =  265 bits (676), Expect = 2e-68,   Method: Compositional matrix adjust.
 Identities = 133/192 (69%), Positives = 161/192 (83%), Gaps = 6/192 (3%)

Query: 7   PFRFSSIAPRRFFSLFPSFSQNGRRDAITCIGMNIHSLSSAAEVPEFD-DEPHDDAKIMQ 65
             RF+S+A  R  +L     QNGRR A++ IG N H+LSS   V +F+ DE HD+ +  Q
Sbjct: 4   SIRFNSLARFRLCTLSQ---QNGRRHAVSFIGRNDHTLSSV--VSDFEPDELHDEGEAKQ 58

Query: 66  KDNALRLALSQLANDFGKESMLSLKRFFGSRRGPVISTGSLKLDLALGIGGLPKGRIVEI 125
           KDNALRLAL+QLA +FG+ESMLSL+RFF SRR  +ISTGSLKLDLALGIGGLPKGR+VEI
Sbjct: 59  KDNALRLALTQLAGEFGRESMLSLQRFFSSRRASIISTGSLKLDLALGIGGLPKGRMVEI 118

Query: 126 YGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAEN 185
           YG+EASGKTT+ALH+IKEAQKLGGYCA+LDVENA+D SLA++MG++ ENLLI++PD AEN
Sbjct: 119 YGQEASGKTTIALHIIKEAQKLGGYCAFLDVENAMDHSLAKSMGVNTENLLISRPDCAEN 178

Query: 186 LLSVVDTLTKSG 197
           LLSVV+TLTKSG
Sbjct: 179 LLSVVNTLTKSG 190

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

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	264
TAIR|locus:2100038	389	RECA3 "RECA homolog 3" [Arabid	0.871	0.591	0.619	6.7e-72
TAIR|locus:2050439	430	RECA2 "A. thaliana recA homolo	0.806	0.495	0.497	2.5e-49
TIGR_CMR|CHY_1166	343	CHY_1166 "recA protein" [Carbo	0.727	0.559	0.463	2.8e-43
TIGR_CMR|SO_3430	357	SO_3430 "recA protein" [Shewan	0.727	0.537	0.481	7.5e-41
TIGR_CMR|SPO_2034	347	SPO_2034 "recA protein" [Ruege	0.731	0.556	0.461	2e-40
UNIPROTKB|P0A7G6	353	recA [Escherichia coli K-12 (t	0.727	0.543	0.476	5.3e-40
TIGR_CMR|CBU_1054	343	CBU_1054 "recA protein" [Coxie	0.731	0.562	0.461	5.3e-40
TIGR_CMR|NSE_0530	327	NSE_0530 "recA protein" [Neori	0.727	0.587	0.451	5.3e-40
TIGR_CMR|GSU_0145	338	GSU_0145 "recA protein" [Geoba	0.734	0.573	0.427	6.8e-40
DICTYBASE|DDB_G0276073	452	recA "recombinase A" [Dictyost	0.829	0.484	0.392	8.7e-40

TAIR|locus:2100038 RECA3 "RECA homolog 3" [Arabidopsis thaliana (taxid:3702)]

 Score = 727 (261.0 bits), Expect = 6.7e-72, P = 6.7e-72
 Identities = 143/231 (61%), Positives = 173/231 (74%)

Query:    28 NGRRDAITCIGMNIHSLSSAAEVPEFD-DEPHDDAKIMQKDNALRLALSQLANDFGKESM 86
             NGRR  + C G     LSS  E  + + DE  DD K+ +KD AL LALSQL+ DF K+S 
Sbjct:    23 NGRRSVLACSGYENRYLSSLVEASDCELDEVPDDRKVAEKDTALHLALSQLSGDFDKDSK 82

Query:    87 LSLKRFFGSRRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQK 146
             LSL+RF+  RR  VISTGSL LDLALG+GGLPKGR+VE+YG+EASGKTTLALH+IKEAQK
Sbjct:    83 LSLQRFYRKRRVSVISTGSLNLDLALGVGGLPKGRMVEVYGKEASGKTTLALHIIKEAQK 142

Query:   147 LGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTKSGXXXXXXXXX 206
             LGGYCAYLD ENA+DPSLAE++G++ E LLI++P SAE +L++VD LTKSG         
Sbjct:   143 LGGYCAYLDAENAMDPSLAESIGVNTEELLISRPSSAEKMLNIVDVLTKSGSVDVIVVDS 202

Query:   207 XXXLIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVK 257
                L P+CE+  P+   Y D QSRIMTQALRKIHYS+  S TLI+FLNQV+
Sbjct:   203 VAALAPQCELDAPVGERYRDTQSRIMTQALRKIHYSVGYSQTLIVFLNQVR 253

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003677 "DNA binding" evidence=IEA;ISS

GO:0003697 "single-stranded DNA binding" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0005739 "mitochondrion" evidence=ISM

GO:0006259 "DNA metabolic process" evidence=IEA

GO:0006281 "DNA repair" evidence=IEA;ISS

GO:0006310 "DNA recombination" evidence=ISS

GO:0008094 "DNA-dependent ATPase activity" evidence=IEA;ISS

GO:0009432 "SOS response" evidence=IEA;ISS

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

GO:0000002 "mitochondrial genome maintenance" evidence=IGI

GO:0009408 "response to heat" evidence=IGI

TAIR|locus:2050439 RECA2 "A. thaliana recA homolog 2" [Arabidopsis thaliana (taxid:3702)]

 Score = 514 (186.0 bits), Expect = 2.5e-49, P = 2.5e-49
 Identities = 106/213 (49%), Positives = 144/213 (67%)

Query:    45 SSAAEVPEFDDEPHDDAKIMQKDNALRLALSQLANDFGKESMLSLKRFFGSRRGPVISTG 104
             + A +  + D     +  + +K+ AL+ AL Q+ + FGK S++ L R    R  PV STG
Sbjct:    37 AKAKKKSKSDGNGSSEEGMSKKEIALQQALDQITSSFGKGSIMYLGRAVSPRNVPVFSTG 96

Query:   105 SLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSL 164
             S  LD+ALG+GGLPKGR+VEIYG EASGKTTLALHVI EAQK GG C ++D E+ALD SL
Sbjct:    97 SFALDVALGVGGLPKGRVVEIYGPEASGKTTLALHVIAEAQKQGGTCVFVDAEHALDSSL 156

Query:   165 AEAMGIDAENLLIAQPDSAENLLSVVDTLTKSGXXXXXXXXXXXXLIPKCEIGVPINGMY 224
             A+A+G++ ENLL++QPD  E  LS+VDTL +SG            L+PK E+   +   +
Sbjct:   157 AKAIGVNTENLLLSQPDCGEQALSLVDTLIRSGSVDVIVVDSVAALVPKGELEGEMGDAH 216

Query:   225 SDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVK 257
                Q+R+M+QALRK+ +SL  S TL+IF+NQV+
Sbjct:   217 MAMQARLMSQALRKLSHSLSLSQTLLIFINQVR 249

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003677 "DNA binding" evidence=IEA;ISS

GO:0003697 "single-stranded DNA binding" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0005739 "mitochondrion" evidence=ISM

GO:0006259 "DNA metabolic process" evidence=IEA

GO:0006281 "DNA repair" evidence=IEA;ISS

GO:0006310 "DNA recombination" evidence=ISS

GO:0008094 "DNA-dependent ATPase activity" evidence=IEA;ISS

GO:0009432 "SOS response" evidence=IEA;ISS

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

TIGR_CMR|CHY_1166 CHY_1166 "recA protein" [Carboxydothermus hydrogenoformans Z-2901 (taxid:246194)]

 Score = 457 (165.9 bits), Expect = 2.8e-43, P = 2.8e-43
 Identities = 89/192 (46%), Positives = 131/192 (68%)

Query:    66 KDNALRLALSQLANDFGKESMLSLKRFFGSRRGPVISTGSLKLDLALGIGGLPKGRIVEI 125
             K  AL L +SQ+   FGK S++ L    G  +  VI TGSL LDLALG+GG+P+GR+VEI
Sbjct:     4 KLKALELTISQIEKQFGKGSIMRLGENTGKFQVEVIPTGSLALDLALGVGGVPRGRVVEI 63

Query:   126 YGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAEN 185
             +G E+SGKTT+ALH+I EAQK+GG  A++D E+ALDP  A+ +G+D ENLL++QPD+ E 
Sbjct:    64 FGPESSGKTTVALHIIAEAQKMGGIAAFIDAEHALDPVYAQKLGVDIENLLVSQPDTGEQ 123

Query:   186 LLSVVDTLTKSGXXXXXXXXXXXXLIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQ 245
              L + ++L +SG            L+P+ EI   +   +   Q+R+M+QALRK+  ++ +
Sbjct:   124 ALEIAESLVRSGAIDVIVIDSVAALVPRAEIEGEMGDAHVGLQARLMSQALRKLTGAISK 183

Query:   246 SHTLIIFLNQVK 257
             S T+ IF+NQ++
Sbjct:   184 SKTVAIFINQMR 195

GO:0006310 "DNA recombination" evidence=ISS

GO:0008094 "DNA-dependent ATPase activity" evidence=ISS

GO:0009432 "SOS response" evidence=ISS

TIGR_CMR|SO_3430 SO_3430 "recA protein" [Shewanella oneidensis MR-1 (taxid:211586)]

 Score = 434 (157.8 bits), Expect = 7.5e-41, P = 7.5e-41
 Identities = 93/193 (48%), Positives = 124/193 (64%)

Query:    66 KDNALRLALSQLANDFGKESMLSLKRFFGSRRGPVISTGSLKLDLALGIGGLPKGRIVEI 125
             K+ AL   LSQ+   FGK S++ L     S     ISTGSL LD+ALG GGLP GRIVEI
Sbjct:     7 KEKALAAVLSQIEKQFGKGSIMKLGED-RSMDVETISTGSLSLDVALGAGGLPMGRIVEI 65

Query:   126 YGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAEN 185
             YG E+SGKTTL L VI  AQ+ G  CA++D E+ALDP  A+ +G+D +NLL +QPD+ E 
Sbjct:    66 YGPESSGKTTLTLEVIAAAQREGKTCAFIDAEHALDPIYAKKLGVDIDNLLCSQPDTGEQ 125

Query:   186 LLSVVDTLTKSGXXXXXXXXXXXXLIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQ 245
              L + D LT+SG            L PK EI   I   +    +R+M+QA+RK+  +L Q
Sbjct:   126 ALEICDALTRSGAVDVIIVDSVAALTPKAEIEGEIGDSHMGLAARMMSQAMRKLAGNLKQ 185

Query:   246 SHTLIIFLNQVKV 258
             S+TL+IF+NQ+++
Sbjct:   186 SNTLLIFINQIRM 198

GO:0006310 "DNA recombination" evidence=ISS

GO:0008094 "DNA-dependent ATPase activity" evidence=ISS

GO:0009432 "SOS response" evidence=ISS

TIGR_CMR|SPO_2034 SPO_2034 "recA protein" [Ruegeria pomeroyi DSS-3 (taxid:246200)]

 Score = 430 (156.4 bits), Expect = 2.0e-40, P = 2.0e-40
 Identities = 89/193 (46%), Positives = 121/193 (62%)

Query:    66 KDNALRLALSQLANDFGKESMLSLKRFFGSRRGPVISTGSLKLDLALGIGGLPKGRIVEI 125
             K  AL  AL+Q+   FGK S++ L      +     STGSL LD+ALGIGGLP GRIVEI
Sbjct:     9 KQKALDSALAQIERQFGKGSIMRLGGENAIQEIEASSTGSLGLDIALGIGGLPMGRIVEI 68

Query:   126 YGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAEN 185
             YG E+SGKTTL LH I E QK GG CA++D E+ALDP  A  +G+D + LLI+QPD+ E 
Sbjct:    69 YGPESSGKTTLTLHCIAEQQKRGGVCAFVDAEHALDPQYARKLGVDLDELLISQPDTGEQ 128

Query:   186 LLSVVDTLTKSGXXXXXXXXXXXXLIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQ 245
              L + DTL +SG            L PK E+   +        +R+M+QA+RK+  S+ +
Sbjct:   129 ALEITDTLVRSGAVNMVVVDSVAALTPKSELEGDMGDSSVGVHARLMSQAMRKLTGSISR 188

Query:   246 SHTLIIFLNQVKV 258
             S  ++IF+NQ+++
Sbjct:   189 SKCMVIFINQIRM 201

GO:0003677 "DNA binding" evidence=ISS

GO:0006281 "DNA repair" evidence=ISS

GO:0006310 "DNA recombination" evidence=ISS

GO:0008094 "DNA-dependent ATPase activity" evidence=ISS

GO:0009432 "SOS response" evidence=ISS

UNIPROTKB|P0A7G6 recA [Escherichia coli K-12 (taxid:83333)]

 Score = 426 (155.0 bits), Expect = 5.3e-40, P = 5.3e-40
 Identities = 92/193 (47%), Positives = 121/193 (62%)

Query:    66 KDNALRLALSQLANDFGKESMLSLKRFFGSRRGPVISTGSLKLDLALGIGGLPKGRIVEI 125
             K  AL  AL Q+   FGK S++ L     S     ISTGSL LD+ALG GGLP GRIVEI
Sbjct:     7 KQKALAAALGQIEKQFGKGSIMRLGED-RSMDVETISTGSLSLDIALGAGGLPMGRIVEI 65

Query:   126 YGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAEN 185
             YG E+SGKTTL L VI  AQ+ G  CA++D E+ALDP  A  +G+D +NLL +QPD+ E 
Sbjct:    66 YGPESSGKTTLTLQVIAAAQREGKTCAFIDAEHALDPIYARKLGVDIDNLLCSQPDTGEQ 125

Query:   186 LLSVVDTLTKSGXXXXXXXXXXXXLIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQ 245
              L + D L +SG            L PK EI   I   +    +R+M+QA+RK+  +L Q
Sbjct:   126 ALEICDALARSGAVDVIVVDSVAALTPKAEIEGEIGDSHMGLAARMMSQAMRKLAGNLKQ 185

Query:   246 SHTLIIFLNQVKV 258
             S+TL+IF+NQ+++
Sbjct:   186 SNTLLIFINQIRM 198

GO:0003697 "single-stranded DNA binding" evidence=IEA;IDA

GO:0048870 "cell motility" evidence=IMP

GO:0006974 "response to DNA damage stimulus" evidence=IEA;IEP

GO:0009432 "SOS response" evidence=IEA;IMP

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

GO:0008094 "DNA-dependent ATPase activity" evidence=IEA

GO:0006259 "DNA metabolic process" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

GO:0006281 "DNA repair" evidence=IEA

GO:0006310 "DNA recombination" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

TIGR_CMR|CBU_1054 CBU_1054 "recA protein" [Coxiella burnetii RSA 493 (taxid:227377)]

 Score = 426 (155.0 bits), Expect = 5.3e-40, P = 5.3e-40
 Identities = 89/193 (46%), Positives = 125/193 (64%)

Query:    66 KDNALRLALSQLANDFGKESMLSLKRFFGSRRGPVISTGSLKLDLALGIGGLPKGRIVEI 125
             + NAL  ALSQ+   FGK S++ L          VISTGSL LD+ALG+GGLP+GRI+EI
Sbjct:     4 RSNALNAALSQIERQFGKGSVMRLGDPGLIPDIDVISTGSLGLDIALGVGGLPRGRIIEI 63

Query:   126 YGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAEN 185
             YG EASGKTTLAL  I   Q++GG  A++D E+ALD   A  +G+  E+LL++QPD+ E 
Sbjct:    64 YGPEASGKTTLALQTIASCQRMGGTAAFVDAEHALDAIYAGKLGVKVEDLLVSQPDTGEQ 123

Query:   186 LLSVVDTLTKSGXXXXXXXXXXXXLIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQ 245
              L + D L +SG            L PK EI   +   +   Q+R+M+QALRK+  ++ +
Sbjct:   124 ALEITDMLVRSGAVDLIVIDSVAALTPKAEIEGDMGDSHMGLQARLMSQALRKLTANIKK 183

Query:   246 SHTLIIFLNQVKV 258
             S+TL+IF+NQ+++
Sbjct:   184 SNTLVIFINQIRM 196

GO:0006310 "DNA recombination" evidence=ISS

GO:0008094 "DNA-dependent ATPase activity" evidence=ISS

GO:0009432 "SOS response" evidence=ISS

TIGR_CMR|NSE_0530 NSE_0530 "recA protein" [Neorickettsia sennetsu str. Miyayama (taxid:222891)]

 Score = 426 (155.0 bits), Expect = 5.3e-40, P = 5.3e-40
 Identities = 88/195 (45%), Positives = 130/195 (66%)

Query:    64 MQKDNALRLALSQLANDFGKESMLSLKRFFGSRRGPVISTGSLKLDLALGIGGLPKGRIV 123
             M +++AL+  + Q+   FGK S+++  +   S     ISTGS+ LD ALG GG+PKGRI+
Sbjct:     1 MNREDALKGVVVQIEKMFGKGSIMTFSQEPASVE--CISTGSIGLDSALG-GGIPKGRII 57

Query:   124 EIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSA 183
             EI+G E+SGKTTL LH+I EAQK GG CA++D E+ALDP  A  +G+  E LLI+QPD+ 
Sbjct:    58 EIFGPESSGKTTLTLHIIAEAQKNGGTCAFIDAEHALDPVYARRLGVKIEELLISQPDTG 117

Query:   184 ENLLSVVDTLTKSGXXXXXXXXXXXXLIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSL 243
             E  L +VD+L KSG            L PK EI   +  ++   Q+R+++QALRKI  S+
Sbjct:   118 EQALEIVDSLIKSGAVDVIVVDSVAALTPKAEIEGEMGDLHVGLQARLLSQALRKITASV 177

Query:   244 CQSHTLIIFLNQVKV 258
              +S+ +++F+NQ+++
Sbjct:   178 SRSNCVVVFINQIRM 192

GO:0003677 "DNA binding" evidence=ISS

GO:0006281 "DNA repair" evidence=ISS

GO:0006310 "DNA recombination" evidence=ISS

GO:0008094 "DNA-dependent ATPase activity" evidence=ISS

GO:0009432 "SOS response" evidence=ISS

TIGR_CMR|GSU_0145 GSU_0145 "recA protein" [Geobacter sulfurreducens PCA (taxid:243231)]

 Score = 425 (154.7 bits), Expect = 6.8e-40, P = 6.8e-40
 Identities = 83/194 (42%), Positives = 126/194 (64%)

Query:    65 QKDNALRLALSQLANDFGKESMLSLKRFFGSRRGPVISTGSLKLDLALGIGGLPKGRIVE 124
             +++ A+ LALSQ+   FGK +++ L           I TGSL LDLALG+GG+P+GRI+E
Sbjct:     4 EREKAIELALSQIEKQFGKGAIMRLGADEALPDVAAIPTGSLSLDLALGVGGVPRGRIIE 63

Query:   125 IYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAE 184
             IYG E+SGKTTLALH+  EAQK+GG  A++D E+ALD   A  +G+  ++LL++QPD+ E
Sbjct:    64 IYGPESSGKTTLALHIAAEAQKMGGIAAFVDAEHALDIGYARKLGVKTDDLLVSQPDTGE 123

Query:   185 NLLSVVDTLTKSGXXXXXXXXXXXXLIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLC 244
               L + + L +SG            L+PK EI   +   +   Q+R+M+QALRK+   + 
Sbjct:   124 QALEIAEMLVRSGAVDVLVIDSVAALVPKAEIEGEMGDSHMGLQARLMSQALRKLTGIIS 183

Query:   245 QSHTLIIFLNQVKV 258
             +S+  +IF+NQ+++
Sbjct:   184 KSNCCVIFINQIRM 197

GO:0006310 "DNA recombination" evidence=ISS

GO:0008094 "DNA-dependent ATPase activity" evidence=ISS

GO:0009432 "SOS response" evidence=ISS

DICTYBASE|DDB_G0276073 recA "recombinase A" [Dictyostelium discoideum (taxid:44689)]

 Score = 424 (154.3 bits), Expect = 8.7e-40, P = 8.7e-40
 Identities = 89/227 (39%), Positives = 140/227 (61%)

Query:    40 NIHSLSSAAEVPEFDDEPHDDAKI----MQKDNA----LRLALSQLANDFGKESMLSLKR 91
             N +S SS +      DE  +D +I      K +A    +   L +L   FGK +++ L  
Sbjct:    52 NNYSKSSKSGKKSKKDEDDEDGEIETSKTSKKSASSSSMENVLKELEKSFGKGTLMKLGS 111

Query:    92 FFGSRRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYC 151
              F +++  VI +GS+ LD+ALG+GGLPKGR+ EI+G E+SGKTTLALHVI +AQK GG C
Sbjct:   112 QFSTQKVEVIPSGSMGLDIALGVGGLPKGRVTEIFGPESSGKTTLALHVIAQAQKAGGNC 171

Query:   152 AYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTKSGXXXXXXXXXXXXLI 211
              ++D E+AL+P  A  +G++ + L ++QPD+ E  L +VD+L +S             L+
Sbjct:   172 TFIDAEHALNPQWAARLGVNLDELFVSQPDNGEQALEIVDSLLRSKTMSVIVVDSVAALV 231

Query:   212 PKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVKV 258
             P+ EI   +   +   Q+R+M+QALRK+  +L  S+ ++IF+NQ+++
Sbjct:   232 PRVEIEGEMGDSHLGVQARLMSQALRKLSPTLKDSNCVLIFINQIRM 278

GO:0006281 "DNA repair" evidence=IEA;IGI

GO:0005739 "mitochondrion" evidence=IEA;IDA

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

GO:0009432 "SOS response" evidence=IEA

GO:0008094 "DNA-dependent ATPase activity" evidence=IEA

GO:0006259 "DNA metabolic process" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0003697 "single-stranded DNA binding" evidence=IEA

GO:0003677 "DNA binding" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

GO:0006974 "response to DNA damage stimulus" evidence=IEA

GO:0006310 "DNA recombination" evidence=IEA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q8RY99	RECAM_ARATH	No assigned EC number	0.6414	0.9431	0.6401	yes	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input: gw1.XVI.1854.1 hypothetical protein (323 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	264
cd00983	325	cd00983, recA, RecA is a bacterial enzyme which ha	1e-96
PRK09354	349	PRK09354, recA, recombinase A; Provisional	2e-88
pfam00154	322	pfam00154, RecA, recA bacterial DNA recombination	4e-82
TIGR02012	321	TIGR02012, tigrfam_recA, protein RecA	3e-80
PRK09519	790	PRK09519, recA, DNA recombination protein RecA; Re	4e-55
COG0468	279	COG0468, RecA, RecA/RadA recombinase [DNA replicat	2e-53
cd01393	226	cd01393, recA_like, RecA is a bacterial enzyme whi	4e-52
cd01123	235	cd01123, Rad51_DMC1_radA, Rad51_DMC1_radA,B	1e-15
cd01394	218	cd01394, radB, RadB	2e-10
PRK09361	225	PRK09361, radB, DNA repair and recombination prote	2e-09
PRK04301	317	PRK04301, radA, DNA repair and recombination prote	2e-09
COG0467	260	COG0467, RAD55, RecA-superfamily ATPases implicate	5e-09
PLN03187	344	PLN03187, PLN03187, meiotic recombination protein	9e-09
TIGR02237	209	TIGR02237, recomb_radB, DNA repair and recombinati	1e-08
pfam08423	261	pfam08423, Rad51, Rad51	6e-08
TIGR02238	313	TIGR02238, recomb_DMC1, meiotic recombinase Dmc1	8e-08
PTZ00035	337	PTZ00035, PTZ00035, Rad51 protein; Provisional	2e-07
TIGR02236	310	TIGR02236, recomb_radA, DNA repair and recombinati	6e-07
cd01120	165	cd01120, RecA-like_NTPases, RecA-like NTPases	9e-07
cd01121	372	cd01121, Sms, Sms (bacterial radA) DNA repair prot	1e-06
TIGR03880	224	TIGR03880, KaiC_arch_3, KaiC domain protein, AF_03	1e-06
TIGR02239	316	TIGR02239, recomb_RAD51, DNA repair protein RAD51	2e-06
pfam06745	231	pfam06745, KaiC, KaiC	2e-06
PLN03186	342	PLN03186, PLN03186, DNA repair protein RAD51 homol	5e-06
PRK06067	234	PRK06067, PRK06067, flagellar accessory protein Fl	2e-05
pfam13481	154	pfam13481, AAA_25, AAA domain	3e-05
PRK09302	509	PRK09302, PRK09302, circadian clock protein KaiC;	7e-05
COG1066	456	COG1066, Sms, Predicted ATP-dependent serine prote	8e-05
TIGR03881	229	TIGR03881, KaiC_arch_4, KaiC domain protein, PAE11	1e-04
smart00382	148	smart00382, AAA, ATPases associated with a variety	2e-04
PRK11823	446	PRK11823, PRK11823, DNA repair protein RadA; Provi	4e-04
COG2874	235	COG2874, FlaH, Predicted ATPases involved in bioge	5e-04
pfam01637	223	pfam01637, Arch_ATPase, Archaeal ATPase	0.002
COG4544	260	COG4544, COG4544, Uncharacterized conserved protei	0.002

>gnl|CDD|238483 cd00983, recA, RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response

 Score =  286 bits (733), Expect = 1e-96
 Identities = 105/193 (54%), Positives = 142/193 (73%), Gaps = 1/193 (0%)

Query: 65  QKDNALRLALSQLANDFGKESMLSLKRFFGSRRGPVISTGSLKLDLALGIGGLPKGRIVE 124
           +K  AL LAL Q+   FGK S++ L      +   VI TGSL LD+ALGIGG PKGRI+E
Sbjct: 1   EKQKALELALKQIEKKFGKGSIMKLGDD-AVQDVEVIPTGSLSLDIALGIGGYPKGRIIE 59

Query: 125 IYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAE 184
           IYG E+SGKTTLALH I EAQKLGG  A++D E+ALDP  A+ +G+D +NLLI+QPD+ E
Sbjct: 60  IYGPESSGKTTLALHAIAEAQKLGGTVAFIDAEHALDPVYAKKLGVDLDNLLISQPDTGE 119

Query: 185 NLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLC 244
             L + D+L +SG++D+IVVDSVAAL+PK EI   +   +   Q+R+M+QALRK+  S+ 
Sbjct: 120 QALEIADSLVRSGAVDLIVVDSVAALVPKAEIEGEMGDSHVGLQARLMSQALRKLTGSIN 179

Query: 245 QSHTLIIFLNQVK 257
           +S+T +IF+NQ++
Sbjct: 180 KSNTTVIFINQLR 192

RecA couples ATP hydrolysis to DNA strand exchange. Length = 325

>gnl|CDD|236476 PRK09354, recA, recombinase A; Provisional

 Score =  265 bits (681), Expect = 2e-88
 Identities = 107/199 (53%), Positives = 142/199 (71%), Gaps = 15/199 (7%)

Query: 65  QKDNALRLALSQLANDFGKESMLSLKRFFGSRRG---PVISTGSLKLDLALGIGGLPKGR 121
           +K  AL  AL Q+   FGK S++ L    G        VISTGSL LD+ALGIGGLP+GR
Sbjct: 6   EKQKALEAALKQIEKQFGKGSIMRL----GDDAAMDVEVISTGSLALDIALGIGGLPRGR 61

Query: 122 IVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPD 181
           IVEIYG E+SGKTTLALH I EAQK GG  A++D E+ALDP  A+ +G+D +NLL++QPD
Sbjct: 62  IVEIYGPESSGKTTLALHAIAEAQKAGGTAAFIDAEHALDPVYAKKLGVDIDNLLVSQPD 121

Query: 182 SAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDA----QSRIMTQALR 237
           + E  L + DTL +SG++D+IVVDSVAAL+PK E    I G   D+    Q+R+M+QALR
Sbjct: 122 TGEQALEIADTLVRSGAVDLIVVDSVAALVPKAE----IEGEMGDSHVGLQARLMSQALR 177

Query: 238 KIHYSLCQSHTLIIFLNQV 256
           K+  ++ +S+T +IF+NQ+
Sbjct: 178 KLTGNISKSNTTVIFINQI 196

Length = 349

>gnl|CDD|215755 pfam00154, RecA, recA bacterial DNA recombination protein

 Score =  249 bits (637), Expect = 4e-82
 Identities = 106/196 (54%), Positives = 142/196 (72%), Gaps = 15/196 (7%)

Query: 69  ALRLALSQLANDFGKESMLSLKRFFGSRRGP---VISTGSLKLDLALGIGGLPKGRIVEI 125
           AL  ALSQ+   FGK S++ L    G +      VISTGSL LD+ALGIGGLPKGRI+EI
Sbjct: 2   ALEAALSQIEKQFGKGSIMRL----GDKTVEDVEVISTGSLGLDIALGIGGLPKGRIIEI 57

Query: 126 YGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAEN 185
           YG E+SGKTTLALH I EAQK GG  A++D E+ALDP  A+ +G+D +NLL++QPD+ E 
Sbjct: 58  YGPESSGKTTLALHAIAEAQKAGGTAAFIDAEHALDPVYAKKLGVDIDNLLVSQPDTGEQ 117

Query: 186 LLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDA----QSRIMTQALRKIHY 241
            L + D L +SG++D+IVVDSVAAL+PK E    I G   D+    Q+R+M+QALRK+  
Sbjct: 118 ALEIADMLVRSGAVDLIVVDSVAALVPKAE----IEGEMGDSHVGLQARLMSQALRKLTG 173

Query: 242 SLCQSHTLIIFLNQVK 257
           ++ +S+T +IF+NQ++
Sbjct: 174 NISKSNTTVIFINQIR 189

RecA is a DNA-dependent ATPase and functions in DNA repair systems. RecA protein catalyzes an ATP-dependent DNA strand-exchange reaction that is the central step in the repair of dsDNA breaks by homologous recombination. Length = 322

>gnl|CDD|162659 TIGR02012, tigrfam_recA, protein RecA

 Score =  244 bits (624), Expect = 3e-80
 Identities = 104/196 (53%), Positives = 139/196 (70%), Gaps = 9/196 (4%)

Query: 66  KDNALRLALSQLANDFGKESMLSLKRFFGSRRGPVISTGSLKLDLALGIGGLPKGRIVEI 125
           K  AL  AL+Q+   FGK S++ L           ISTGSL LDLALG+GGLP+GRI+EI
Sbjct: 2   KQKALEAALAQIEKQFGKGSIMRLGEK-SVMDVETISTGSLSLDLALGVGGLPRGRIIEI 60

Query: 126 YGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAEN 185
           YG E+SGKTTLALH I EAQK GG  A++D E+ALDP  A  +G+D +NLL++QPD+ E 
Sbjct: 61  YGPESSGKTTLALHAIAEAQKAGGTAAFIDAEHALDPVYARKLGVDIDNLLVSQPDTGEQ 120

Query: 186 LLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDA----QSRIMTQALRKIHY 241
            L + +TL +SG++D+IVVDSVAAL+PK E    I G   D+    Q+R+M+QALRK+  
Sbjct: 121 ALEIAETLVRSGAVDIIVVDSVAALVPKAE----IEGEMGDSHVGLQARLMSQALRKLTG 176

Query: 242 SLCQSHTLIIFLNQVK 257
           +L +S+T  IF+NQ++
Sbjct: 177 ALSKSNTTAIFINQIR 192

This model describes orthologs of the recA protein. RecA promotes hybridization of homolgous regions of DNA. A segment of ssDNA can be hybridized to another ssDNA region, or to a dsDNA region. ATP is hydrolyzed in the process. Part of the SOS respones, it is regulated by LexA via autocatalytic cleavage [DNA metabolism, DNA replication, recombination, and repair]. Length = 321

>gnl|CDD|77219 PRK09519, recA, DNA recombination protein RecA; Reviewed

 Score =  189 bits (480), Expect = 4e-55
 Identities = 91/194 (46%), Positives = 138/194 (71%), Gaps = 5/194 (2%)

Query: 66  KDNALRLALSQLANDFGKESMLSLKRFFGSRRGP--VISTGSLKLDLALGIGGLPKGRIV 123
           ++ AL LA++Q+   +GK S++   R     R P  VI TGS+ LD+ALGIGGLP+GR++
Sbjct: 7   REKALELAVAQIEKSYGKGSVM---RLGDEARQPISVIPTGSIALDVALGIGGLPRGRVI 63

Query: 124 EIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSA 183
           EIYG E+SGKTT+ALH +  AQ  GG  A++D E+ALDP  A+ +G+D ++LL++QPD+ 
Sbjct: 64  EIYGPESSGKTTVALHAVANAQAAGGVAAFIDAEHALDPDYAKKLGVDTDSLLVSQPDTG 123

Query: 184 ENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSL 243
           E  L + D L +SG++D++V+DSVAAL+P+ E+   +   +   Q+R+M+QALRK+  +L
Sbjct: 124 EQALEIADMLIRSGALDIVVIDSVAALVPRAELEGEMGDSHVGLQARLMSQALRKMTGAL 183

Query: 244 CQSHTLIIFLNQVK 257
             S T  IF+NQ++
Sbjct: 184 NNSGTTAIFINQLR 197

Length = 790

>gnl|CDD|223544 COG0468, RecA, RecA/RadA recombinase [DNA replication, recombination, and repair]

 Score =  174 bits (443), Expect = 2e-53
 Identities = 92/200 (46%), Positives = 133/200 (66%), Gaps = 8/200 (4%)

Query: 60  DAKIMQKDNALRLALSQLANDFGKESMLSLKRFFGSRRGPVISTGSLKLDLALGIGGLPK 119
            A+ + ++ AL  AL+Q+   FGK S+++L           ISTGSL LD ALG GGLP+
Sbjct: 1   MAQGIDEEKALEAALAQIEKAFGKGSIMALGGDERREDIEAISTGSLALDEALG-GGLPR 59

Query: 120 GRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGID-AENLLIA 178
           GRI EIYG E+SGKTTLAL ++  AQK GG  A++D E+ALDP  A+ +G+D  +NLL++
Sbjct: 60  GRITEIYGPESSGKTTLALQLVANAQKPGGKAAFIDTEHALDPERAKQLGVDLLDNLLVS 119

Query: 179 QPDSAENLLSVVDTLTKSGS--IDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQAL 236
           QPD+ E  L + + L +SG+  ID++VVDSVAAL+   EI     G+    ++R++++AL
Sbjct: 120 QPDTGEQQLEIAEKLARSGAEKIDLLVVDSVAALVRAEEIEDGHLGL----RARLLSKAL 175

Query: 237 RKIHYSLCQSHTLIIFLNQV 256
           RK+     + +T +IF NQV
Sbjct: 176 RKLTRLANKYNTAVIFTNQV 195

Length = 279

>gnl|CDD|238687 cd01393, recA_like, RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response

 Score =  169 bits (430), Expect = 4e-52
 Identities = 65/173 (37%), Positives = 92/173 (53%), Gaps = 22/173 (12%)

Query: 101 ISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQK------LGGYCAYL 154
           ISTGS  LD  LG GG+P GRI EI+G   SGKT L L +  EAQ       L G   Y+
Sbjct: 1   ISTGSKALDELLG-GGIPTGRITEIFGEFGSGKTQLCLQLAVEAQLPGELGGLEGKVVYI 59

Query: 155 DVENALDPSLAEAMGID--------AENLLIAQPDSAENLLSVVDTLTK---SGSIDVIV 203
           D E A  P     + +          +N+ +A+P + E  L +V+ L +   SG +D++V
Sbjct: 60  DTEGAFRPERLVQLAVRFGLDPEEVLDNIYVARPYNGEQQLEIVEELERIMSSGRVDLVV 119

Query: 204 VDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQV 256
           VDSVAAL  K  IG          ++R+++QALRK+     + +  ++F NQV
Sbjct: 120 VDSVAALFRKEFIG----RGMLAERARLLSQALRKLLRLADKFNVAVVFTNQV 168

RecA couples ATP hydrolysis to DNA strand exchange. While prokaryotes have a single RecA protein, eukaryotes have multiple RecA homologs such as Rad51, DMC1 and Rad55/57. Archaea have the RecA-like homologs radA and radB. Length = 226

>gnl|CDD|238543 cd01123, Rad51_DMC1_radA, Rad51_DMC1_radA,B

 Score = 73.8 bits (182), Expect = 1e-15
 Identities = 44/128 (34%), Positives = 67/128 (52%), Gaps = 19/128 (14%)

Query: 101 ISTGSLKLDLALGIGGLPKGRIVEIYGREASGKT----TLALHVIKEAQK--LGGYCAYL 154
           ++TGS  LD  LG GG+  G I EI+G   SGKT     LA+ V    +   L G   Y+
Sbjct: 1   LTTGSKALDELLG-GGIETGSITEIFGEFGSGKTQLCHQLAVTVQLPIELGGLEGKAVYI 59

Query: 155 DVENALDP----SLAEAMGIDAENLL----IAQPDSAENLLSVVD----TLTKSGSIDVI 202
           D E    P     +AE  G+D E +L    +A+  ++++ L +++     L +S  I ++
Sbjct: 60  DTEGTFRPERLVQIAERFGLDPEEVLDNIYVARAYNSDHQLQLLEELEAILIESSRIKLV 119

Query: 203 VVDSVAAL 210
           +VDSV AL
Sbjct: 120 IVDSVTAL 127

This group of recombinases includes the eukaryotic proteins RAD51, RAD55/57 and the meiosis-specific protein DMC1, and the archaeal proteins radA and radB. They are closely related to the bacterial RecA group. Rad51 proteins catalyze a similiar recombination reaction as RecA, using ATP-dependent DNA binding activity and a DNA-dependent ATPase. However, this reaction is less efficient and requires accessory proteins such as RAD55/57 . Length = 235

>gnl|CDD|238688 cd01394, radB, RadB

 Score = 58.6 bits (142), Expect = 2e-10
 Identities = 35/116 (30%), Positives = 59/116 (50%), Gaps = 7/116 (6%)

Query: 101 ISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENAL 160
           + TG   LD  LG GG+ +G + ++YG   +GKT +A+ +  E    G   AY+D E   
Sbjct: 1   LPTGCKGLDELLG-GGVERGTVTQVYGPPGTGKTNIAIQLAVETAGQGKKVAYIDTEGLS 59

Query: 161 DPSLAEAMGIDAE----NLLIAQP-DSAENLLSVVDTLTKSGS-IDVIVVDSVAAL 210
                +  G   E    ++++ +P D  E   ++ +T T +   +D++VVDS  AL
Sbjct: 60  SERFRQIAGDRPERAASSIIVFEPMDFNEQGRAIQETETFADEKVDLVVVDSATAL 115

The archaeal protein radB shares similarity radA, the archaeal functional homologue to the bacterial RecA. The precise function of radB is unclear. Length = 218

>gnl|CDD|236482 PRK09361, radB, DNA repair and recombination protein RadB; Provisional

 Score = 56.0 bits (136), Expect = 2e-09
 Identities = 39/117 (33%), Positives = 55/117 (47%), Gaps = 9/117 (7%)

Query: 101 ISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENAL 160
           + TG   LD  LG GG  +G I +IYG   SGKT + L +  EA K G    Y+D E  L
Sbjct: 5   LPTGCKMLDELLG-GGFERGTITQIYGPPGSGKTNICLQLAVEAAKNGKKVIYIDTE-GL 62

Query: 161 DP----SLAEA-MGIDAENLLIAQPDSAENLLSVVDTLTK--SGSIDVIVVDSVAAL 210
            P     +A         N++I +P S E     +    K    ++ +IV+DS  +L
Sbjct: 63  SPERFKQIAGEDFEELLSNIIIFEPSSFEEQSEAIRKAEKLAKENVGLIVLDSATSL 119

Length = 225

>gnl|CDD|235273 PRK04301, radA, DNA repair and recombination protein RadA; Validated

 Score = 56.8 bits (138), Expect = 2e-09
 Identities = 56/186 (30%), Positives = 90/186 (48%), Gaps = 37/186 (19%)

Query: 44  LSSAAEVPEFDDEPHDDAKIMQKDNALRLALSQLANDFGKESMLSLKRFFGSRRGPV--I 101
           LS AA + E        AKI++       A  + A+  G E+ L +      RR  V  I
Sbjct: 41  LSEAAGIGE-----STAAKIIE-------AAREAADIGGFETALEVLE----RRKNVGKI 84

Query: 102 STGSLKLDLALGIGGLPKGRIVEIYGREASGKT----TLALHV--IKEAQKLGGYCAYLD 155
           +TGS +LD  LG GG+    I E YG   SGKT     LA++V   +E   L G   Y+D
Sbjct: 85  TTGSKELDELLG-GGIETQSITEFYGEFGSGKTQICHQLAVNVQLPEEKGGLEGKAVYID 143

Query: 156 VENALDP----SLAEAMGIDAE----NLLIAQPDSAENLLSVVDTLT----KSGSIDVIV 203
            E    P     +AEA+G+D +    N+ +A+  ++++ + + +       +  +I +++
Sbjct: 144 TEGTFRPERIEQMAEALGLDPDEVLDNIHVARAYNSDHQMLLAEKAEELIKEGENIKLVI 203

Query: 204 VDSVAA 209
           VDS+ A
Sbjct: 204 VDSLTA 209

Length = 317

>gnl|CDD|223543 COG0467, RAD55, RecA-superfamily ATPases implicated in signal transduction [Signal transduction mechanisms]

 Score = 55.2 bits (133), Expect = 5e-09
 Identities = 38/134 (28%), Positives = 52/134 (38%), Gaps = 24/134 (17%)

Query: 101 ISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVE--- 157
           I TG   LD  LG GGLP+G +V I G   +GKT  AL  + E  + G    Y+  E   
Sbjct: 5   IPTGIPGLDEILG-GGLPRGSVVLITGPPGTGKTIFALQFLYEGAREGEPVLYVSTEESP 63

Query: 158 -----NALDPSLAEAMGIDAENLLIAQ---------------PDSAENLLSVVDTLTKSG 197
                NA        + I+   L I                 P   E LL  +  + +  
Sbjct: 64  EELLENARSFGWDLEVYIEKGKLAILDAFLSEKGLVSIVVGDPLDLEELLDRIREIVEKE 123

Query: 198 SIDVIVVDSVAALI 211
             D +V+DS+  L 
Sbjct: 124 GADRVVIDSITELT 137

Length = 260

>gnl|CDD|215620 PLN03187, PLN03187, meiotic recombination protein DMC1 homolog; Provisional

 Score = 54.8 bits (132), Expect = 9e-09
 Identities = 52/159 (32%), Positives = 73/159 (45%), Gaps = 25/159 (15%)

Query: 101 ISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKL----GGYC---AY 153
           I+TGS  LD  LG GG+    I E +G   SGKT LA H +    +L    GG     AY
Sbjct: 108 ITTGSQALDELLG-GGIETRCITEAFGEFRSGKTQLA-HTLCVTTQLPTEMGGGNGKVAY 165

Query: 154 LDVENALDPS----LAEAMGIDAE----NLLIAQPDSAE---NLLSVVDTLTKSGSIDVI 202
           +D E    P     +AE  G+DA+    N++ A+  + E   NLL  +          ++
Sbjct: 166 IDTEGTFRPDRIVPIAERFGMDADAVLDNIIYARAYTYEHQYNLLLGLAAKMAEEPFRLL 225

Query: 203 VVDSVAALIPKCEIGVPINGMYSDAQSRI--MTQALRKI 239
           +VDSV AL      G    G  ++ Q ++  M   L KI
Sbjct: 226 IVDSVIALFRVDFTG---RGELAERQQKLAQMLSRLTKI 261

Length = 344

>gnl|CDD|233793 TIGR02237, recomb_radB, DNA repair and recombination protein RadB

 Score = 53.6 bits (129), Expect = 1e-08
 Identities = 32/111 (28%), Positives = 48/111 (43%), Gaps = 10/111 (9%)

Query: 108 LDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP----S 163
           +D  LG GG+ +G I +IYG   SGKT + + +   A + G    Y+D E  L P     
Sbjct: 1   IDELLG-GGVERGTITQIYGPPGSGKTNICMILAVNAARQGKKVVYIDTE-GLSPERFKQ 58

Query: 164 LAEA-MGIDAENLLIAQP---DSAENLLSVVDTLTKSGSIDVIVVDSVAAL 210
           +AE        N ++ +    D     +          S  ++VVDS  AL
Sbjct: 59  IAEDRPERALSNFIVFEVFDFDEQGVAIQKTSKFIDRDSASLVVVDSFTAL 109

This family consists exclusively of archaeal RadB protein, a homolog of bacterial RecA (TIGR02012), eukaryotic RAD51 (TIGR02239) and DMC1 (TIGR02238), and archaeal RadA (TIGR02236). Length = 209

>gnl|CDD|117002 pfam08423, Rad51, Rad51

 Score = 51.9 bits (125), Expect = 6e-08
 Identities = 40/128 (31%), Positives = 58/128 (45%), Gaps = 20/128 (15%)

Query: 101 ISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVI-------KEAQKLGGYCAY 153
           I+TGS +LD  LG GG+  G I E++G   +GKT L  H +        E     G   Y
Sbjct: 25  ITTGSKELDKLLG-GGIETGSITEVFGEFRTGKTQLC-HTLCVTCQLPLEMGGGEGKALY 82

Query: 154 LDVENALDP----SLAEAMGIDAE----NLLIAQPDSAE---NLLSVVDTLTKSGSIDVI 202
           +D E    P    ++AE  G+D E    N+  A+  + E    LL     +       ++
Sbjct: 83  IDTEGTFRPERIVAIAERFGLDPEEVLDNIAYARAYNTEHQMQLLLQAAAMMSESRFALL 142

Query: 203 VVDSVAAL 210
           +VDS  AL
Sbjct: 143 IVDSATAL 150

Rad51 is a DNA repair and recombination protein and is a homologue of the bacterial ATPase RecA protein. Length = 261

>gnl|CDD|131292 TIGR02238, recomb_DMC1, meiotic recombinase Dmc1

 Score = 52.1 bits (125), Expect = 8e-08
 Identities = 40/129 (31%), Positives = 64/129 (49%), Gaps = 20/129 (15%)

Query: 100 VISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKL-------GGYCA 152
            I+TGS  LD  LG GG+    I E++G    GKT L+ H +    +L        G  A
Sbjct: 77  KITTGSQALDGILG-GGIESMSITEVFGEFRCGKTQLS-HTLCVTAQLPREMGGGNGKVA 134

Query: 153 YLDVENALDP----SLAEAMGIDA----ENLLIAQPDSAENLLSVVDTLTK---SGSIDV 201
           Y+D E    P    ++AE  G+D     +N+L A+  ++E+ + ++D L          +
Sbjct: 135 YIDTEGTFRPDRIRAIAERFGVDPDAVLDNILYARAYTSEHQMELLDYLAAKFSEEPFRL 194

Query: 202 IVVDSVAAL 210
           ++VDS+ AL
Sbjct: 195 LIVDSIMAL 203

This model describes DMC1, a subfamily of a larger family of DNA repair and recombination proteins. It is eukaryotic only and most closely related to eukaryotic RAD51. It also resembles archaeal RadA (TIGR02236) and RadB (TIGR02237) and bacterial RecA (TIGR02012). It has been characterized for human as a recombinase active only in meiosis. Length = 313

>gnl|CDD|185407 PTZ00035, PTZ00035, Rad51 protein; Provisional

 Score = 50.8 bits (122), Expect = 2e-07
 Identities = 41/127 (32%), Positives = 59/127 (46%), Gaps = 18/127 (14%)

Query: 101 ISTGSLKLDLALGIGGLPKGRIVEIYGREASGKT----TLAL--HVIKEAQKLGGYCAYL 154
           I+TGS +LD  LG GG+  G I E++G   +GKT    TL +   +  E     G   Y+
Sbjct: 100 ITTGSTQLDKLLG-GGIETGSITELFGEFRTGKTQLCHTLCVTCQLPIEQGGGEGKVLYI 158

Query: 155 DVENALDP----SLAEAMGIDAE----NLLIAQPDSAEN---LLSVVDTLTKSGSIDVIV 203
           D E    P     +AE  G+D E    N+  A+  + E+   LLS            +++
Sbjct: 159 DTEGTFRPERIVQIAERFGLDPEDVLDNIAYARAYNHEHQMQLLSQAAAKMAEERFALLI 218

Query: 204 VDSVAAL 210
           VDS  AL
Sbjct: 219 VDSATAL 225

Length = 337

>gnl|CDD|131290 TIGR02236, recomb_radA, DNA repair and recombination protein RadA

 Score = 49.4 bits (118), Expect = 6e-07
 Identities = 53/187 (28%), Positives = 88/187 (47%), Gaps = 38/187 (20%)

Query: 44  LSSAAEVPEFDDEPHDDAKIMQKDNALRLALSQLANDFGKESMLSLKRFFGSRRGPV--I 101
           LS  A + E        AKI+Q       A  + A+  G E+   +      RR  +  I
Sbjct: 34  LSEIAGISE-----GTAAKIIQ-------AARKAADLGGFETADDVLE----RRKTIGKI 77

Query: 102 STGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLA------LHVIKEAQKLGGYCAYLD 155
           +TGS +LD  LG GG+    I E++G   SGKT +       + + +E   LGG   Y+D
Sbjct: 78  TTGSKELDELLG-GGIETQAITEVFGEFGSGKTQICHQLAVNVQLPEEKGGLGGKAVYID 136

Query: 156 VENALDP----SLAEAMGIDAE----NLLIAQPDSAENLLSVVD---TLTKSG--SIDVI 202
            EN   P     +AEA G+D +    N+ +A+  ++ + + +V+    L K     + ++
Sbjct: 137 TENTFRPERIMQMAEARGLDPDEVLKNIYVARAYNSNHQMLLVEKAEDLIKELNNPVKLL 196

Query: 203 VVDSVAA 209
           +VDS+ +
Sbjct: 197 IVDSLTS 203

This family consists exclusively of archaeal RadA protein, a homolog of bacterial RecA (TIGR02012), eukaryotic RAD51 (TIGR02239), and archaeal RadB (TIGR02237). This protein is involved in DNA repair and recombination. The member from Pyrococcus horikoshii contains an intein [DNA metabolism, DNA replication, recombination, and repair]. Length = 310

>gnl|CDD|238540 cd01120, RecA-like_NTPases, RecA-like NTPases

 Score = 47.5 bits (113), Expect = 9e-07
 Identities = 36/144 (25%), Positives = 62/144 (43%), Gaps = 17/144 (11%)

Query: 122 IVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAM-----GIDAENLL 176
           ++ ++G   SGKTTLAL +       GG   Y+D+E  ++  L E +         +NL+
Sbjct: 1   LILVFGPTGSGKTTLALQLALNIATKGGKVVYVDIEEEIEE-LTERLIGESLKGALDNLI 59

Query: 177 IAQPDS----AENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIM 232
           I    +    A  LLS  + L + G  D+I++D +  L       V       +     +
Sbjct: 60  IVFATADDPAAARLLSKAERLRERGGDDLIILDELTRL-------VRALREIREGYPGEL 112

Query: 233 TQALRKIHYSLCQSHTLIIFLNQV 256
            + LR++     +    +IF  QV
Sbjct: 113 DEELRELLERARKGGVTVIFTLQV 136

This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion. Length = 165

>gnl|CDD|238541 cd01121, Sms, Sms (bacterial radA) DNA repair protein

 Score = 48.8 bits (117), Expect = 1e-06
 Identities = 36/116 (31%), Positives = 58/116 (50%), Gaps = 7/116 (6%)

Query: 94  GSRRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAY 153
            +     I TG  +LD  LG GGL  G ++ I G    GK+TL L V     K GG   Y
Sbjct: 57  EAEEEERIPTGIEELDRVLG-GGLVPGSVILIGGDPGIGKSTLLLQVAARLAKRGGKVLY 115

Query: 154 LDVENALDP--SLAEAMGIDAENLLIAQPDSAENLLSVVDTLTKSGSIDVIVVDSV 207
           +  E + +     A+ +GI  ENL +    + E++L+ ++ L      D++++DS+
Sbjct: 116 VSGEESPEQIKLRADRLGISTENLYLLAETNLEDILASIEEL----KPDLVIIDSI 167

This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of branched DNA molecules. Length = 372

>gnl|CDD|163592 TIGR03880, KaiC_arch_3, KaiC domain protein, AF_0351 family

 Score = 47.8 bits (114), Expect = 1e-06
 Identities = 32/116 (27%), Positives = 54/116 (46%), Gaps = 14/116 (12%)

Query: 108 LDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSL--A 165
           LD  LG GG P+G ++ + G   +GKTT +L  + +  K G    Y+ +E   +  L  A
Sbjct: 5   LDEMLG-GGFPEGHVIVVIGEYGTGKTTFSLQFLYQGLKNGEKAMYISLEEREERILGYA 63

Query: 166 EAMGIDAE-----NLLIAQPD------SAENLLSVVDTLTKSGSIDVIVVDSVAAL 210
           ++ G D E     +L I + D      S   + + +  L K      +V+D ++ L
Sbjct: 64  KSKGWDLEDYIDKSLYIVRLDPSDFKTSLNRIKNELPILIKELGASRVVIDPISLL 119

This model represents a rather narrowly distributed archaeal protein family in which members have a single copy of the KaiC domain. This stands in contrast to the circadian clock protein KaiC itself, with two copies of the domain. Members are expected to have weak ATPase activity, by homology to the autokinase/autophosphorylase KaiC itself. Length = 224

>gnl|CDD|233794 TIGR02239, recomb_RAD51, DNA repair protein RAD51

 Score = 47.8 bits (114), Expect = 2e-06
 Identities = 45/137 (32%), Positives = 64/137 (46%), Gaps = 20/137 (14%)

Query: 93  FGSRRGPVI--STGSLKLDLALGIGGLPKGRIVEIYGREASGKT----TLALHVIKEAQK 146
           F  RR  VI  +TGS +LD  LG GG+  G I EI+G   +GKT    TLA+       +
Sbjct: 68  FHQRRQEVIQLTTGSKELDKLLG-GGIETGSITEIFGEFRTGKTQLCHTLAVTCQLPIDQ 126

Query: 147 LG--GYCAYLDVENALDP----SLAEAMGIDAENLL--IA-----QPDSAENLLSVVDTL 193
            G  G   Y+D E    P    ++AE  G++ E++L  +A       D    LL     +
Sbjct: 127 GGGEGKALYIDTEGTFRPERLLAIAERYGLNPEDVLDNVAYARAYNTDHQLQLLQQAAAM 186

Query: 194 TKSGSIDVIVVDSVAAL 210
                  +++VDS  AL
Sbjct: 187 MSESRFALLIVDSATAL 203

This eukaryotic sequence family consists of RAD51, a protein involved in DNA homologous recombination and repair. It is similar in sequence the exclusively meiotic recombinase DMC1 (TIGR02238), to archaeal families RadA (TIGR02236) and RadB (TIGR02237), and to bacterial RecA (TIGR02012). Length = 316

>gnl|CDD|219158 pfam06745, KaiC, KaiC

 Score = 46.8 bits (112), Expect = 2e-06
 Identities = 34/116 (29%), Positives = 52/116 (44%), Gaps = 13/116 (11%)

Query: 101 ISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALH-VIKEAQKLGGYCAYLDVENA 159
           + TG   LD  +  GG+P+GR+V I G   +GKT   L  +   A + G    Y+ +E  
Sbjct: 1   VPTGIPGLD-EILKGGIPRGRVVLITGGPGTGKTIFGLQFLYNGALEYGEPGVYVTLEEP 59

Query: 160 LDPSL---AEAMGIDAENLLIAQPDSAENLLSVVDTLTK-SGSIDVIVVDSVAALI 211
            +  L   A++ G D E L        E  L+++D  T   G  +V     +  LI
Sbjct: 60  PE-DLRENAKSFGWDLEKLE------EEGKLAIIDASTSGIGIAEVKGRFDLEELI 108

This family represents a conserved region within bacterial and archaeal proteins, most of which are hypothetical. More than one copy is sometimes found in each protein. This family includes KaiC, which is one of the Kai proteins among which direct protein-protein association may be a critical process in the generation of circadian rhythms in cyanobacteria. Length = 231

>gnl|CDD|178728 PLN03186, PLN03186, DNA repair protein RAD51 homolog; Provisional

 Score = 46.6 bits (111), Expect = 5e-06
 Identities = 39/128 (30%), Positives = 59/128 (46%), Gaps = 20/128 (15%)

Query: 101 ISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLG-------GYCAY 153
           I+TGS +LD  L  GG+  G I EIYG   +GKT L  H +    +L        G   Y
Sbjct: 105 ITTGSRELDKILE-GGIETGSITEIYGEFRTGKTQLC-HTLCVTCQLPLDQGGGEGKAMY 162

Query: 154 LDVENALDP----SLAEAMGIDA----ENLLIAQPDSAEN---LLSVVDTLTKSGSIDVI 202
           +D E    P     +AE  G++     EN+  A+  + ++   LL    ++       ++
Sbjct: 163 IDTEGTFRPQRLIQIAERFGLNGADVLENVAYARAYNTDHQSELLLEAASMMAETRFALM 222

Query: 203 VVDSVAAL 210
           +VDS  AL
Sbjct: 223 IVDSATAL 230

Length = 342

>gnl|CDD|180381 PRK06067, PRK06067, flagellar accessory protein FlaH; Validated

 Score = 44.2 bits (105), Expect = 2e-05
 Identities = 37/124 (29%), Positives = 55/124 (44%), Gaps = 18/124 (14%)

Query: 100 VISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENA 159
           +ISTG+ +LD  LG GG+P   ++ I G   +GK+ L+   +  A K G     +  EN 
Sbjct: 6   IISTGNEELDRKLG-GGIPFPSLILIEGDHGTGKSVLSQQFVYGALKQGKKVYVITTENT 64

Query: 160 LDPSLA--EAMGIDAEN------LLIAQ---------PDSAENLLSVVDTLTKSGSIDVI 202
               L   E++ ID  +      L I              A  LL ++    KS   DVI
Sbjct: 65  SKSYLKQMESVKIDISDFFLWGYLRIFPLNTEGFEWNSTLANKLLELIIEFIKSKREDVI 124

Query: 203 VVDS 206
           ++DS
Sbjct: 125 IIDS 128

Length = 234

>gnl|CDD|222165 pfam13481, AAA_25, AAA domain

 Score = 42.7 bits (101), Expect = 3e-05
 Identities = 27/128 (21%), Positives = 51/128 (39%), Gaps = 23/128 (17%)

Query: 115 GGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMG---ID 171
           G LP+G +  + G   +GK+TLAL +           A       L P   E      +D
Sbjct: 28  GLLPRGGLTLLAGAPGTGKSTLALDLA---------AAVATGRPFLGPFPVEPGRVLYLD 78

Query: 172 AENLLIAQPDSAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRI 231
            E+   ++      L ++ + L +    D++V+D +A+L+              +A    
Sbjct: 79  GED---SEAGLRRRLRALGEALEEIEGPDLVVIDPLASLLG--------GDENDNAAVGA 127

Query: 232 MTQALRKI 239
           +  AL ++
Sbjct: 128 LLAALDRL 135

This AAA domain is found in a wide variety of presumed DNA repair proteins. Length = 154

>gnl|CDD|236461 PRK09302, PRK09302, circadian clock protein KaiC; Reviewed

 Score = 43.3 bits (103), Expect = 7e-05
 Identities = 36/123 (29%), Positives = 56/123 (45%), Gaps = 13/123 (10%)

Query: 101 ISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENAL 160
           IS+G   LD  LG GG  +G I+ + G   +GKT LA    + A + G  C     E + 
Sbjct: 255 ISSGVPDLDEMLG-GGFFRGSIILVSGATGTGKTLLASKFAEAACRRGERCLLFAFEESR 313

Query: 161 DPSL--AEAMGIDAEN------LLI--AQPDSA--ENLLSVVDTLTKSGSIDVIVVDSVA 208
              +  A + GID E       L I  A+P+S   E+ L ++    +      + +D ++
Sbjct: 314 AQLIRNARSWGIDLEKMEEKGLLKIICARPESYGLEDHLIIIKREIEEFKPSRVAIDPLS 373

Query: 209 ALI 211
           AL 
Sbjct: 374 ALA 376

Length = 509

>gnl|CDD|223993 COG1066, Sms, Predicted ATP-dependent serine protease [Posttranslational modification, protein turnover, chaperones]

 Score = 43.0 bits (102), Expect = 8e-05
 Identities = 43/154 (27%), Positives = 70/154 (45%), Gaps = 34/154 (22%)

Query: 99  PVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLG--GYCAYLDV 156
           P ISTG  +LD  LG GGL  G ++ I G    GK+TL L V   A +L   G   Y+  
Sbjct: 73  PRISTGIEELDRVLG-GGLVPGSVILIGGDPGIGKSTLLLQV---AARLAKRGKVLYVSG 128

Query: 157 ENALDP-SL-AEAMGIDAENLLIAQPDSAENLLSVVDTLTKSGSIDVIVVDSVAALIPKC 214
           E +L    L A+ +G+   NL +    + E++++ ++        D++V+DS        
Sbjct: 129 EESLQQIKLRADRLGLPTNNLYLLAETNLEDIIAELEQE----KPDLVVIDS-------- 176

Query: 215 EIGVPINGMYSD---------AQSRIMTQALRKI 239
                I  +YS+         +Q R +   L ++
Sbjct: 177 -----IQTLYSEEITSAPGSVSQVREVAAELMRL 205

Length = 456

>gnl|CDD|163593 TIGR03881, KaiC_arch_4, KaiC domain protein, PAE1156 family

 Score = 41.7 bits (98), Expect = 1e-04
 Identities = 28/97 (28%), Positives = 46/97 (47%), Gaps = 9/97 (9%)

Query: 101 ISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENAL 160
           +STG   LD  L  GG+P+G  V + G   +GKT   LH   +  + G    Y+  E + 
Sbjct: 2   LSTGVEGLDKLLE-GGIPRGFFVAVTGEPGTGKTIFCLHFAYKGLRDGDPVIYVTTEESR 60

Query: 161 DPSLAEA--MGIDAENLLIAQPDSAENLLSVVDTLTK 195
           +  + +A   G+D E  +    +  +  L ++D L K
Sbjct: 61  ESIIRQAAQFGMDFEKAI----EEGK--LVIIDALMK 91

Members of this protein family are archaeal single-domain KaiC_related proteins, homologous to the Cyanobacterial circadian clock cycle protein KaiC, an autokinase/autophosphorylase that has two copies of the domain. Length = 229

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

 Score = 40.4 bits (94), Expect = 2e-04
 Identities = 27/95 (28%), Positives = 45/95 (47%), Gaps = 2/95 (2%)

Query: 119 KGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIA 178
            G ++ I G   SGKTTLA  + +E    GG   Y+D E+ L+  L + + I       +
Sbjct: 1   PGEVILIVGPPGSGKTTLARALARELGPPGGGVIYIDGEDILEEVLDQLLLIIVGGKKAS 60

Query: 179 QPDSAENLLSVVDTLTKSGSIDVIVVDSVAALIPK 213
              S E  L +   L +    DV+++D + +L+  
Sbjct: 61  --GSGELRLRLALALARKLKPDVLILDEITSLLDA 93

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

>gnl|CDD|236994 PRK11823, PRK11823, DNA repair protein RadA; Provisional

 Score = 40.8 bits (97), Expect = 4e-04
 Identities = 37/113 (32%), Positives = 55/113 (48%), Gaps = 15/113 (13%)

Query: 101 ISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENAL 160
           ISTG  +LD  LG GGL  G +V I G    GK+TL L V       GG   Y+  E   
Sbjct: 62  ISTGIGELDRVLG-GGLVPGSVVLIGGDPGIGKSTLLLQVAARLAAAGGKVLYVSGEE-- 118

Query: 161 DPSL------AEAMGIDAENLLIAQPDSAENLLSVVDTLTKSGSIDVIVVDSV 207
             S       AE +G+ ++NL +    + E +L+ ++        D++V+DS+
Sbjct: 119 --SASQIKLRAERLGLPSDNLYLLAETNLEAILATIEEE----KPDLVVIDSI 165

Length = 446

>gnl|CDD|225429 COG2874, FlaH, Predicted ATPases involved in biogenesis of archaeal flagella [Cell motility and secretion / Intracellular trafficking and secretion]

 Score = 40.0 bits (94), Expect = 5e-04
 Identities = 32/129 (24%), Positives = 55/129 (42%), Gaps = 18/129 (13%)

Query: 100 VISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENA 159
           +I +G+ +LD  LG GG+P G ++ I G   +GK+ L+          G    Y+  E  
Sbjct: 9   IIKSGNDELDKRLG-GGIPVGSLILIEGDNGTGKSVLSQRFAYGFLMNGYRVTYVSTELT 67

Query: 160 LDPSLA--EAMGIDAENLLI---------------AQPDSAENLLSVVDTLTKSGSIDVI 202
           +   +   E++  D  + L+                   SA  LL ++    K    DVI
Sbjct: 68  VREFIKQMESLSYDVSDFLLSGRLLFFPVNLEPVNWGRRSARKLLDLLLEFIKRWEKDVI 127

Query: 203 VVDSVAALI 211
           ++DS++A  
Sbjct: 128 IIDSLSAFA 136

Length = 235

>gnl|CDD|216619 pfam01637, Arch_ATPase, Archaeal ATPase

 Score = 38.4 bits (90), Expect = 0.002
 Identities = 24/102 (23%), Positives = 40/102 (39%), Gaps = 11/102 (10%)

Query: 121 RIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLD----------VENALDPSLAEAMGI 170
            I+ +YG    GKT L    ++E ++LG    Y D                  LAEA+G 
Sbjct: 21  PIIVVYGPRRCGKTALLREFLEELRELGYRVIYYDPLRREFEEKLDRFEEAKRLAEALGD 80

Query: 171 D-AENLLIAQPDSAENLLSVVDTLTKSGSIDVIVVDSVAALI 211
              +  +     +  +L  + + L + G    I++D V   I
Sbjct: 81  ALPKIGIAKSKLAFLSLTLLFELLKRKGKKIAIIIDEVQYAI 122

This family contain a conserved P-loop motif that is involved in binding ATP. This family is almost exclusively found in archaebacteria and particularly in Methanococcus jannaschii that encodes sixteen members of this family. Length = 223

>gnl|CDD|226918 COG4544, COG4544, Uncharacterized conserved protein [Function unknown]

 Score = 38.2 bits (89), Expect = 0.002
 Identities = 30/112 (26%), Positives = 47/112 (41%), Gaps = 2/112 (1%)

Query: 94  GSRRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKT--TLALHVIKEAQKLGGYC 151
            + R  ++  G   +D AL  GGL  G I E+ G  A        AL V+  A + GG  
Sbjct: 28  SATRAGILPFGVPPIDAALPGGGLALGEIHELEGGGAGAADGAAAALAVLGLAARRGGPV 87

Query: 152 AYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTKSGSIDVIV 203
            ++     L P    A G+D E L+  +    E++L   +     G +  +V
Sbjct: 88  VWILTREDLFPPALAAFGLDPERLIFVEARKEEDVLWNAEEALSFGGLAAVV 139

Length = 260

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	264
PRK09354	349	recA recombinase A; Provisional	100.0
cd00983	325	recA RecA is a bacterial enzyme which has roles in	100.0
TIGR02012	321	tigrfam_recA protein RecA. This model describes or	100.0
PF00154	322	RecA: recA bacterial DNA recombination protein; In	100.0
PRK09519	790	recA DNA recombination protein RecA; Reviewed	99.97
COG0468	279	RecA RecA/RadA recombinase [DNA replication, recom	99.96
TIGR02238	313	recomb_DMC1 meiotic recombinase Dmc1. This model d	99.94
COG1066	456	Sms Predicted ATP-dependent serine protease [Postt	99.93
PLN03187	344	meiotic recombination protein DMC1 homolog; Provis	99.93
cd01393	226	recA_like RecA is a bacterial enzyme which has rol	99.91
PTZ00035	337	Rad51 protein; Provisional	99.91
cd01121	372	Sms Sms (bacterial radA) DNA repair protein. This	99.91
PRK09361	225	radB DNA repair and recombination protein RadB; Pr	99.91
TIGR00416	454	sms DNA repair protein RadA. The gene protuct code	99.91
PLN03186	342	DNA repair protein RAD51 homolog; Provisional	99.91
PF08423	256	Rad51: Rad51; InterPro: IPR013632 This domain is f	99.91
cd01394	218	radB RadB. The archaeal protein radB shares simila	99.9
PRK11823	446	DNA repair protein RadA; Provisional	99.9
TIGR02655	484	circ_KaiC circadian clock protein KaiC. Members of	99.9
TIGR03877	237	thermo_KaiC_1 KaiC domain protein, Ph0284 family.	99.89
TIGR03878	259	thermo_KaiC_2 KaiC domain protein, AF_0795 family.	99.89
TIGR02239	316	recomb_RAD51 DNA repair protein RAD51. This eukary	99.89
cd01123	235	Rad51_DMC1_radA Rad51_DMC1_radA,B. This group of r	99.88
PRK05973	237	replicative DNA helicase; Provisional	99.88
PRK04328	249	hypothetical protein; Provisional	99.88
PRK04301	317	radA DNA repair and recombination protein RadA; Va	99.88
TIGR02236	310	recomb_radA DNA repair and recombination protein R	99.86
TIGR02237	209	recomb_radB DNA repair and recombination protein R	99.86
PF06745	226	KaiC: KaiC; InterPro: IPR014774 This entry represe	99.86
TIGR03600	421	phage_DnaB phage replicative helicase, DnaB family	99.86
PRK06067	234	flagellar accessory protein FlaH; Validated	99.85
TIGR03881	229	KaiC_arch_4 KaiC domain protein, PAE1156 family. M	99.85
PRK09302	509	circadian clock protein KaiC; Reviewed	99.85
PF03796	259	DnaB_C: DnaB-like helicase C terminal domain; Inte	99.85
PRK06321	472	replicative DNA helicase; Provisional	99.84
PHA02542	473	41 41 helicase; Provisional	99.84
PRK08506	472	replicative DNA helicase; Provisional	99.84
PRK09165	497	replicative DNA helicase; Provisional	99.84
PRK08760	476	replicative DNA helicase; Provisional	99.83
PRK05595	444	replicative DNA helicase; Provisional	99.83
TIGR00665	434	DnaB replicative DNA helicase. This model describe	99.83
PRK05748	448	replicative DNA helicase; Provisional	99.83
PRK08006	471	replicative DNA helicase; Provisional	99.82
TIGR02655	484	circ_KaiC circadian clock protein KaiC. Members of	99.82
cd01122	271	GP4d_helicase GP4d_helicase is a homohexameric 5'-	99.81
PRK09302	509	circadian clock protein KaiC; Reviewed	99.81
TIGR03880	224	KaiC_arch_3 KaiC domain protein, AF_0351 family. T	99.81
PRK05636	505	replicative DNA helicase; Provisional	99.81
PRK08840	464	replicative DNA helicase; Provisional	99.8
PRK06904	472	replicative DNA helicase; Validated	99.8
PRK07004	460	replicative DNA helicase; Provisional	99.8
cd00984	242	DnaB_C DnaB helicase C terminal domain. The hexame	99.79
PRK06749	428	replicative DNA helicase; Provisional	99.78
PRK07773	886	replicative DNA helicase; Validated	99.77
KOG1434	335	consensus Meiotic recombination protein Dmc1 [Cell	99.77
COG0467	260	RAD55 RecA-superfamily ATPases implicated in signa	99.75
COG0305	435	DnaB Replicative DNA helicase [DNA replication, re	99.74
KOG1564	351	consensus DNA repair protein RHP57 [Replication, r	99.73
PRK08533	230	flagellar accessory protein FlaH; Reviewed	99.71
PF13481	193	AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C.	99.69
COG2874	235	FlaH Predicted ATPases involved in biogenesis of a	99.66
cd01124	187	KaiC KaiC is a circadian clock protein primarily f	99.54
KOG1433	326	consensus DNA repair protein RAD51/RHP55 [Replicat	99.51
cd01120	165	RecA-like_NTPases RecA-like NTPases. This family i	99.41
cd01125	239	repA Hexameric Replicative Helicase RepA. RepA is	99.38
COG1136	226	SalX ABC-type antimicrobial peptide transport syst	99.38
COG1125	309	OpuBA ABC-type proline/glycine betaine transport s	99.36
COG4555	245	NatA ABC-type Na+ transport system, ATPase compone	99.34
COG2884	223	FtsE Predicted ATPase involved in cell division [C	99.33
COG1121	254	ZnuC ABC-type Mn/Zn transport systems, ATPase comp	99.32
COG1131	293	CcmA ABC-type multidrug transport system, ATPase c	99.3
COG1120	258	FepC ABC-type cobalamin/Fe3+-siderophores transpor	99.27
COG3842	352	PotA ABC-type spermidine/putrescine transport syst	99.26
COG3598	402	RepA RecA-family ATPase [DNA replication, recombin	99.26
PRK13537	306	nodulation ABC transporter NodI; Provisional	99.25
COG1122	235	CbiO ABC-type cobalt transport system, ATPase comp	99.24
COG4152	300	ABC-type uncharacterized transport system, ATPase	99.24
cd03229	178	ABC_Class3 This class is comprised of all BPD (Bin	99.24
COG1126	240	GlnQ ABC-type polar amino acid transport system, A	99.23
PRK04296	190	thymidine kinase; Provisional	99.22
cd03230	173	ABC_DR_subfamily_A This family of ATP-binding prot	99.22
TIGR01188	302	drrA daunorubicin resistance ABC transporter ATP-b	99.21
cd03216	163	ABC_Carb_Monos_I This family represents the domain	99.19
PRK13536	340	nodulation factor exporter subunit NodI; Provision	99.19
COG1118	345	CysA ABC-type sulfate/molybdate transport systems,	99.19
cd03259	213	ABC_Carb_Solutes_like ABC Carbohydrate and Solute	99.19
COG1127	263	Ttg2A ABC-type transport system involved in resist	99.19
COG0410	237	LivF ABC-type branched-chain amino acid transport	99.17
cd03301	213	ABC_MalK_N The N-terminal ATPase domain of the mal	99.17
cd03261	235	ABC_Org_Solvent_Resistant ABC (ATP-binding cassett	99.16
cd03265	220	ABC_DrrA DrrA is the ATP-binding protein component	99.16
cd03222	177	ABC_RNaseL_inhibitor The ABC ATPase RNase L inhibi	99.16
cd03298	211	ABC_ThiQ_thiamine_transporter ABC-type thiamine tr	99.15
PRK11650	356	ugpC glycerol-3-phosphate transporter ATP-binding	99.15
cd03246	173	ABCC_Protease_Secretion This family represents the	99.15
COG1135	339	AbcC ABC-type metal ion transport system, ATPase c	99.15
TIGR03265	353	PhnT2 putative 2-aminoethylphosphonate ABC transpo	99.15
COG3845	501	ABC-type uncharacterized transport systems, ATPase	99.14
cd03266	218	ABC_NatA_sodium_exporter NatA is the ATPase compon	99.14
COG3839	338	MalK ABC-type sugar transport systems, ATPase comp	99.14
cd03228	171	ABCC_MRP_Like The MRP (Mutidrug Resistance Protein	99.14
cd03255	218	ABC_MJ0796_Lo1CDE_FtsE This family is comprised of	99.14
cd03258	233	ABC_MetN_methionine_transporter MetN (also known a	99.13
cd03215	182	ABC_Carb_Monos_II This family represents domain II	99.13
cd03256	241	ABC_PhnC_transporter ABC-type phosphate/phosphonat	99.13
TIGR01288	303	nodI ATP-binding ABC transporter family nodulation	99.13
PRK11000	369	maltose/maltodextrin transporter ATP-binding prote	99.12
PRK11432	351	fbpC ferric transporter ATP-binding subunit; Provi	99.12
cd03293	220	ABC_NrtD_SsuB_transporters NrtD and SsuB are the A	99.11
TIGR03258	362	PhnT 2-aminoethylphosphonate ABC transport system,	99.11
TIGR02315	243	ABC_phnC phosphonate ABC transporter, ATP-binding	99.11
PRK09452	375	potA putrescine/spermidine ABC transporter ATPase	99.11
TIGR01277	213	thiQ thiamine ABC transporter, ATP-binding protein	99.11
cd03268	208	ABC_BcrA_bacitracin_resist The BcrA subfamily repr	99.11
TIGR00960	216	3a0501s02 Type II (General) Secretory Pathway (IIS	99.1
COG4604	252	CeuD ABC-type enterochelin transport system, ATPas	99.1
cd03296	239	ABC_CysA_sulfate_importer Part of the ABC transpor	99.1
TIGR02314	343	ABC_MetN D-methionine ABC transporter, ATP-binding	99.1
PRK11153	343	metN DL-methionine transporter ATP-binding subunit	99.1
cd03225	211	ABC_cobalt_CbiO_domain1 Domain I of the ABC compon	99.1
PRK10771	232	thiQ thiamine transporter ATP-binding subunit; Pro	99.09
PRK11607	377	potG putrescine transporter ATP-binding subunit; P	99.09
cd03213	194	ABCG_EPDR ABCG transporters are involved in eye pi	99.09
TIGR03410	230	urea_trans_UrtE urea ABC transporter, ATP-binding	99.08
TIGR03522	301	GldA_ABC_ATP gliding motility-associated ABC trans	99.08
PRK11144	352	modC molybdate transporter ATP-binding protein; Pr	99.08
cd03214	180	ABC_Iron-Siderophores_B12_Hemin ABC transporters,	99.08
cd03292	214	ABC_FtsE_transporter FtsE is a hydrophilic nucleot	99.08
PRK11247	257	ssuB aliphatic sulfonates transport ATP-binding su	99.08
cd03269	210	ABC_putative_ATPase This subfamily is involved in	99.07
cd03262	213	ABC_HisP_GlnQ_permeases HisP and GlnQ are the ATP-	99.07
COG1116	248	TauB ABC-type nitrate/sulfonate/bicarbonate transp	99.07
PRK10851	353	sulfate/thiosulfate transporter subunit; Provision	99.07
TIGR02673	214	FtsE cell division ATP-binding protein FtsE. This	99.06
cd03237	246	ABC_RNaseL_inhibitor_domain2 The ATPase domain 2 o	99.06
PRK11629	233	lolD lipoprotein transporter ATP-binding subunit;	99.05
cd03226	205	ABC_cobalt_CbiO_domain2 Domain II of the ABC compo	99.05
cd03218	232	ABC_YhbG The ABC transporters belonging to the Yhb	99.05
TIGR03864	236	PQQ_ABC_ATP ABC transporter, ATP-binding subunit,	99.05
cd03300	232	ABC_PotA_N PotA is an ABC-type transporter and the	99.05
PRK13548	258	hmuV hemin importer ATP-binding subunit; Provision	99.05
cd03294	269	ABC_Pro_Gly_Bertaine This family comprises the gly	99.05
cd03232	192	ABC_PDR_domain2 The pleiotropic drug resistance-li	99.05
KOG2373	514	consensus Predicted mitochondrial DNA helicase twi	99.05
cd03263	220	ABC_subfamily_A The ABCA subfamily mediates the tr	99.04
TIGR01186	363	proV glycine betaine/L-proline transport ATP bindi	99.04
TIGR02211	221	LolD_lipo_ex lipoprotein releasing system, ATP-bin	99.04
PRK11248	255	tauB taurine transporter ATP-binding subunit; Prov	99.04
COG3638	258	ABC-type phosphate/phosphonate transport system, A	99.04
TIGR02142	354	modC_ABC molybdenum ABC transporter, ATP-binding p	99.04
PRK10584	228	putative ABC transporter ATP-binding protein YbbA;	99.04
cd00267	157	ABC_ATPase ABC (ATP-binding cassette) transporter	99.04
cd03267	236	ABC_NatA_like Similar in sequence to NatA, this is	99.03
cd03299	235	ABC_ModC_like Archeal protein closely related to M	99.03
cd03257	228	ABC_NikE_OppD_transporters The ABC transporter sub	99.03
TIGR01184	230	ntrCD nitrate transport ATP-binding subunits C and	99.03
PRK13650	279	cbiO cobalt transporter ATP-binding subunit; Provi	99.03
COG1124	252	DppF ABC-type dipeptide/oligopeptide/nickel transp	99.03
cd03247	178	ABCC_cytochrome_bd The CYD subfamily implicated in	99.03
PRK13635	279	cbiO cobalt transporter ATP-binding subunit; Provi	99.03
PRK11831	269	putative ABC transporter ATP-binding protein YrbF;	99.03
cd03231	201	ABC_CcmA_heme_exporter CcmA, the ATP-binding compo	99.02
cd03297	214	ABC_ModC_molybdenum_transporter ModC is an ABC-typ	99.02
PRK11264	250	putative amino-acid ABC transporter ATP-binding pr	99.02
PRK13538	204	cytochrome c biogenesis protein CcmA; Provisional	99.02
COG0411	250	LivG ABC-type branched-chain amino acid transport	99.02
TIGR00968	237	3a0106s01 sulfate ABC transporter, ATP-binding pro	99.02
cd03238	176	ABC_UvrA The excision repair protein UvrA; Nucleot	99.02
cd03295	242	ABC_OpuCA_Osmoprotection OpuCA is a the ATP bindin	99.02
COG4181	228	Predicted ABC-type transport system involved in ly	99.01
PRK10070	400	glycine betaine transporter ATP-binding subunit; P	99.01
PRK11300	255	livG leucine/isoleucine/valine transporter ATP-bin	99.0
TIGR03005	252	ectoine_ehuA ectoine/hydroxyectoine ABC transporte	99.0
PRK10908	222	cell division protein FtsE; Provisional	99.0
COG3840	231	ThiQ ABC-type thiamine transport system, ATPase co	99.0
PRK14250	241	phosphate ABC transporter ATP-binding protein; Pro	99.0
PRK09493	240	glnQ glutamine ABC transporter ATP-binding protein	99.0
cd00544	169	CobU Adenosylcobinamide kinase / adenosylcobinamid	98.99
COG1129	500	MglA ABC-type sugar transport system, ATPase compo	98.99
PRK13543	214	cytochrome c biogenesis protein CcmA; Provisional	98.99
PRK13652	277	cbiO cobalt transporter ATP-binding subunit; Provi	98.99
PRK13647	274	cbiO cobalt transporter ATP-binding subunit; Provi	98.98
PRK15112	267	antimicrobial peptide ABC system ATP-binding prote	98.98
PRK10575	265	iron-hydroxamate transporter ATP-binding subunit;	98.98
PRK13634	290	cbiO cobalt transporter ATP-binding subunit; Provi	98.98
PRK11614	237	livF leucine/isoleucine/valine transporter ATP-bin	98.98
PRK13637	287	cbiO cobalt transporter ATP-binding subunit; Provi	98.98
PRK10247	225	putative ABC transporter ATP-binding protein YbbL;	98.98
PRK10253	265	iron-enterobactin transporter ATP-binding protein;	98.98
PRK09536	402	btuD corrinoid ABC transporter ATPase; Reviewed	98.98
PRK13540	200	cytochrome c biogenesis protein CcmA; Provisional	98.98
COG1137	243	YhbG ABC-type (unclassified) transport system, ATP	98.98
PRK10895	241	lipopolysaccharide ABC transporter ATP-binding pro	98.97
cd03224	222	ABC_TM1139_LivF_branched LivF (TM1139) is part of	98.97
cd03235	213	ABC_Metallic_Cations ABC component of the metal-ty	98.97
TIGR03415	382	ABC_choXWV_ATP choline ABC transporter, ATP-bindin	98.97
TIGR02324	224	CP_lyasePhnL phosphonate C-P lyase system protein	98.97
PRK09984	262	phosphonate/organophosphate ester transporter subu	98.97
PRK13636	283	cbiO cobalt transporter ATP-binding subunit; Provi	98.97
PRK10619	257	histidine/lysine/arginine/ornithine transporter su	98.97
cd03233	202	ABC_PDR_domain1 The pleiotropic drug resistance (P	98.96
cd03219	236	ABC_Mj1267_LivG_branched The Mj1267/LivG ABC trans	98.96
TIGR02770	230	nickel_nikD nickel import ATP-binding protein NikD	98.96
TIGR03608	206	L_ocin_972_ABC putative bacteriocin export ABC tra	98.96
TIGR01166	190	cbiO cobalt transport protein ATP-binding subunit.	98.95
PRK13646	286	cbiO cobalt transporter ATP-binding subunit; Provi	98.95
TIGR02769	265	nickel_nikE nickel import ATP-binding protein NikE	98.95
PRK13648	269	cbiO cobalt transporter ATP-binding subunit; Provi	98.95
PRK13539	207	cytochrome c biogenesis protein CcmA; Provisional	98.95
cd03264	211	ABC_drug_resistance_like ABC-type multidrug transp	98.95
PRK13640	282	cbiO cobalt transporter ATP-binding subunit; Provi	98.94
PRK11124	242	artP arginine transporter ATP-binding subunit; Pro	98.94
PRK11308	327	dppF dipeptide transporter ATP-binding subunit; Pr	98.94
TIGR03873	256	F420-0_ABC_ATP proposed F420-0 ABC transporter, AT	98.93
PRK13651	305	cobalt transporter ATP-binding subunit; Provisiona	98.93
PRK03695	248	vitamin B12-transporter ATPase; Provisional	98.93
TIGR03740	223	galliderm_ABC gallidermin-class lantibiotic protec	98.93
PRK15439	510	autoinducer 2 ABC transporter ATP-binding protein	98.92
cd03217	200	ABC_FeS_Assembly ABC-type transport system involve	98.92
PRK13638	271	cbiO cobalt transporter ATP-binding subunit; Provi	98.92
COG4586	325	ABC-type uncharacterized transport system, ATPase	98.92
PRK15079	331	oligopeptide ABC transporter ATP-binding protein O	98.91
PRK10418	254	nikD nickel transporter ATP-binding protein NikD;	98.91
COG4608	268	AppF ABC-type oligopeptide transport system, ATPas	98.91
TIGR03411	242	urea_trans_UrtD urea ABC transporter, ATP-binding	98.91
PRK13547	272	hmuV hemin importer ATP-binding subunit; Provision	98.91
PRK09544	251	znuC high-affinity zinc transporter ATPase; Review	98.91
PRK13645	289	cbiO cobalt transporter ATP-binding subunit; Provi	98.9
TIGR01189	198	ccmA heme ABC exporter, ATP-binding protein CcmA.	98.9
cd03221	144	ABCF_EF-3 ABCF_EF-3 Elongation factor 3 (EF-3) is	98.9
PRK13642	277	cbiO cobalt transporter ATP-binding subunit; Provi	98.89
PRK13643	288	cbiO cobalt transporter ATP-binding subunit; Provi	98.89
PRK11231	255	fecE iron-dicitrate transporter ATP-binding subuni	98.89
PRK13639	275	cbiO cobalt transporter ATP-binding subunit; Provi	98.89
PRK13641	287	cbiO cobalt transporter ATP-binding subunit; Provi	98.89
PRK13632	271	cbiO cobalt transporter ATP-binding subunit; Provi	98.89
cd03251	234	ABCC_MsbA MsbA is an essential ABC transporter, cl	98.88
PRK10419	268	nikE nickel transporter ATP-binding protein NikE;	98.88
PRK13644	274	cbiO cobalt transporter ATP-binding subunit; Provi	98.87
cd03253	236	ABCC_ATM1_transporter ATM1 is an ABC transporter t	98.87
PRK13633	280	cobalt transporter ATP-binding subunit; Provisiona	98.87
PRK13649	280	cbiO cobalt transporter ATP-binding subunit; Provi	98.87
COG4618	580	ArpD ABC-type protease/lipase transport system, AT	98.85
PRK10762	501	D-ribose transporter ATP binding protein; Provisio	98.85
TIGR02982	220	heterocyst_DevA ABC exporter ATP-binding subunit,	98.85
PF13401	131	AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S	98.85
PRK13631	320	cbiO cobalt transporter ATP-binding subunit; Provi	98.84
cd03252	237	ABCC_Hemolysin The ABC-transporter hemolysin B is	98.84
cd03260	227	ABC_PstB_phosphate_transporter Phosphate uptake is	98.84
cd03234	226	ABCG_White The White subfamily represents ABC tran	98.84
COG1117	253	PstB ABC-type phosphate transport system, ATPase c	98.84
PRK09700	510	D-allose transporter ATP-binding protein; Provisio	98.84
PRK09473	330	oppD oligopeptide transporter ATP-binding componen	98.84
TIGR03269	520	met_CoM_red_A2 methyl coenzyme M reductase system,	98.84
PRK11701	258	phnK phosphonate C-P lyase system protein PhnK; Pr	98.84
PRK11022	326	dppD dipeptide transporter ATP-binding subunit; Pr	98.83
PRK13541	195	cytochrome c biogenesis protein CcmA; Provisional	98.83
cd03249	238	ABC_MTABC3_MDL1_MDL2 MTABC3 (also known as ABCB6)	98.83
PRK10938	490	putative molybdenum transport ATP-binding protein	98.83
TIGR01257	2272	rim_protein retinal-specific rim ABC transporter.	98.83
COG4619	223	ABC-type uncharacterized transport system, ATPase	98.83
cd03369	207	ABCC_NFT1 Domain 2 of NFT1 (New full-length MRP-ty	98.83
PRK10261	623	glutathione transporter ATP-binding protein; Provi	98.82
cd03254	229	ABCC_Glucan_exporter_like Glucan exporter ATP-bind	98.81
TIGR03771	223	anch_rpt_ABC anchored repeat-type ABC transporter,	98.81
COG4559	259	ABC-type hemin transport system, ATPase component	98.81
smart00382	148	AAA ATPases associated with a variety of cellular	98.81
PF13479	213	AAA_24: AAA domain	98.8
cd03223	166	ABCD_peroxisomal_ALDP Peroxisomal ATP-binding cass	98.8
PRK13549	506	xylose transporter ATP-binding subunit; Provisiona	98.8
PRK10982	491	galactose/methyl galaxtoside transporter ATP-bindi	98.79
cd03220	224	ABC_KpsT_Wzt ABC_KpsT_Wzt The KpsT/Wzt ABC transpo	98.79
PRK13409	590	putative ATPase RIL; Provisional	98.79
cd03244	221	ABCC_MRP_domain2 Domain 2 of the ABC subfamily C.	98.79
PRK11288	501	araG L-arabinose transporter ATP-binding protein;	98.79
PRK14258	261	phosphate ABC transporter ATP-binding protein; Pro	98.78
PRK14247	250	phosphate ABC transporter ATP-binding protein; Pro	98.78
COG1123	539	ATPase components of various ABC-type transport sy	98.77
PRK14259	269	phosphate ABC transporter ATP-binding protein; Pro	98.77
TIGR01187	325	potA spermidine/putrescine ABC transporter ATP-bin	98.77
PRK14242	253	phosphate transporter ATP-binding protein; Provisi	98.77
cd03236	255	ABC_RNaseL_inhibitor_domain1 The ATPase domain 1 o	98.77
PRK15056	272	manganese/iron transporter ATP-binding protein; Pr	98.76
TIGR00972	247	3a0107s01c2 phosphate ABC transporter, ATP-binding	98.76
PRK05800	170	cobU adenosylcobinamide kinase/adenosylcobinamide-	98.76
PRK15093	330	antimicrobial peptide ABC transporter ATP-binding	98.76
cd03250	204	ABCC_MRP_domain1 Domain 1 of the ABC subfamily C.	98.74
PRK14273	254	phosphate ABC transporter ATP-binding protein; Pro	98.74
PRK14240	250	phosphate transporter ATP-binding protein; Provisi	98.74
cd03245	220	ABCC_bacteriocin_exporters ABC-type bacteriocin ex	98.74
PRK09700	510	D-allose transporter ATP-binding protein; Provisio	98.74
COG1123	539	ATPase components of various ABC-type transport sy	98.74
PRK14267	253	phosphate ABC transporter ATP-binding protein; Pro	98.73
TIGR01978	243	sufC FeS assembly ATPase SufC. SufC is part of the	98.73
PRK11288	501	araG L-arabinose transporter ATP-binding protein;	98.73
PRK10261	623	glutathione transporter ATP-binding protein; Provi	98.73
PRK10762	501	D-ribose transporter ATP binding protein; Provisio	98.72
COG4175	386	ProV ABC-type proline/glycine betaine transport sy	98.72
PRK14249	251	phosphate ABC transporter ATP-binding protein; Pro	98.72
COG4107	258	PhnK ABC-type phosphonate transport system, ATPase	98.72
TIGR02323	253	CP_lyasePhnK phosphonate C-P lyase system protein	98.72
PRK14253	249	phosphate ABC transporter ATP-binding protein; Pro	98.72
PRK14248	268	phosphate ABC transporter ATP-binding protein; Pro	98.72
PRK10744	260	pstB phosphate transporter ATP-binding protein; Pr	98.72
COG1134	249	TagH ABC-type polysaccharide/polyol phosphate tran	98.71
PRK14274	259	phosphate ABC transporter ATP-binding protein; Pro	98.71
PRK14269	246	phosphate ABC transporter ATP-binding protein; Pro	98.71
PRK14270	251	phosphate ABC transporter ATP-binding protein; Pro	98.71
cd03290	218	ABCC_SUR1_N The SUR domain 1. The sulfonylurea rec	98.7
COG2274	709	SunT ABC-type bacteriocin/lantibiotic exporters, c	98.7
PRK13549	506	xylose transporter ATP-binding subunit; Provisiona	98.7
PRK14268	258	phosphate ABC transporter ATP-binding protein; Pro	98.69
PRK14238	271	phosphate transporter ATP-binding protein; Provisi	98.69
TIGR03269	520	met_CoM_red_A2 methyl coenzyme M reductase system,	98.69
PRK14262	250	phosphate ABC transporter ATP-binding protein; Pro	98.69
PRK14239	252	phosphate transporter ATP-binding protein; Provisi	98.69
PRK13546	264	teichoic acids export protein ATP-binding subunit;	98.68
PRK14272	252	phosphate ABC transporter ATP-binding protein; Pro	98.68
PRK14254	285	phosphate ABC transporter ATP-binding protein; Pro	98.68
cd03248	226	ABCC_TAP TAP, the Transporter Associated with Anti	98.67
PRK14246	257	phosphate ABC transporter ATP-binding protein; Pro	98.67
TIGR01257	2272	rim_protein retinal-specific rim ABC transporter.	98.67
PRK14265	274	phosphate ABC transporter ATP-binding protein; Pro	98.67
PRK14245	250	phosphate ABC transporter ATP-binding protein; Pro	98.67
cd03283	199	ABC_MutS-like MutS-like homolog in eukaryotes. The	98.67
TIGR01618	220	phage_P_loop phage nucleotide-binding protein. Thi	98.67
cd03289	275	ABCC_CFTR2 The CFTR subfamily domain 2. The cystic	98.67
PRK14236	272	phosphate transporter ATP-binding protein; Provisi	98.66
PRK14251	251	phosphate ABC transporter ATP-binding protein; Pro	98.66
PRK14260	259	phosphate ABC transporter ATP-binding protein; Pro	98.66
PRK14243	264	phosphate transporter ATP-binding protein; Provisi	98.66
PRK14235	267	phosphate transporter ATP-binding protein; Provisi	98.66
COG0444	316	DppD ABC-type dipeptide/oligopeptide/nickel transp	98.66
PRK14237	267	phosphate transporter ATP-binding protein; Provisi	98.65
PRK14244	251	phosphate ABC transporter ATP-binding protein; Pro	98.65
PRK15134	529	microcin C ABC transporter ATP-binding protein Yej	98.65
TIGR02868	529	CydC thiol reductant ABC exporter, CydC subunit. T	98.65
PRK14241	258	phosphate transporter ATP-binding protein; Provisi	98.65
PRK11176	582	lipid transporter ATP-binding/permease protein; Pr	98.64
COG4133	209	CcmA ABC-type transport system involved in cytochr	98.64
PRK14271	276	phosphate ABC transporter ATP-binding protein; Pro	98.64
PRK14266	250	phosphate ABC transporter ATP-binding protein; Pro	98.64
PF01695	178	IstB_IS21: IstB-like ATP binding protein; InterPro	98.64
PRK14275	286	phosphate ABC transporter ATP-binding protein; Pro	98.64
PRK11174	588	cysteine/glutathione ABC transporter membrane/ATP-	98.63
PF00004	132	AAA: ATPase family associated with various cellula	98.63
PRK09580	248	sufC cysteine desulfurase ATPase component; Review	98.63
PRK09183	259	transposase/IS protein; Provisional	98.63
PRK14261	253	phosphate ABC transporter ATP-binding protein; Pro	98.63
PRK14263	261	phosphate ABC transporter ATP-binding protein; Pro	98.62
PRK13545	549	tagH teichoic acids export protein ATP-binding sub	98.62
COG0488	530	Uup ATPase components of ABC transporters with dup	98.61
PRK14256	252	phosphate ABC transporter ATP-binding protein; Pro	98.61
PRK14252	265	phosphate ABC transporter ATP-binding protein; Pro	98.61
TIGR02633	500	xylG D-xylose ABC transporter, ATP-binding protein	98.61
PRK14264	305	phosphate ABC transporter ATP-binding protein; Pro	98.61
PRK08084	235	DNA replication initiation factor; Provisional	98.61
PRK08181	269	transposase; Validated	98.61
PRK06893	229	DNA replication initiation factor; Validated	98.6
PRK13409	590	putative ATPase RIL; Provisional	98.6
PRK15439	510	autoinducer 2 ABC transporter ATP-binding protein	98.59
cd03288	257	ABCC_SUR2 The SUR domain 2. The sulfonylurea recep	98.59
COG4674	249	Uncharacterized ABC-type transport system, ATPase	98.59
PF00448	196	SRP54: SRP54-type protein, GTPase domain; InterPro	98.59
TIGR01842	544	type_I_sec_PrtD type I secretion system ABC transp	98.59
COG0488	530	Uup ATPase components of ABC transporters with dup	98.58
PRK15134	529	microcin C ABC transporter ATP-binding protein Yej	98.58
TIGR02857	529	CydD thiol reductant ABC exporter, CydD subunit. U	98.58
PRK06526	254	transposase; Provisional	98.57
cd00009	151	AAA The AAA+ (ATPases Associated with a wide varie	98.57
PRK10938	490	putative molybdenum transport ATP-binding protein	98.56
PRK14255	252	phosphate ABC transporter ATP-binding protein; Pro	98.56
CHL00131	252	ycf16 sulfate ABC transporter protein; Validated	98.56
PRK13657	588	cyclic beta-1,2-glucan ABC transporter; Provisiona	98.56
PRK15064	530	ABC transporter ATP-binding protein; Provisional	98.55
TIGR02633	500	xylG D-xylose ABC transporter, ATP-binding protein	98.55
PRK10789	569	putative multidrug transporter membrane\ATP-bindin	98.55
TIGR03499	282	FlhF flagellar biosynthetic protein FlhF.	98.55
PRK10790	592	putative multidrug transporter membrane\ATP-bindin	98.54
PLN03211	659	ABC transporter G-25; Provisional	98.54
TIGR02204	576	MsbA_rel ABC transporter, permease/ATP-binding pro	98.53
TIGR03375	694	type_I_sec_LssB type I secretion system ATPase, Ls	98.53
TIGR01193	708	bacteriocin_ABC ABC-type bacteriocin transporter.	98.52
cd03243	202	ABC_MutS_homologs The MutS protein initiates DNA m	98.52
PRK05642	234	DNA replication initiation factor; Validated	98.51
PRK10982	491	galactose/methyl galaxtoside transporter ATP-bindi	98.51
KOG0058	716	consensus Peptide exporter, ABC superfamily [Intra	98.51
COG4172	534	ABC-type uncharacterized transport system, duplica	98.51
TIGR01192	585	chvA glucan exporter ATP-binding protein. This mod	98.51
PRK12726	407	flagellar biosynthesis regulator FlhF; Provisional	98.51
TIGR03797	686	NHPM_micro_ABC2 NHPM bacteriocin system ABC transp	98.51
TIGR03796	710	NHPM_micro_ABC1 NHPM bacteriocin system ABC transp	98.5
COG4136	213	ABC-type uncharacterized transport system, ATPase	98.5
PRK15177	213	Vi polysaccharide export ATP-binding protein VexC;	98.5
PRK10636	638	putative ABC transporter ATP-binding protein; Prov	98.5
TIGR01846	694	type_I_sec_HlyB type I secretion system ABC transp	98.49
PTZ00265	1466	multidrug resistance protein (mdr1); Provisional	98.49
PRK10636	638	putative ABC transporter ATP-binding protein; Prov	98.49
PRK08727	233	hypothetical protein; Validated	98.49
PRK12724	432	flagellar biosynthesis regulator FlhF; Provisional	98.49
PRK08903	227	DnaA regulatory inactivator Hda; Validated	98.48
cd03115	173	SRP The signal recognition particle (SRP) mediates	98.48
TIGR02203	571	MsbA_lipidA lipid A export permease/ATP-binding pr	98.48
PRK10416	318	signal recognition particle-docking protein FtsY;	98.48
COG4148	352	ModC ABC-type molybdate transport system, ATPase c	98.48
TIGR03719	552	ABC_ABC_ChvD ATP-binding cassette protein, ChvD fa	98.47
PTZ00454	398	26S protease regulatory subunit 6B-like protein; P	98.47
PRK10535	648	macrolide transporter ATP-binding /permease protei	98.47
COG4988	559	CydD ABC-type transport system involved in cytochr	98.46
COG0396	251	sufC Cysteine desulfurase activator ATPase [Posttr	98.46
cd03227	162	ABC_Class2 ABC-type Class 2 contains systems invol	98.46
PRK11147	635	ABC transporter ATPase component; Reviewed	98.45
PRK11819	556	putative ABC transporter ATP-binding protein; Revi	98.45
PRK14257	329	phosphate ABC transporter ATP-binding protein; Pro	98.44
TIGR00955	617	3a01204 The Eye Pigment Precursor Transporter (EPP	98.44
PRK12377	248	putative replication protein; Provisional	98.44
PTZ00361	438	26 proteosome regulatory subunit 4-like protein; P	98.44
PLN03073	718	ABC transporter F family; Provisional	98.44
PRK15064	530	ABC transporter ATP-binding protein; Provisional	98.43
TIGR00064	272	ftsY signal recognition particle-docking protein F	98.43
PRK11819	556	putative ABC transporter ATP-binding protein; Revi	98.43
TIGR00958	711	3a01208 Conjugate Transporter-2 (CT2) Family prote	98.43
PRK10522	547	multidrug transporter membrane component/ATP-bindi	98.42
COG4161	242	ArtP ABC-type arginine transport system, ATPase co	98.42
PRK10867	433	signal recognition particle protein; Provisional	98.42
PF00308	219	Bac_DnaA: Bacterial dnaA protein; InterPro: IPR013	98.42
KOG0061	613	consensus Transporter, ABC superfamily (Breast can	98.41
COG1245	591	Predicted ATPase, RNase L inhibitor (RLI) homolog	98.41
PRK11160	574	cysteine/glutathione ABC transporter membrane/ATP-	98.41
PRK11889	436	flhF flagellar biosynthesis regulator FlhF; Provis	98.4
PRK11147	635	ABC transporter ATPase component; Reviewed	98.4
PF05621	302	TniB: Bacterial TniB protein; InterPro: IPR008868	98.4
PRK06921	266	hypothetical protein; Provisional	98.4
TIGR03719	552	ABC_ABC_ChvD ATP-binding cassette protein, ChvD fa	98.4
COG1222	406	RPT1 ATP-dependent 26S proteasome regulatory subun	98.4
PRK14722	374	flhF flagellar biosynthesis regulator FlhF; Provis	98.39
COG1119	257	ModF ABC-type molybdenum transport system, ATPase	98.39
COG1618	179	Predicted nucleotide kinase [Nucleotide transport	98.39
cd03280	200	ABC_MutS2 MutS2 homologs in bacteria and eukaryote	98.39
PRK05703	424	flhF flagellar biosynthesis regulator FlhF; Valida	98.39
PF13173	128	AAA_14: AAA domain	98.38
TIGR01194	555	cyc_pep_trnsptr cyclic peptide transporter. This m	98.38
TIGR00959	428	ffh signal recognition particle protein. This mode	98.37
KOG0059	885	consensus Lipid exporter ABCA1 and related protein	98.37
COG4987	573	CydC ABC-type transport system involved in cytochr	98.37
TIGR02858	270	spore_III_AA stage III sporulation protein AA. Mem	98.36
PRK14974	336	cell division protein FtsY; Provisional	98.36
COG1132	567	MdlB ABC-type multidrug transport system, ATPase a	98.36
PRK06835	329	DNA replication protein DnaC; Validated	98.36
KOG0734	752	consensus AAA+-type ATPase containing the peptidas	98.36
PLN03073	718	ABC transporter F family; Provisional	98.35
TIGR03420	226	DnaA_homol_Hda DnaA regulatory inactivator Hda. Me	98.35
PLN03140	1470	ABC transporter G family member; Provisional	98.33
cd03272	243	ABC_SMC3_euk Eukaryotic SMC3 proteins; SMC protein	98.33
COG4598	256	HisP ABC-type histidine transport system, ATPase c	98.32
PLN03232	1495	ABC transporter C family member; Provisional	98.32
PTZ00265	1466	multidrug resistance protein (mdr1); Provisional	98.31
cd03278	197	ABC_SMC_barmotin Barmotin is a tight junction-asso	98.31
PLN03140	1470	ABC transporter G family member; Provisional	98.3
TIGR01425	429	SRP54_euk signal recognition particle protein SRP5	98.3
PRK03992	389	proteasome-activating nucleotidase; Provisional	98.3
TIGR03689	512	pup_AAA proteasome ATPase. In the Actinobacteria,	98.29
cd03281	213	ABC_MSH5_euk MutS5 homolog in eukaryotes. The MutS	98.29
COG4615	546	PvdE ABC-type siderophore export system, fused ATP	98.29
PLN03130	1622	ABC transporter C family member; Provisional	98.28
PRK08116	268	hypothetical protein; Validated	98.28
cd03291	282	ABCC_CFTR1 The CFTR subfamily domain 1. The cystic	98.28
cd03285	222	ABC_MSH2_euk MutS2 homolog in eukaryotes. The MutS	98.27
COG4525	259	TauB ABC-type taurine transport system, ATPase com	98.26
cd03271	261	ABC_UvrA_II The excision repair protein UvrA domai	98.26
PRK00771	437	signal recognition particle protein Srp54; Provisi	98.25
KOG0744	423	consensus AAA+-type ATPase [Posttranslational modi	98.25
PTZ00243	1560	ABC transporter; Provisional	98.24
COG1101	263	PhnK ABC-type uncharacterized transport system, AT	98.24
TIGR01242	364	26Sp45 26S proteasome subunit P45 family. Many pro	98.24
cd03270	226	ABC_UvrA_I The excision repair protein UvrA domain	98.24
TIGR00957	1522	MRP_assoc_pro multi drug resistance-associated pro	98.24
COG1484	254	DnaC DNA replication protein [DNA replication, rec	98.23
cd01128	249	rho_factor Transcription termination factor rho is	98.22
COG4167	267	SapF ABC-type antimicrobial peptide transport syst	98.22
cd03279	213	ABC_sbcCD SbcCD and other Mre11/Rad50 (MR) complex	98.21
PRK12723	388	flagellar biosynthesis regulator FlhF; Provisional	98.21
COG4778	235	PhnL ABC-type phosphonate transport system, ATPase	98.21
TIGR00956	1394	3a01205 Pleiotropic Drug Resistance (PDR) Family p	98.21
smart00534	185	MUTSac ATPase domain of DNA mismatch repair MUTS f	98.21
PRK07952	244	DNA replication protein DnaC; Validated	98.2
KOG0733	802	consensus Nuclear AAA ATPase (VCP subfamily) [Post	98.2
PRK12727	559	flagellar biosynthesis regulator FlhF; Provisional	98.19
KOG0733	802	consensus Nuclear AAA ATPase (VCP subfamily) [Post	98.19
cd03240	204	ABC_Rad50 The catalytic domains of Rad50 are simil	98.18
TIGR00750	300	lao LAO/AO transport system ATPase. Mutations have	98.18
TIGR01271	1490	CFTR_protein cystic fibrosis transmembrane conduct	98.18
KOG0057	591	consensus Mitochondrial Fe/S cluster exporter, ABC	98.17
PRK07721	438	fliI flagellum-specific ATP synthase; Validated	98.17
KOG0055	1228	consensus Multidrug/pheromone exporter, ABC superf	98.17
CHL00195	489	ycf46 Ycf46; Provisional	98.17
KOG0730	693	consensus AAA+-type ATPase [Posttranslational modi	98.17
PRK06731	270	flhF flagellar biosynthesis regulator FlhF; Valida	98.16
TIGR00954	659	3a01203 Peroxysomal Fatty Acyl CoA Transporter (FA	98.16
COG1419	407	FlhF Flagellar GTP-binding protein [Cell motility	98.15

>PRK09354 recA recombinase A; Provisional

Probab=100.00  E-value=1.9e-34  Score=255.84  Aligned_cols=197  Identities=53%  Similarity=0.795  Sum_probs=182.4

Q ss_pred             hHHHHHHHHHHHHHHHhcCCccccccccccCCCCCCccccCcHHHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHH
Q 024705           64 MQKDNALRLALSQLANDFGKESMLSLKRFFGSRRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKE  143 (264)
Q Consensus        64 ~~~~~~l~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~i~tG~~~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~  143 (264)
                      +++...|+.++.+++++||++..+++.+... ...+.+|||++.||.+||+||+++|++++|+||+|+|||||+++++.+
T Consensus         5 ~~~~~~~~~~~~~i~~~~g~~~~~~~~~~~~-~~~~~isTGi~~LD~~LG~GGip~G~IteI~G~~GsGKTtLal~~~~~   83 (349)
T PRK09354          5 EEKQKALEAALKQIEKQFGKGSIMRLGDDAA-MDVEVISTGSLALDIALGIGGLPRGRIVEIYGPESSGKTTLALHAIAE   83 (349)
T ss_pred             hHHHHHHHHHHHHHHHHhCCCCceEcccccc-cCCceecCCcHHHHHHhcCCCCcCCeEEEEECCCCCCHHHHHHHHHHH
Confidence            3678899999999999999999999886443 378899999999999998899999999999999999999999999999


Q ss_pred             HhhcCCeEEEEecCCCCCHHHHHHcCCCccceeEeCCCCHHHHHHHHHHHhhcCCccEEEEcCccccccccccCCCcCCC
Q 024705          144 AQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGM  223 (264)
Q Consensus       144 ~~~~g~~v~~~~~e~~~~~~~~~~~g~~~~~l~~~~~~~~ee~~~~i~~~~~~~~~~~vvIDsl~~~~~~~~~~~~~~~~  223 (264)
                      ++..|++|+||++|+..++.+++.+|++.+++.+.++.+.++.++.+..++++..+++|||||+.++.++.+++++.++.
T Consensus        84 ~~~~G~~~~yId~E~s~~~~~a~~lGvdld~lli~qp~~~Eq~l~i~~~li~s~~~~lIVIDSvaaL~~~~E~eg~~gd~  163 (349)
T PRK09354         84 AQKAGGTAAFIDAEHALDPVYAKKLGVDIDNLLVSQPDTGEQALEIADTLVRSGAVDLIVVDSVAALVPKAEIEGEMGDS  163 (349)
T ss_pred             HHHcCCcEEEECCccchHHHHHHHcCCCHHHeEEecCCCHHHHHHHHHHHhhcCCCCEEEEeChhhhcchhhhcCCcccc
Confidence            99999999999999999999999999999999999999999999999999988999999999999999878888887776


Q ss_pred             CcHHHHHHHHHHHHHHHHHHhccCcEEEEEcccchHhh
Q 024705          224 YSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVKVLLL  261 (264)
Q Consensus       224 ~~~~q~r~i~~~L~~l~~~l~~~g~tVi~i~h~~~~~~  261 (264)
                      ..+.|++.+++.|++|...++++|+++|++||++.++.
T Consensus       164 ~~~~qar~ms~~Lr~L~~~l~k~~itvI~tNQvr~~ig  201 (349)
T PRK09354        164 HVGLQARLMSQALRKLTGNISKSNTTVIFINQIREKIG  201 (349)
T ss_pred             chhHHHHHHHHHHHHHHHHHHHcCcEEEEEEeeeeccc
Confidence            77788998999999999999999999999999998764

>cd00983 recA RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response

Probab=100.00  E-value=3.5e-34  Score=252.50  Aligned_cols=196  Identities=54%  Similarity=0.808  Sum_probs=180.6

Q ss_pred             HHHHHHHHHHHHHHhcCCccccccccccCCCCCCccccCcHHHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHHh
Q 024705           66 KDNALRLALSQLANDFGKESMLSLKRFFGSRRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQ  145 (264)
Q Consensus        66 ~~~~l~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~i~tG~~~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~  145 (264)
                      +...|+.++.++++.||++..+++.+. .....+.+|||++.||.+||+||+|+|.+++|+||||+|||||+++++.+++
T Consensus         2 ~~~~~~~~~~~i~~~~g~~~~~~~~~~-~~~~~~~isTGi~~LD~~Lg~GGlp~G~iteI~Gp~GsGKTtLal~~~~~~~   80 (325)
T cd00983           2 KQKALELALKQIEKKFGKGSIMKLGDD-AVQDVEVIPTGSLSLDIALGIGGYPKGRIIEIYGPESSGKTTLALHAIAEAQ   80 (325)
T ss_pred             chHHHHHHHHHHHHHhCCcceEECccc-cccCCceecCCCHHHHHHhcCCCccCCeEEEEECCCCCCHHHHHHHHHHHHH
Confidence            456899999999999999999988764 3457889999999999999889999999999999999999999999999999


Q ss_pred             hcCCeEEEEecCCCCCHHHHHHcCCCccceeEeCCCCHHHHHHHHHHHhhcCCccEEEEcCccccccccccCCCcCCCCc
Q 024705          146 KLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYS  225 (264)
Q Consensus       146 ~~g~~v~~~~~e~~~~~~~~~~~g~~~~~l~~~~~~~~ee~~~~i~~~~~~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~  225 (264)
                      ..|++|+|+++|+..++.+++.+|++.+++.+.++.+.++.++.+..++++..+++|||||+.++.++.+++++.++...
T Consensus        81 ~~g~~~vyId~E~~~~~~~a~~lGvd~~~l~v~~p~~~eq~l~i~~~li~s~~~~lIVIDSvaal~~~~E~~~~~~~~~~  160 (325)
T cd00983          81 KLGGTVAFIDAEHALDPVYAKKLGVDLDNLLISQPDTGEQALEIADSLVRSGAVDLIVVDSVAALVPKAEIEGEMGDSHV  160 (325)
T ss_pred             HcCCCEEEECccccHHHHHHHHcCCCHHHheecCCCCHHHHHHHHHHHHhccCCCEEEEcchHhhcccccccccccccch
Confidence            99999999999999999999999999999999999999999999999988899999999999999987788887777777


Q ss_pred             HHHHHHHHHHHHHHHHHHhccCcEEEEEcccchHhhh
Q 024705          226 DAQSRIMTQALRKIHYSLCQSHTLIIFLNQVKVLLLK  262 (264)
Q Consensus       226 ~~q~r~i~~~L~~l~~~l~~~g~tVi~i~h~~~~~~~  262 (264)
                      +.|++.+++.|++|...++++|+++|++||++.++..
T Consensus       161 ~~qaR~l~~~Lr~L~~~~~k~~~~vI~tNQvr~~ig~  197 (325)
T cd00983         161 GLQARLMSQALRKLTGSINKSNTTVIFINQLREKIGV  197 (325)
T ss_pred             HHHHHHHHHHHHHHHHHHHhCCCEEEEEEcccccccc
Confidence            7888989999999999999999999999999987753

RecA couples ATP hydrolysis to DNA strand exchange.

>TIGR02012 tigrfam_recA protein RecA

Probab=100.00  E-value=7e-34  Score=250.42  Aligned_cols=195  Identities=52%  Similarity=0.799  Sum_probs=178.7

Q ss_pred             HHHHHHHHHHHHHHhcCCccccccccccCCCCCCccccCcHHHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHHh
Q 024705           66 KDNALRLALSQLANDFGKESMLSLKRFFGSRRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQ  145 (264)
Q Consensus        66 ~~~~l~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~i~tG~~~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~  145 (264)
                      +.+.|+.++.+++++||++..+++... .....+.+|||++.||.+||+||+++|++++|+||||+|||||+++++.+++
T Consensus         2 ~~~~~~~~~~~~~~~~g~~~~~~~~~~-~~~~~~~i~TGi~~LD~~Lg~GGlp~G~iteI~G~~GsGKTtLaL~~~~~~~   80 (321)
T TIGR02012         2 KQKALEAALAQIEKQFGKGSIMRLGEK-SVMDVETISTGSLSLDLALGVGGLPRGRIIEIYGPESSGKTTLALHAIAEAQ   80 (321)
T ss_pred             hHHHHHHHHHHHHHHcCcceeEECccc-ccccCceecCCCHHHHHHhcCCCCcCCeEEEEECCCCCCHHHHHHHHHHHHH
Confidence            456899999999999999999888753 2457889999999999999878999999999999999999999999999999


Q ss_pred             hcCCeEEEEecCCCCCHHHHHHcCCCccceeEeCCCCHHHHHHHHHHHhhcCCccEEEEcCccccccccccCCCcCCCCc
Q 024705          146 KLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYS  225 (264)
Q Consensus       146 ~~g~~v~~~~~e~~~~~~~~~~~g~~~~~l~~~~~~~~ee~~~~i~~~~~~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~  225 (264)
                      ..|++|+||++|+..++.+++++|++.+++.+.++.+.++.++.+..++++..+++|||||++++.++.+++++.++...
T Consensus        81 ~~g~~v~yId~E~~~~~~~a~~lGvd~~~l~v~~p~~~eq~l~~~~~li~~~~~~lIVIDSv~al~~~~E~e~~~g~~~~  160 (321)
T TIGR02012        81 KAGGTAAFIDAEHALDPVYARKLGVDIDNLLVSQPDTGEQALEIAETLVRSGAVDIIVVDSVAALVPKAEIEGEMGDSHV  160 (321)
T ss_pred             HcCCcEEEEcccchhHHHHHHHcCCCHHHeEEecCCCHHHHHHHHHHHhhccCCcEEEEcchhhhccchhhcccccccch
Confidence            99999999999999999999999999999999999999999999998888889999999999999987788887777667


Q ss_pred             HHHHHHHHHHHHHHHHHHhccCcEEEEEcccchHhh
Q 024705          226 DAQSRIMTQALRKIHYSLCQSHTLIIFLNQVKVLLL  261 (264)
Q Consensus       226 ~~q~r~i~~~L~~l~~~l~~~g~tVi~i~h~~~~~~  261 (264)
                      +.++|.+++.|++|...++++|+++|++||++.++.
T Consensus       161 ~~~aR~m~~~lr~L~~~l~~~~~tvi~tNQvr~~~g  196 (321)
T TIGR02012       161 GLQARLMSQALRKLTGALSKSNTTAIFINQIREKIG  196 (321)
T ss_pred             hHHHHHHHHHHHHHHHHHHhCCCEEEEEecceeccC
Confidence            788888889999999999999999999999988754

This model describes orthologs of the recA protein. RecA promotes hybridization of homolgous regions of DNA. A segment of ssDNA can be hybridized to another ssDNA region, or to a dsDNA region. ATP is hydrolyzed in the process. Part of the SOS respones, it is regulated by LexA via autocatalytic cleavage.

>PF00154 RecA: recA bacterial DNA recombination protein; InterPro: IPR013765 The recA gene product is a multifunctional enzyme that plays a role in homologous recombination, DNA repair and induction of the SOS response []

Probab=100.00  E-value=4.5e-33  Score=244.63  Aligned_cols=196  Identities=53%  Similarity=0.781  Sum_probs=168.8

Q ss_pred             HHHHHHHHHHHHhcCCccccccccccCCCCCCccccCcHHHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHHhhc
Q 024705           68 NALRLALSQLANDFGKESMLSLKRFFGSRRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKL  147 (264)
Q Consensus        68 ~~l~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~i~tG~~~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~  147 (264)
                      +.|+.++++++++||++..+++.+.......+.+|||++.||.+||.||+|+|.+++|+||+++|||||++.++.++++.
T Consensus         1 ~~l~~~~~~i~k~~g~~~i~~lg~~~~~~~~~~i~TG~~~LD~aLg~GG~p~G~ivEi~G~~ssGKttLaL~~ia~~q~~   80 (322)
T PF00154_consen    1 KALEKALKQIEKKFGKGSIMRLGDNAESQNIEVISTGSPALDYALGIGGLPRGRIVEIYGPESSGKTTLALHAIAEAQKQ   80 (322)
T ss_dssp             HHHHHHHHHHHHHHTTTSSEETTS-C-GCSS-EE--S-HHHHHHTSSSSEETTSEEEEEESTTSSHHHHHHHHHHHHHHT
T ss_pred             ChHHHHHHHHHHHhCCCceeecCCcccccccceEecCCcccchhhccCccccCceEEEeCCCCCchhhhHHHHHHhhhcc
Confidence            36888999999999999999887655456789999999999999988999999999999999999999999999999999


Q ss_pred             CCeEEEEecCCCCCHHHHHHcCCCccceeEeCCCCHHHHHHHHHHHhhcCCccEEEEcCccccccccccCCCcCCCCcHH
Q 024705          148 GGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDA  227 (264)
Q Consensus       148 g~~v~~~~~e~~~~~~~~~~~g~~~~~l~~~~~~~~ee~~~~i~~~~~~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~  227 (264)
                      ++.|+|++.|....+.+++.+|++++++.+.+|++.++.++.++.+++++.+++|||||+.++.|+.+++++.++...+.
T Consensus        81 g~~~a~ID~e~~ld~~~a~~lGvdl~rllv~~P~~~E~al~~~e~lirsg~~~lVVvDSv~al~p~~E~e~~~~~~~~g~  160 (322)
T PF00154_consen   81 GGICAFIDAEHALDPEYAESLGVDLDRLLVVQPDTGEQALWIAEQLIRSGAVDLVVVDSVAALVPKAELEGEIGDQQVGL  160 (322)
T ss_dssp             T-EEEEEESSS---HHHHHHTT--GGGEEEEE-SSHHHHHHHHHHHHHTTSESEEEEE-CTT-B-HHHHTTSTSSTSSSH
T ss_pred             cceeEEecCcccchhhHHHhcCccccceEEecCCcHHHHHHHHHHHhhcccccEEEEecCcccCCHHHHhhccccccCcc
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999998888899


Q ss_pred             HHHHHHHHHHHHHHHHhccCcEEEEEcccchHhhhc
Q 024705          228 QSRIMTQALRKIHYSLCQSHTLIIFLNQVKVLLLKH  263 (264)
Q Consensus       228 q~r~i~~~L~~l~~~l~~~g~tVi~i~h~~~~~~~~  263 (264)
                      ++|.+++.++++...+.+.|+++|+|||+++++...
T Consensus       161 ~Ar~ms~~lr~lt~~l~~~~~~~i~INQ~R~~ig~~  196 (322)
T PF00154_consen  161 QARLMSQALRKLTPLLSKSNTTLIFINQVRDKIGVM  196 (322)
T ss_dssp             HHHHHHHHHHHHHHHHHTTT-EEEEEEEESSSSSSS
T ss_pred             hHHHHHHHHHHHHHHHHhhceEEEEeehHHHHHhhc
Confidence            999999999999999999999999999999988654

In homologous recombination, the protein functions as a DNA-dependent ATPase, promoting synapsis, heteroduplex formation and strand exchange between homologous DNAs []. RecA also acts as a protease cofactor that promotes autodigestion of the lexA product and phage repressors. The proteolytic inactivation of the lexA repressor by an activated form of recA may cause a derepression of the 20 or so genes involved in the SOS response, which regulates DNA repair, induced mutagenesis, delayed cell division and prophage induction in response to DNA damage []. RecA is a protein of about 350 amino-acid residues. Its sequence is very well conserved [, , ] among eubacterial species. It is also found in the chloroplast of plants []. RecA-like proteins are found in archaea and diverse eukaryotic organisms, like fission yeast, mouse or human. In the filament visualised by X-ray crystallography, beta-strand 3, the loop C-terminal to beta-strand 2, and alpha-helix D of the core domain form one surface that packs against alpha-helix A and beta-strand 0 (the N-terminal domain) of an adjacent monomer during polymerisation []. The core ATP-binding site domain is well conserved, with 14 invariant residues. It contains the nucleotide binding loop between beta-strand 1 and alpha-helix C. The Escherichia coli sequence GPESSGKT matches the consensus sequence of amino acids (G/A)XXXXGK(T/S) for the Walker A box (also referred to as the P-loop) found in a number of nucleoside triphosphate (NTP)-binding proteins. Another nucleotide binding motif, the Walker B box is found at beta-strand 4 in the RecA structure. The Walker B box is characterised by four hydrophobic amino acids followed by an acidic residue (usually aspartate). Nucleotide specificity and additional ATP binding interactions are contributed by the amino acid residues at beta-strand 2 and the loop C-terminal to that strand, all of which are greater than 90% conserved among bacterial RecA proteins.; GO: 0003697 single-stranded DNA binding, 0005524 ATP binding, 0006281 DNA repair; PDB: 2IN0_A 1MO3_A 3IFJ_A 2IN8_A 2IMZ_B 1G18_A 1MO4_A 3IGD_A 2L8L_A 2IN9_A ....

>PRK09519 recA DNA recombination protein RecA; Reviewed

Probab=99.97  E-value=6.7e-30  Score=245.72  Aligned_cols=197  Identities=45%  Similarity=0.751  Sum_probs=179.1

Q ss_pred             HHHHHHHHHHHHHHHhcCCccccccccccCCCCCCccccCcHHHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHH
Q 024705           65 QKDNALRLALSQLANDFGKESMLSLKRFFGSRRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEA  144 (264)
Q Consensus        65 ~~~~~l~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~i~tG~~~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~  144 (264)
                      ++.+.|..++.++++.||++..+.+.+.. ......++||+++||.+||+||+++|++++|+||+|+|||||+++++.++
T Consensus         6 ~~~~~~~~~~~~~~~~~g~~~~~~l~~~~-~~~v~~isTGi~~LD~lLg~GGip~GsiteI~G~~GsGKTtLal~~~~~a   84 (790)
T PRK09519          6 DREKALELAVAQIEKSYGKGSVMRLGDEA-RQPISVIPTGSIALDVALGIGGLPRGRVIEIYGPESSGKTTVALHAVANA   84 (790)
T ss_pred             HHHHHHHHHHHHHHHHhccchhccccccc-ccCCceecCCcHHHHHhhcCCCccCCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            46778999999999999999998887644 35678999999999999976899999999999999999999999999999


Q ss_pred             hhcCCeEEEEecCCCCCHHHHHHcCCCccceeEeCCCCHHHHHHHHHHHhhcCCccEEEEcCccccccccccCCCcCCCC
Q 024705          145 QKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMY  224 (264)
Q Consensus       145 ~~~g~~v~~~~~e~~~~~~~~~~~g~~~~~l~~~~~~~~ee~~~~i~~~~~~~~~~~vvIDsl~~~~~~~~~~~~~~~~~  224 (264)
                      +..|++|+|+++|+...+.+++++|++++++.+.++.+.++++..+..++++.++++|||||+++++++.++++..++..
T Consensus        85 ~~~G~~v~yId~E~t~~~~~A~~lGvDl~~llv~~~~~~E~~l~~i~~lv~~~~~~LVVIDSI~aL~~r~E~~g~~g~~~  164 (790)
T PRK09519         85 QAAGGVAAFIDAEHALDPDYAKKLGVDTDSLLVSQPDTGEQALEIADMLIRSGALDIVVIDSVAALVPRAELEGEMGDSH  164 (790)
T ss_pred             HHcCCcEEEECCccchhHHHHHHcCCChhHeEEecCCCHHHHHHHHHHHhhcCCCeEEEEcchhhhcchhhccCCCCccc
Confidence            99999999999999999999999999999999999999999999999988888999999999999998788888766555


Q ss_pred             cHHHHHHHHHHHHHHHHHHhccCcEEEEEcccchHhhh
Q 024705          225 SDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVKVLLLK  262 (264)
Q Consensus       225 ~~~q~r~i~~~L~~l~~~l~~~g~tVi~i~h~~~~~~~  262 (264)
                      .+.|++.+++.|++|.+.++++|+++|++||++.++..
T Consensus       165 ~~~q~rl~~q~L~~L~~~l~~~nvtvi~TNQv~~~~g~  202 (790)
T PRK09519        165 VGLQARLMSQALRKMTGALNNSGTTAIFINQLRDKIGV  202 (790)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhCCCEEEEEecceecCCC
Confidence            67788888899999999999999999999999987753

>COG0468 RecA RecA/RadA recombinase [DNA replication, recombination, and repair]

Probab=99.96  E-value=9.1e-28  Score=207.45  Aligned_cols=192  Identities=47%  Similarity=0.693  Sum_probs=165.2

Q ss_pred             HHHHHHHHHHHHHhcCCccccccccccCCCCCCccccCcHHHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHHhh
Q 024705           67 DNALRLALSQLANDFGKESMLSLKRFFGSRRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQK  146 (264)
Q Consensus        67 ~~~l~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~i~tG~~~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~  146 (264)
                      ...+...+.+....++....+......+......++||+..||.+|| ||+++|.++.|+||+||||||+|++++.+++.
T Consensus         8 ~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~TGs~~LD~~LG-GGl~~g~ItEiyG~~gsGKT~lal~~~~~aq~   86 (279)
T COG0468           8 EKALEAALAQIEKAFGKGSIMALGGDERREDIEAISTGSLALDEALG-GGLPRGRITEIYGPESSGKTTLALQLVANAQK   86 (279)
T ss_pred             hhHHHHHHHHHHHhhcccchhhhhHHHHhhccccccccchhHHHHhc-CCcccceEEEEecCCCcchhhHHHHHHHHhhc
Confidence            34455566677777777666554322223568999999999999999 99999999999999999999999999999999


Q ss_pred             cCCeEEEEecCCCCCHHHHHHcCCC-ccceeEeCCCCHHHHHHHHHHHhhcCC--ccEEEEcCccccccccccCCCcCCC
Q 024705          147 LGGYCAYLDVENALDPSLAEAMGID-AENLLIAQPDSAENLLSVVDTLTKSGS--IDVIVVDSVAALIPKCEIGVPINGM  223 (264)
Q Consensus       147 ~g~~v~~~~~e~~~~~~~~~~~g~~-~~~l~~~~~~~~ee~~~~i~~~~~~~~--~~~vvIDsl~~~~~~~~~~~~~~~~  223 (264)
                      .|++++|+++|..+++.+++.++.+ .+++.+.++.+.++...++..+.....  ++++||||++++++....+    +.
T Consensus        87 ~g~~a~fIDtE~~l~p~r~~~l~~~~~d~l~v~~~~~~e~q~~i~~~~~~~~~~~i~LvVVDSvaa~~r~~~~~----d~  162 (279)
T COG0468          87 PGGKAAFIDTEHALDPERAKQLGVDLLDNLLVSQPDTGEQQLEIAEKLARSGAEKIDLLVVDSVAALVRAEEIE----DG  162 (279)
T ss_pred             CCCeEEEEeCCCCCCHHHHHHHHHhhhcceeEecCCCHHHHHHHHHHHHHhccCCCCEEEEecCcccchhhhcC----cc
Confidence            9999999999999999999999999 999999999999999998888876666  9999999999999744333    34


Q ss_pred             CcHHHHHHHHHHHHHHHHHHhccCcEEEEEcccchHhhhc
Q 024705          224 YSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVKVLLLKH  263 (264)
Q Consensus       224 ~~~~q~r~i~~~L~~l~~~l~~~g~tVi~i~h~~~~~~~~  263 (264)
                      ..+.+++.+++.++.|...++++|++||++||++.+.+..
T Consensus       163 ~~~~~~r~ls~~l~~L~~~a~~~~~~vi~~NQv~~k~~~~  202 (279)
T COG0468         163 HLGLRARLLSKALRKLTRLANKYNTAVIFTNQVRAKIGVM  202 (279)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHcCcEEEEECceeeecCcc
Confidence            5568889999999999999999999999999999887654

>TIGR02238 recomb_DMC1 meiotic recombinase Dmc1

Probab=99.94  E-value=2.1e-25  Score=197.28  Aligned_cols=161  Identities=28%  Similarity=0.397  Sum_probs=127.3

Q ss_pred             CCCCccccCcHHHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHHhh------cCCeEEEEecCCCCCHH----HH
Q 024705           96 RRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQK------LGGYCAYLDVENALDPS----LA  165 (264)
Q Consensus        96 ~~~~~i~tG~~~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~------~g~~v~~~~~e~~~~~~----~~  165 (264)
                      .....++||+++||.+|| ||+++|++++|+||||+|||+|+++++.+++.      .+++|+|+++|+++...    ++
T Consensus        73 ~~~~~isTG~~~LD~lLg-GGi~~G~iteI~G~~GsGKTql~lqla~~~~~~~~~gg~~~~vvYIdtE~~f~~eRi~~~a  151 (313)
T TIGR02238        73 KKVLKITTGSQALDGILG-GGIESMSITEVFGEFRCGKTQLSHTLCVTAQLPREMGGGNGKVAYIDTEGTFRPDRIRAIA  151 (313)
T ss_pred             ccCceeCCCCHHHHHHhC-CCCcCCeEEEEECCCCCCcCHHHHHHHHHHhcchhhcCCCCeEEEEEcCCCCCHHHHHHHH
Confidence            346789999999999999 99999999999999999999999999987653      36799999999987763    56


Q ss_pred             HHcCCCcc----ceeEeCCCCHHHHHHHHHH---HhhcCCccEEEEcCccccccccccCCCcCCCCcHHHHHHHHHHHHH
Q 024705          166 EAMGIDAE----NLLIAQPDSAENLLSVVDT---LTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRK  238 (264)
Q Consensus       166 ~~~g~~~~----~l~~~~~~~~ee~~~~i~~---~~~~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r~i~~~L~~  238 (264)
                      +++|++++    ++.+.+..+.++..+.+..   .+...++++|||||+++++. .++.+.. + .. .+++.+.+.+..
T Consensus       152 ~~~g~d~~~~l~~i~~~~~~~~e~~~~~l~~l~~~i~~~~~~LvVIDSisal~r-~~~~~~g-~-~~-~r~~~l~~~~~~  227 (313)
T TIGR02238       152 ERFGVDPDAVLDNILYARAYTSEHQMELLDYLAAKFSEEPFRLLIVDSIMALFR-VDFSGRG-E-LS-ERQQKLAQMLSR  227 (313)
T ss_pred             HHcCCChHHhcCcEEEecCCCHHHHHHHHHHHHHHhhccCCCEEEEEcchHhhh-hhccCcc-c-hH-HHHHHHHHHHHH
Confidence            77888754    6778888888877766554   34556899999999999984 4554321 1 11 223336667777


Q ss_pred             HHHHHhccCcEEEEEcccchHhh
Q 024705          239 IHYSLCQSHTLIIFLNQVKVLLL  261 (264)
Q Consensus       239 l~~~l~~~g~tVi~i~h~~~~~~  261 (264)
                      |.+.++++|++||++||++.+.+
T Consensus       228 L~~la~~~~vavvitNqv~~~~~  250 (313)
T TIGR02238       228 LNKISEEFNVAVFVTNQVQADPG  250 (313)
T ss_pred             HHHHHHHcCcEEEEECceEecCC
Confidence            77778999999999999998754

This model describes DMC1, a subfamily of a larger family of DNA repair and recombination proteins. It is eukaryotic only and most closely related to eukaryotic RAD51. It also resembles archaeal RadA (TIGR02236) and RadB (TIGR02237) and bacterial RecA (TIGR02012). It has been characterized for human as a recombinase active only in meiosis.

>COG1066 Sms Predicted ATP-dependent serine protease [Posttranslational modification, protein turnover, chaperones]

Probab=99.93  E-value=2.4e-25  Score=197.30  Aligned_cols=151  Identities=28%  Similarity=0.428  Sum_probs=139.6

Q ss_pred             CCCCccccCcHHHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCH--HHHHHcCCCcc
Q 024705           96 RRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP--SLAEAMGIDAE  173 (264)
Q Consensus        96 ~~~~~i~tG~~~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~--~~~~~~g~~~~  173 (264)
                      .+.++++||+.+||+.|| ||+-+|++++|.|.||.|||||+++++..++.++ +|+|++.|++..+  .|++++|++.+
T Consensus        70 ~~~~Ri~tg~~EldRVLG-GG~V~Gs~iLIgGdPGIGKSTLLLQva~~lA~~~-~vLYVsGEES~~QiklRA~RL~~~~~  147 (456)
T COG1066          70 EEEPRISTGIEELDRVLG-GGLVPGSVILIGGDPGIGKSTLLLQVAARLAKRG-KVLYVSGEESLQQIKLRADRLGLPTN  147 (456)
T ss_pred             eecccccCChHHHHhhhc-CCcccccEEEEccCCCCCHHHHHHHHHHHHHhcC-cEEEEeCCcCHHHHHHHHHHhCCCcc
Confidence            567899999999999999 9999999999999999999999999999999888 9999999999998  68999999999


Q ss_pred             ceeEeCCCCHHHHHHHHHHHhhcCCccEEEEcCccccccccccCCCcCCCCcHHHHHHHHHHHHHHHHHHhccCcEEEEE
Q 024705          174 NLLIAQPDSAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFL  253 (264)
Q Consensus       174 ~l~~~~~~~~ee~~~~i~~~~~~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r~i~~~L~~l~~~l~~~g~tVi~i  253 (264)
                      ++++....+.+++...+..    .+|+++||||++.++. +++++.+++.   .|+|+.+..|.+++   |..|++++++
T Consensus       148 ~l~l~aEt~~e~I~~~l~~----~~p~lvVIDSIQT~~s-~~~~SapGsV---sQVRe~t~~L~~~A---K~~~i~~fiV  216 (456)
T COG1066         148 NLYLLAETNLEDIIAELEQ----EKPDLVVIDSIQTLYS-EEITSAPGSV---SQVREVAAELMRLA---KTKNIAIFIV  216 (456)
T ss_pred             ceEEehhcCHHHHHHHHHh----cCCCEEEEeccceeec-ccccCCCCcH---HHHHHHHHHHHHHH---HHcCCeEEEE
Confidence            9999999999999888876    5999999999999995 6778878776   89999999998888   9999999999


Q ss_pred             cccchH
Q 024705          254 NQVKVL  259 (264)
Q Consensus       254 ~h~~~~  259 (264)
                      .|++++
T Consensus       217 GHVTKe  222 (456)
T COG1066         217 GHVTKE  222 (456)
T ss_pred             EEEccc
Confidence            999875

>PLN03187 meiotic recombination protein DMC1 homolog; Provisional

Probab=99.93  E-value=1e-24  Score=194.34  Aligned_cols=160  Identities=28%  Similarity=0.346  Sum_probs=126.7

Q ss_pred             CCCccccCcHHHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHHhh------cCCeEEEEecCCCCCHH----HHH
Q 024705           97 RGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQK------LGGYCAYLDVENALDPS----LAE  166 (264)
Q Consensus        97 ~~~~i~tG~~~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~------~g~~v~~~~~e~~~~~~----~~~  166 (264)
                      ...+++||+++||.+|| ||++.|++++|+|+||+|||+|+++++.+.+.      .+++++|+++|+++.+.    +++
T Consensus       104 ~~~~isTG~~~LD~lLg-GGi~~G~ItEI~G~~GsGKTql~lqlav~~qlp~~~gg~~~~vvyIdTE~tF~peRl~~ia~  182 (344)
T PLN03187        104 SVVRITTGSQALDELLG-GGIETRCITEAFGEFRSGKTQLAHTLCVTTQLPTEMGGGNGKVAYIDTEGTFRPDRIVPIAE  182 (344)
T ss_pred             cCceecCCcHhHHhhcC-CCCCCCeEEEEecCCCCChhHHHHHHHHHHhcchhhCCCCceEEEEEcCCCCCHHHHHHHHH
Confidence            56789999999999999 99999999999999999999999999987753      24799999999988773    566


Q ss_pred             HcCCCc----cceeEeCCCCHHHHHHHHHH---HhhcCCccEEEEcCccccccccccCCCcCCCCcHHHHHHHHHHHHHH
Q 024705          167 AMGIDA----ENLLIAQPDSAENLLSVVDT---LTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKI  239 (264)
Q Consensus       167 ~~g~~~----~~l~~~~~~~~ee~~~~i~~---~~~~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r~i~~~L~~l  239 (264)
                      ++|+++    +++.+.++.+.++....+..   .+...++++|||||+++++. .++.+..  ... ..++.+.+.+..|
T Consensus       183 ~~g~d~~~~l~~I~~~~~~~~e~~~~~l~~l~~~i~~~~~~LvVIDSital~r-~~~~~rg--~l~-~rq~~L~~~~~~L  258 (344)
T PLN03187        183 RFGMDADAVLDNIIYARAYTYEHQYNLLLGLAAKMAEEPFRLLIVDSVIALFR-VDFTGRG--ELA-ERQQKLAQMLSRL  258 (344)
T ss_pred             HcCCChhhhcCeEEEecCCCHHHHHHHHHHHHHHHHhcCCCEEEEeCcHHhhh-ccccCcc--chH-HHHHHHHHHHHHH
Confidence            788875    46788888888877665544   34557899999999999884 4544321  111 2334466777778


Q ss_pred             HHHHhccCcEEEEEcccchHhh
Q 024705          240 HYSLCQSHTLIIFLNQVKVLLL  261 (264)
Q Consensus       240 ~~~l~~~g~tVi~i~h~~~~~~  261 (264)
                      .+.++++|++||++||++.+.+
T Consensus       259 ~~lA~~~~vavvvTNqv~~~~~  280 (344)
T PLN03187        259 TKIAEEFNVAVYMTNQVIADPG  280 (344)
T ss_pred             HHHHHHcCCEEEEEecEEEcCC
Confidence            7788999999999999987653

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

Probab=99.91  E-value=1.5e-23  Score=177.76  Aligned_cols=156  Identities=43%  Similarity=0.632  Sum_probs=124.0

Q ss_pred             cccCcHHHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHHhhcC------CeEEEEecCCCCCHHH----HHHcCC
Q 024705          101 ISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLG------GYCAYLDVENALDPSL----AEAMGI  170 (264)
Q Consensus       101 i~tG~~~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g------~~v~~~~~e~~~~~~~----~~~~g~  170 (264)
                      ++||+++||.+++ ||+++|++++|.||||+|||+|+++++.+....+      .+|+|++.|......+    ++..+.
T Consensus         1 i~tG~~~lD~~l~-GG~~~g~v~~I~G~~GsGKT~l~~~ia~~~~~~~~~~g~~~~v~yi~~e~~~~~~rl~~~~~~~~~   79 (226)
T cd01393           1 ISTGSKALDELLG-GGIPTGRITEIFGEFGSGKTQLCLQLAVEAQLPGELGGLEGKVVYIDTEGAFRPERLVQLAVRFGL   79 (226)
T ss_pred             CCCCcHHHHHHhC-CCCcCCcEEEEeCCCCCChhHHHHHHHHHhhcccccCCCcceEEEEecCCCCCHHHHHHHHHHhcc
Confidence            5899999999999 9999999999999999999999999999988777      8999999998876633    333343


Q ss_pred             C----ccceeEeCCCCHHHHHHHHHHHhh---cCCccEEEEcCccccccccccCCCcCCCCcHHHHHHHHHHHHHHHHHH
Q 024705          171 D----AENLLIAQPDSAENLLSVVDTLTK---SGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSL  243 (264)
Q Consensus       171 ~----~~~l~~~~~~~~ee~~~~i~~~~~---~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r~i~~~L~~l~~~l  243 (264)
                      +    .+++.+....+.+++...+..+.+   ..++++|||||++.++.. +..+..   ....+.+.+.+.+..|...+
T Consensus        80 ~~~~~~~~i~~~~~~~~~~~~~~l~~~~~~~~~~~~~lvVIDsis~l~~~-~~~~~~---~~~~~~~~l~~~~~~L~~~a  155 (226)
T cd01393          80 DPEEVLDNIYVARPYNGEQQLEIVEELERIMSSGRVDLVVVDSVAALFRK-EFIGRG---MLAERARLLSQALRKLLRLA  155 (226)
T ss_pred             chhhhhccEEEEeCCCHHHHHHHHHHHHHHhhcCCeeEEEEcCcchhhhh-hhcCCc---hHHHHHHHHHHHHHHHHHHH
Confidence            3    457788888888888888877755   678999999999999852 222110   12344455667777777777


Q ss_pred             hccCcEEEEEcccchHhh
Q 024705          244 CQSHTLIIFLNQVKVLLL  261 (264)
Q Consensus       244 ~~~g~tVi~i~h~~~~~~  261 (264)
                      +++|++||++||+++..+
T Consensus       156 ~~~~~~vi~tnq~~~~~~  173 (226)
T cd01393         156 DKFNVAVVFTNQVRAKVD  173 (226)
T ss_pred             HHhCcEEEEEEEEeeecc
Confidence            999999999999987654

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

>PTZ00035 Rad51 protein; Provisional

Probab=99.91  E-value=3.2e-23  Score=185.27  Aligned_cols=161  Identities=25%  Similarity=0.368  Sum_probs=126.3

Q ss_pred             CCCCccccCcHHHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHHhh------cCCeEEEEecCCCCCHH----HH
Q 024705           96 RRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQK------LGGYCAYLDVENALDPS----LA  165 (264)
Q Consensus        96 ~~~~~i~tG~~~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~------~g~~v~~~~~e~~~~~~----~~  165 (264)
                      .....++||+++||.+|+ ||+++|++++|+||||+|||+|+++++.....      .+++++|+++|..+.+.    .+
T Consensus        95 ~~~~~isTG~~~LD~lLg-GGi~~G~iteI~G~~GsGKT~l~~~l~~~~qlp~~~gg~~g~vvyIdtE~~f~~eri~~ia  173 (337)
T PTZ00035         95 KNIIRITTGSTQLDKLLG-GGIETGSITELFGEFRTGKTQLCHTLCVTCQLPIEQGGGEGKVLYIDTEGTFRPERIVQIA  173 (337)
T ss_pred             ccCccccCCcHHHHHHhC-CCCCCCeEEEEECCCCCchhHHHHHHHHHhccccccCCCCceEEEEEccCCCCHHHHHHHH
Confidence            456789999999999999 99999999999999999999999999887762      56789999999987653    46


Q ss_pred             HHcCCCc----cceeEeCCCCHHHHHHHHHH---HhhcCCccEEEEcCccccccccccCCCcCCCCcHHHHHHHHHHHHH
Q 024705          166 EAMGIDA----ENLLIAQPDSAENLLSVVDT---LTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRK  238 (264)
Q Consensus       166 ~~~g~~~----~~l~~~~~~~~ee~~~~i~~---~~~~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r~i~~~L~~  238 (264)
                      +++|+++    +++.+.+..+.++....+..   .+...++++|||||+++++. .++.+..   ....+++.+.+.+..
T Consensus       174 ~~~g~~~~~~l~nI~~~~~~~~e~~~~~l~~~~~~l~~~~~~lvVIDSital~r-~~~~~~~---~~~~r~~~l~~~~~~  249 (337)
T PTZ00035        174 ERFGLDPEDVLDNIAYARAYNHEHQMQLLSQAAAKMAEERFALLIVDSATALFR-VDYSGRG---ELAERQQHLGKFLRA  249 (337)
T ss_pred             HHhCCChHhHhhceEEEccCCHHHHHHHHHHHHHHhhccCccEEEEECcHHhhh-hhccCcc---cHHHHHHHHHHHHHH
Confidence            6677775    56778888888877666543   33457899999999999873 4444321   111234446677777


Q ss_pred             HHHHHhccCcEEEEEcccchHhh
Q 024705          239 IHYSLCQSHTLIIFLNQVKVLLL  261 (264)
Q Consensus       239 l~~~l~~~g~tVi~i~h~~~~~~  261 (264)
                      |.+.++++|++||++||++.+.+
T Consensus       250 L~~la~~~~vavvvtNqv~~~~~  272 (337)
T PTZ00035        250 LQKLADEFNVAVVITNQVMADVD  272 (337)
T ss_pred             HHHHHHHcCcEEEEecceEEecC
Confidence            77777999999999999987653

>cd01121 Sms Sms (bacterial radA) DNA repair protein

Probab=99.91  E-value=1.9e-23  Score=188.72  Aligned_cols=152  Identities=28%  Similarity=0.403  Sum_probs=125.4

Q ss_pred             CCCCccccCcHHHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCH--HHHHHcCCCcc
Q 024705           96 RRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP--SLAEAMGIDAE  173 (264)
Q Consensus        96 ~~~~~i~tG~~~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~--~~~~~~g~~~~  173 (264)
                      ...++++||+++||++|| ||+++|++++|.|+||+|||||+++++...+..+++++|++.|++..+  .+++++|++.+
T Consensus        59 ~~~~ri~TGi~eLD~vLg-GGi~~GslvLI~G~pG~GKStLllq~a~~~a~~g~~VlYvs~EEs~~qi~~Ra~rlg~~~~  137 (372)
T cd01121          59 EEEERIPTGIEELDRVLG-GGLVPGSVILIGGDPGIGKSTLLLQVAARLAKRGGKVLYVSGEESPEQIKLRADRLGISTE  137 (372)
T ss_pred             cccCccccCCHHHHHhhc-CCccCCeEEEEEeCCCCCHHHHHHHHHHHHHhcCCeEEEEECCcCHHHHHHHHHHcCCCcc
Confidence            356789999999999999 999999999999999999999999999999988899999999988776  46788999999


Q ss_pred             ceeEeCCCCHHHHHHHHHHHhhcCCccEEEEcCccccccccccCCCcCCCCcHHHHHHHHHHHHHHHHHHhccCcEEEEE
Q 024705          174 NLLIAQPDSAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFL  253 (264)
Q Consensus       174 ~l~~~~~~~~ee~~~~i~~~~~~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r~i~~~L~~l~~~l~~~g~tVi~i  253 (264)
                      ++.+....+.+++.+.+.    ..+++++||||++.++. .+.++.++.   ..|.+.+...|.+++   ++.|++++++
T Consensus       138 ~l~l~~e~~le~I~~~i~----~~~~~lVVIDSIq~l~~-~~~~~~~g~---~~qvr~~~~~L~~la---k~~~itvilv  206 (372)
T cd01121         138 NLYLLAETNLEDILASIE----ELKPDLVIIDSIQTVYS-SELTSAPGS---VSQVRECTAELMRFA---KERNIPIFIV  206 (372)
T ss_pred             cEEEEccCcHHHHHHHHH----hcCCcEEEEcchHHhhc-cccccCCCC---HHHHHHHHHHHHHHH---HHcCCeEEEE
Confidence            998887777777766654    35899999999999874 343333332   256665555555555   9999999999


Q ss_pred             cccchH
Q 024705          254 NQVKVL  259 (264)
Q Consensus       254 ~h~~~~  259 (264)
                      +|++++
T Consensus       207 ghvtk~  212 (372)
T cd01121         207 GHVTKE  212 (372)
T ss_pred             eeccCC
Confidence            998764

This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of branched DNA molecules.

>PRK09361 radB DNA repair and recombination protein RadB; Provisional

Probab=99.91  E-value=2.2e-23  Score=176.98  Aligned_cols=156  Identities=28%  Similarity=0.385  Sum_probs=117.5

Q ss_pred             CccccCcHHHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCHHHHHHcCC-----Ccc
Q 024705           99 PVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGI-----DAE  173 (264)
Q Consensus        99 ~~i~tG~~~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~~~~~~~g~-----~~~  173 (264)
                      +.++||+++||.+++ ||+++|++++|+|+||+|||+|+++++.+.+..+++|+|+++| .....+...+.-     ..+
T Consensus         3 ~~i~tGi~~lD~~l~-GGi~~g~i~~i~G~~GsGKT~l~~~la~~~~~~~~~v~yi~~e-~~~~~r~~~~~~~~~~~~~~   80 (225)
T PRK09361          3 ERLPTGCKMLDELLG-GGFERGTITQIYGPPGSGKTNICLQLAVEAAKNGKKVIYIDTE-GLSPERFKQIAGEDFEELLS   80 (225)
T ss_pred             ccccCCcHHHHHHhc-CCCCCCeEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEECC-CCCHHHHHHHHhhChHhHhh
Confidence            478999999999999 9999999999999999999999999999999999999999999 444433322211     234


Q ss_pred             ceeEeCCCCHHHHHHHHHHH---hhcCCccEEEEcCccccccccccCCCcCCCCcHHHHHHHHHHHHHHHHHHhccCcEE
Q 024705          174 NLLIAQPDSAENLLSVVDTL---TKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLI  250 (264)
Q Consensus       174 ~l~~~~~~~~ee~~~~i~~~---~~~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r~i~~~L~~l~~~l~~~g~tV  250 (264)
                      ++.+.++.+.++....++.+   +. .+++++||||+.+++. .++.+..   ....+.+.+.+.+..|.+.++++|++|
T Consensus        81 ~~~~~~~~~~~~~~~~i~~~~~~~~-~~~~lvVIDsi~al~~-~~~~~~~---~~~~~~~~l~~~l~~L~~~a~~~~v~v  155 (225)
T PRK09361         81 NIIIFEPSSFEEQSEAIRKAEKLAK-ENVGLIVLDSATSLYR-LELEDEE---DNSKLNRELGRQLTHLLKLARKHDLAV  155 (225)
T ss_pred             CeEEEeCCCHHHHHHHHHHHHHHHH-hcccEEEEeCcHHHhH-HHhcCCc---cHHHHHHHHHHHHHHHHHHHHHhCCEE
Confidence            67777777776655444433   33 6899999999999874 3322211   112334556676777777779999999


Q ss_pred             EEEcccchHhh
Q 024705          251 IFLNQVKVLLL  261 (264)
Q Consensus       251 i~i~h~~~~~~  261 (264)
                      +++||+....+
T Consensus       156 i~tnq~~~~~~  166 (225)
T PRK09361        156 VITNQVYSDID  166 (225)
T ss_pred             EEEccceecCC
Confidence            99999886543

>TIGR00416 sms DNA repair protein RadA

Probab=99.91  E-value=1.4e-23  Score=194.41  Aligned_cols=152  Identities=25%  Similarity=0.309  Sum_probs=125.3

Q ss_pred             CCCCccccCcHHHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCH--HHHHHcCCCcc
Q 024705           96 RRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP--SLAEAMGIDAE  173 (264)
Q Consensus        96 ~~~~~i~tG~~~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~--~~~~~~g~~~~  173 (264)
                      .+.++++||+++||++|| ||+++|++++|.|+||+|||||+++++.++++.+++|+|++.|++..+  .+++++|++.+
T Consensus        71 ~~~~ri~TGi~~LD~vLg-GGi~~GsvilI~G~pGsGKTTL~lq~a~~~a~~g~kvlYvs~EEs~~qi~~ra~rlg~~~~  149 (454)
T TIGR00416        71 EEVPRFSSGFGELDRVLG-GGIVPGSLILIGGDPGIGKSTLLLQVACQLAKNQMKVLYVSGEESLQQIKMRAIRLGLPEP  149 (454)
T ss_pred             cccCccccCcHHHHHHhc-CCccCCeEEEEEcCCCCCHHHHHHHHHHHHHhcCCcEEEEECcCCHHHHHHHHHHcCCChH
Confidence            456789999999999999 999999999999999999999999999999988899999999998776  46778999999


Q ss_pred             ceeEeCCCCHHHHHHHHHHHhhcCCccEEEEcCccccccccccCCCcCCCCcHHHHHHHHHHHHHHHHHHhccCcEEEEE
Q 024705          174 NLLIAQPDSAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFL  253 (264)
Q Consensus       174 ~l~~~~~~~~ee~~~~i~~~~~~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r~i~~~L~~l~~~l~~~g~tVi~i  253 (264)
                      ++.+....+.+++...+.    ..+++++||||++.++. .+..+.+++   ..|.+.+...|.+++   ++.|+|++++
T Consensus       150 ~l~~~~e~~~~~I~~~i~----~~~~~~vVIDSIq~l~~-~~~~~~~g~---~~q~r~~~~~L~~~a---k~~giTvllt  218 (454)
T TIGR00416       150 NLYVLSETNWEQICANIE----EENPQACVIDSIQTLYS-PDISSAPGS---VSQVRECTAELMRLA---KTRGIAIFIV  218 (454)
T ss_pred             HeEEcCCCCHHHHHHHHH----hcCCcEEEEecchhhcc-cccccCCCC---HHHHHHHHHHHHHHH---HHhCCEEEEE
Confidence            998888777777666554    45899999999999874 343333332   256665555555555   9999999999


Q ss_pred             cccchH
Q 024705          254 NQVKVL  259 (264)
Q Consensus       254 ~h~~~~  259 (264)
                      +|+.++
T Consensus       219 ~hvtke  224 (454)
T TIGR00416       219 GHVTKE  224 (454)
T ss_pred             eccccC
Confidence            998764

The gene protuct codes for a probable ATP-dependent protease involved in both DNA repair and degradation of proteins, peptides, glycopeptides. Also known as sms. Residues 11-28 of the SEED alignment contain a putative Zn binding domain. Residues 110-117 of the seed contain a putative ATP binding site both documented in Haemophilus and in Listeria monocytogenes. for E.coli see ( J. BACTERIOL. 178:5045-5048(1996)).

>PLN03186 DNA repair protein RAD51 homolog; Provisional

Probab=99.91  E-value=3.7e-23  Score=184.60  Aligned_cols=161  Identities=27%  Similarity=0.355  Sum_probs=125.4

Q ss_pred             CCCCccccCcHHHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHHhh------cCCeEEEEecCCCCCHH----HH
Q 024705           96 RRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQK------LGGYCAYLDVENALDPS----LA  165 (264)
Q Consensus        96 ~~~~~i~tG~~~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~------~g~~v~~~~~e~~~~~~----~~  165 (264)
                      .....++||+++||.+|+ ||+++|++++|+|+||+|||+|+++++.++..      .+++|+|+++|+++.+.    .+
T Consensus       100 ~~~~~i~tG~~~LD~lL~-GG~~~g~i~~i~G~~g~GKT~l~~~l~~~~~~~~~~gg~~g~vlyIdtE~~f~~eRl~qia  178 (342)
T PLN03186        100 QEIIQITTGSRELDKILE-GGIETGSITEIYGEFRTGKTQLCHTLCVTCQLPLDQGGGEGKAMYIDTEGTFRPQRLIQIA  178 (342)
T ss_pred             cCcceeCCCCHHHHHhhc-CCCcCceEEEEECCCCCCccHHHHHHHHHhhcchhhCCCCceEEEEECCCCccHHHHHHHH
Confidence            356789999999999999 99999999999999999999999999987652      23589999999987764    46


Q ss_pred             HHcCCCc----cceeEeCCCCHHHHHHHHHH---HhhcCCccEEEEcCccccccccccCCCcCCCCcHHHHHHHHHHHHH
Q 024705          166 EAMGIDA----ENLLIAQPDSAENLLSVVDT---LTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRK  238 (264)
Q Consensus       166 ~~~g~~~----~~l~~~~~~~~ee~~~~i~~---~~~~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r~i~~~L~~  238 (264)
                      +++|+++    +++.+....+.+++...+..   .+...++++|||||+++++. .++.+.. + . ...++.+.+.++.
T Consensus       179 ~~~~~~~~~~l~~i~~~~~~~~e~~~~ll~~~~~~~~~~~~~LIVIDSI~alfr-~~~~~~g-~-l-~~r~~~L~~~l~~  254 (342)
T PLN03186        179 ERFGLNGADVLENVAYARAYNTDHQSELLLEAASMMAETRFALMIVDSATALYR-TEFSGRG-E-L-SARQMHLGKFLRS  254 (342)
T ss_pred             HHcCCChhhhccceEEEecCCHHHHHHHHHHHHHHhhccCCCEEEEeCcHHHHH-HHhcCCc-c-H-HHHHHHHHHHHHH
Confidence            6678876    46777777888877665543   34567899999999999884 4444321 1 1 1223346677777


Q ss_pred             HHHHHhccCcEEEEEcccchHhh
Q 024705          239 IHYSLCQSHTLIIFLNQVKVLLL  261 (264)
Q Consensus       239 l~~~l~~~g~tVi~i~h~~~~~~  261 (264)
                      |.+.++++|++||++||+..+.+
T Consensus       255 L~~lA~~~~vaVviTNqv~~~~~  277 (342)
T PLN03186        255 LQRLADEFGVAVVITNQVVAQVD  277 (342)
T ss_pred             HHHHHHHcCCEEEEEcCEEEccC
Confidence            77777999999999999987654

>PF08423 Rad51: Rad51; InterPro: IPR013632 This domain is found at the C terminus of the DNA repair and recombination protein Rad51

Probab=99.91  E-value=1.2e-23  Score=181.59  Aligned_cols=161  Identities=34%  Similarity=0.506  Sum_probs=120.0

Q ss_pred             CCCccccCcHHHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHHhh------cCCeEEEEecCCCCCHHH----HH
Q 024705           97 RGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQK------LGGYCAYLDVENALDPSL----AE  166 (264)
Q Consensus        97 ~~~~i~tG~~~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~------~g~~v~~~~~e~~~~~~~----~~  166 (264)
                      ....++||++.||.+|+ ||++.|.+++|+||||+|||.||++++.+++.      .+++|+||++|..+...|    ++
T Consensus        16 ~~~~i~Tg~~~lD~~L~-GGi~~g~itEi~G~~gsGKTql~l~l~~~~~l~~~~~g~~~~vvyidTe~~f~~~Rl~~i~~   94 (256)
T PF08423_consen   16 RWSRISTGCKSLDELLG-GGIPTGSITEIVGESGSGKTQLCLQLAVNVQLPEEIGGLGGKVVYIDTEGTFSPERLQQIAE   94 (256)
T ss_dssp             TS-EE--SSHHHHHHTT-SSEETTSEEEEEESTTSSHHHHHHHHHHHTTSGGCTTSSSSEEEEEESSSSS-HHHHHHHHH
T ss_pred             cCCeeCCCCHHHHHhhC-CCCCCCcEEEEEEecccccchHHHHHHHHhhcccccccCCCceEEEeCCCCCCHHHHHHHhh
Confidence            45679999999999999 99999999999999999999999999988763      367899999999988743    45


Q ss_pred             HcCCCc----cceeEeCCCCHHHHHHHHHHH---hhcCCccEEEEcCccccccccccCCCcCCCCcHHHHHHHHHHHHHH
Q 024705          167 AMGIDA----ENLLIAQPDSAENLLSVVDTL---TKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKI  239 (264)
Q Consensus       167 ~~g~~~----~~l~~~~~~~~ee~~~~i~~~---~~~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r~i~~~L~~l  239 (264)
                      +.+.+.    +++.+....+.+++...+..+   +...++++|||||+.+++. .++.+..   ......+.+.+.+..|
T Consensus        95 ~~~~~~~~~l~~I~v~~~~~~~~l~~~L~~l~~~l~~~~ikLIVIDSIaalfr-~e~~~~~---~~~~R~~~L~~~~~~L  170 (256)
T PF08423_consen   95 RFGLDPEEILDNIFVIRVFDLEELLELLEQLPKLLSESKIKLIVIDSIAALFR-SEFSGRG---DLAERQRMLARLARIL  170 (256)
T ss_dssp             HTTS-HHHHHHTEEEEE-SSHHHHHHHHHHHHHHHHHSCEEEEEEETSSHHHH-HHSGSTT---THHHHHHHHHHHHHHH
T ss_pred             ccccccchhhhceeeeecCCHHHHHHHHHHHHhhccccceEEEEecchHHHHH-HHHccch---hhHHHHHHHHHHHHHH
Confidence            556553    477788888888777666543   4457899999999999983 5554321   1123445566666667


Q ss_pred             HHHHhccCcEEEEEcccchHhhh
Q 024705          240 HYSLCQSHTLIIFLNQVKVLLLK  262 (264)
Q Consensus       240 ~~~l~~~g~tVi~i~h~~~~~~~  262 (264)
                      .+++++++++||++||+..+.+.
T Consensus       171 ~~lA~~~~iaVvvTNqv~~~~~~  193 (256)
T PF08423_consen  171 KRLARKYNIAVVVTNQVTTKIDS  193 (256)
T ss_dssp             HHHHHHTT-EEEEEEEECSSTT-
T ss_pred             HHHHHhCCceEEeeceeeecCCc
Confidence            77779999999999999977654

It is critical for DNA binding []. Rad51 is a homologue of the bacterial RecA protein. Rad51 and RecA share a core ATPase domain.; PDB: 2ZUC_A 2Z43_C 2ZUD_B 2DFL_A 2ZUB_A 2BKE_A 2KZ3_A 2CVH_B 2CVF_B 1SZP_D ....

>cd01394 radB RadB

Probab=99.90  E-value=5.2e-23  Score=173.78  Aligned_cols=154  Identities=25%  Similarity=0.413  Sum_probs=114.4

Q ss_pred             cccCcHHHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCHHHHHHcCC----Ccccee
Q 024705          101 ISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGI----DAENLL  176 (264)
Q Consensus       101 i~tG~~~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~~~~~~~g~----~~~~l~  176 (264)
                      ++||+++||.+++ ||+++|++++|+|+||+|||||+++++.+.+..|++|+|++.|........+..+.    ...++.
T Consensus         1 i~TGi~~LD~~l~-GGi~~g~i~~i~G~~GsGKT~l~~~~a~~~~~~g~~v~yi~~e~~~~~~~~~~~~~~~~~~~~~~~   79 (218)
T cd01394           1 LPTGCKGLDELLG-GGVERGTVTQVYGPPGTGKTNIAIQLAVETAGQGKKVAYIDTEGLSSERFRQIAGDRPERAASSII   79 (218)
T ss_pred             CCcchhHHHHHhc-CCccCCeEEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEECCCCCHHHHHHHHhHChHhhhcCEE
Confidence            5899999999999 99999999999999999999999999999998999999999987765422222221    234667


Q ss_pred             EeCCCCHHHHHHHH---HHHhhcCCccEEEEcCccccccccccCCCcCCCCcHHHHHHHHHHHHHHHHHHhccCcEEEEE
Q 024705          177 IAQPDSAENLLSVV---DTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFL  253 (264)
Q Consensus       177 ~~~~~~~ee~~~~i---~~~~~~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r~i~~~L~~l~~~l~~~g~tVi~i  253 (264)
                      +.++.+.++....+   ....+ .++++|||||++.++. .+..+...   ...+.+.+.+.+..|...++++|++||++
T Consensus        80 ~~~~~~~~~~~~~~~~~~~~~~-~~~~lvvIDsi~~l~~-~~~~~~~~---~~~~~~~l~~~~~~L~~~a~~~~~~vi~t  154 (218)
T cd01394          80 VFEPMDFNEQGRAIQETETFAD-EKVDLVVVDSATALYR-LELGDDDT---TIKNYRELAKQLTFLLWLARKHDVAVVIT  154 (218)
T ss_pred             EEeCCCHHHHHHHHHHHHHHHh-cCCcEEEEechHHhhh-HHhcCccc---hHHHHHHHHHHHHHHHHHHHHhCCEEEEe
Confidence            77776666555433   33333 3589999999999873 33322211   12344556666777777779999999999


Q ss_pred             cccchHh
Q 024705          254 NQVKVLL  260 (264)
Q Consensus       254 ~h~~~~~  260 (264)
                      ||+.+..
T Consensus       155 ~q~~~~~  161 (218)
T cd01394         155 NQVYSDV  161 (218)
T ss_pred             cCCEEcC
Confidence            9997644

The archaeal protein radB shares similarity radA, the archaeal functional homologue to the bacterial RecA. The precise function of radB is unclear.

>PRK11823 DNA repair protein RadA; Provisional

Probab=99.90  E-value=6.2e-23  Score=189.93  Aligned_cols=152  Identities=28%  Similarity=0.410  Sum_probs=124.8

Q ss_pred             CCCCccccCcHHHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCH--HHHHHcCCCcc
Q 024705           96 RRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP--SLAEAMGIDAE  173 (264)
Q Consensus        96 ~~~~~i~tG~~~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~--~~~~~~g~~~~  173 (264)
                      ...++++||+++||+++| ||+++|++++|.|+||+|||||+++++...+..+++|+|+++|++..+  .+++++|++.+
T Consensus        57 ~~~~ri~TGi~~LD~~Lg-GGi~~Gs~~lI~G~pG~GKTtL~lq~a~~~a~~g~~vlYvs~Ees~~qi~~ra~rlg~~~~  135 (446)
T PRK11823         57 EEEPRISTGIGELDRVLG-GGLVPGSVVLIGGDPGIGKSTLLLQVAARLAAAGGKVLYVSGEESASQIKLRAERLGLPSD  135 (446)
T ss_pred             ccCCcccCCcHHHHHHhc-CCccCCEEEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEEccccHHHHHHHHHHcCCChh
Confidence            456789999999999999 999999999999999999999999999999888999999999998877  46888999988


Q ss_pred             ceeEeCCCCHHHHHHHHHHHhhcCCccEEEEcCccccccccccCCCcCCCCcHHHHHHHHHHHHHHHHHHhccCcEEEEE
Q 024705          174 NLLIAQPDSAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFL  253 (264)
Q Consensus       174 ~l~~~~~~~~ee~~~~i~~~~~~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r~i~~~L~~l~~~l~~~g~tVi~i  253 (264)
                      ++.+....+.+++.+.++    ..++++|||||++.++. .++++.+++   ..|.+.+...|.+++   +++|++++++
T Consensus       136 ~l~~~~e~~l~~i~~~i~----~~~~~lVVIDSIq~l~~-~~~~~~~g~---~~qvr~~~~~L~~~a---k~~~itvilv  204 (446)
T PRK11823        136 NLYLLAETNLEAILATIE----EEKPDLVVIDSIQTMYS-PELESAPGS---VSQVRECAAELMRLA---KQRGIAVFLV  204 (446)
T ss_pred             cEEEeCCCCHHHHHHHHH----hhCCCEEEEechhhhcc-ccccCCCCC---HHHHHHHHHHHHHHH---HHcCCEEEEE
Confidence            888887777777666554    35899999999999884 444433332   256665555555554   9999999999


Q ss_pred             cccchH
Q 024705          254 NQVKVL  259 (264)
Q Consensus       254 ~h~~~~  259 (264)
                      +|++++
T Consensus       205 ~hvtk~  210 (446)
T PRK11823        205 GHVTKE  210 (446)
T ss_pred             eeccCC
Confidence            998753

>TIGR02655 circ_KaiC circadian clock protein KaiC

Probab=99.90  E-value=9.6e-24  Score=197.70  Aligned_cols=222  Identities=20%  Similarity=0.173  Sum_probs=157.6

Q ss_pred             ccccccccccccccccchhhHHHHHhhhhhcCCcccccCCCCCCCCCCcccchHHHHH---H-HHH------HHHHHHhc
Q 024705           12 SIAPRRFFSLFPSFSQNGRRDAITCIGMNIHSLSSAAEVPEFDDEPHDDAKIMQKDNA---L-RLA------LSQLANDF   81 (264)
Q Consensus        12 ~~~~~~~~~~~~~~~~~~r~~~~~l~~~~~~~~~t~~~~~~~~~~~~dd~~~~~~~~~---l-~~~------l~~l~~~~   81 (264)
                      .+||++.+...+......|+++.++..+++..++|+        ++.........+..   + +..      |++...  
T Consensus       125 vIDSl~aL~~~~~~~~~~r~~l~~Li~~L~~~g~Tv--------LLtsh~~~~~~~~~~~~~~e~laDgVI~L~~~~~--  194 (484)
T TIGR02655       125 SIDSVTAVFQQYDAVSVVRREIFRLVARLKQIGVTT--------VMTTERIEEYGPIARYGVEEFVSDNVVILRNVLE--  194 (484)
T ss_pred             EEeehhHhhhhcCchHHHHHHHHHHHHHHHHCCCEE--------EEEecCcccccccccCCceeEeeeeEEEEEEEec--
Confidence            688888876555555578999999999999999998        55443221100000   1 110      111100  


Q ss_pred             CCcc-c-ccccc---------------------cc--------CCCCCCccccCcHHHHHHhcCCCCCCCcEEEEEecCC
Q 024705           82 GKES-M-LSLKR---------------------FF--------GSRRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREA  130 (264)
Q Consensus        82 ~~~~-~-~~~~~---------------------~~--------~~~~~~~i~tG~~~LD~~l~~gGl~~G~~~~I~G~~G  130 (264)
                      +... + +++..                     .+        .......++||+++||++|| ||+++|++++|.||||
T Consensus       195 ~~~~~R~l~I~K~Rgs~~~~~~~~~~It~~Gi~v~p~~~~~~~~~~~~~~~~tGi~~lD~~lg-GG~~~gs~~li~G~~G  273 (484)
T TIGR02655       195 GERRRRTLEILKLRGTSHMKGEYPFTITDHGINIFPLGAMRLTQRSSNVRVSSGVVRLDEMCG-GGFFKDSIILATGATG  273 (484)
T ss_pred             CCEEEEEEEEEECCCCCcCCceEEEEEcCCcEEEEecccccccccccccccCCChHhHHHHhc-CCccCCcEEEEECCCC
Confidence            1101 1 11110                     00        01235579999999999999 9999999999999999


Q ss_pred             CChHHHHHHHHHHHhhcCCeEEEEecCCCCCH--HHHHHcCCCccc------eeEeCC----CCHHHHHHHHHHHhhcCC
Q 024705          131 SGKTTLALHVIKEAQKLGGYCAYLDVENALDP--SLAEAMGIDAEN------LLIAQP----DSAENLLSVVDTLTKSGS  198 (264)
Q Consensus       131 sGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~--~~~~~~g~~~~~------l~~~~~----~~~ee~~~~i~~~~~~~~  198 (264)
                      +|||||+.+++.+.+++|++|+|+++|++..+  .+++++|++.++      +.+...    ...++++..+.+.++..+
T Consensus       274 ~GKt~l~~~f~~~~~~~ge~~~y~s~eEs~~~i~~~~~~lg~~~~~~~~~g~l~~~~~~p~~~~~~~~~~~i~~~i~~~~  353 (484)
T TIGR02655       274 TGKTLLVSKFLENACANKERAILFAYEESRAQLLRNAYSWGIDFEEMEQQGLLKIICAYPESAGLEDHLQIIKSEIADFK  353 (484)
T ss_pred             CCHHHHHHHHHHHHHHCCCeEEEEEeeCCHHHHHHHHHHcCCChHHHhhCCcEEEEEcccccCChHHHHHHHHHHHHHcC
Confidence            99999999999999999999999999999988  578899998764      444332    345788888888888889


Q ss_pred             ccEEEEcCccccccccccCCCcCCCCcHHHHHHHHHHHHHHHHHHhccCcEEEEEcccc
Q 024705          199 IDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVK  257 (264)
Q Consensus       199 ~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r~i~~~L~~l~~~l~~~g~tVi~i~h~~  257 (264)
                      +++|||||++.+...  +        ...+.+   ..+.+|...+|+.|+|+++++...
T Consensus       354 ~~~vvIDsi~~~~~~--~--------~~~~~r---~~~~~l~~~lk~~~it~~~t~~~~  399 (484)
T TIGR02655       354 PARIAIDSLSALARG--V--------SNNAFR---QFVIGVTGYAKQEEITGFFTNTSD  399 (484)
T ss_pred             CCEEEEcCHHHHHHh--c--------CHHHHH---HHHHHHHHHHhhCCCeEEEeeccc
Confidence            999999999998731  2        113333   345666667799999999997654

Members of this family are the circadian clock protein KaiC, part of the kaiABC operon that controls circadian rhythm. It may be universal in Cyanobacteria. Each member has two copies of the KaiC domain (Pfam model pfam06745), which is also found in other proteins. KaiC performs autophosphorylation and acts as its own transcriptional repressor.

>TIGR03877 thermo_KaiC_1 KaiC domain protein, Ph0284 family

Probab=99.89  E-value=1.6e-22  Score=173.08  Aligned_cols=145  Identities=23%  Similarity=0.348  Sum_probs=114.7

Q ss_pred             CccccCcHHHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCH--HHHHHcCCCcc---
Q 024705           99 PVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP--SLAEAMGIDAE---  173 (264)
Q Consensus        99 ~~i~tG~~~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~--~~~~~~g~~~~---  173 (264)
                      ++++||++.||++++ ||+++|++++|+||||+|||+|+.+++.+.+.+|++++|+++|++..+  .+++.+|++.+   
T Consensus         1 ~ri~tGi~~LD~~l~-GG~~~gs~~lI~G~pGsGKT~la~~~l~~~~~~ge~~lyvs~ee~~~~i~~~~~~~g~~~~~~~   79 (237)
T TIGR03877         1 KRVKTGIPGMDEILH-GGIPERNVVLLSGGPGTGKSIFSQQFLWNGLQMGEPGIYVALEEHPVQVRRNMAQFGWDVRKYE   79 (237)
T ss_pred             CccccCcHhHHHHhc-CCCcCCeEEEEEcCCCCCHHHHHHHHHHHHHHcCCcEEEEEeeCCHHHHHHHHHHhCCCHHHHh
Confidence            358999999999999 999999999999999999999999999988888999999999998776  45667787653   


Q ss_pred             ---ceeEe-------------------CCCCHHHHHHHHHHHhhcCCccEEEEcCccccccccccCCCcCCCCcHHHHHH
Q 024705          174 ---NLLIA-------------------QPDSAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRI  231 (264)
Q Consensus       174 ---~l~~~-------------------~~~~~ee~~~~i~~~~~~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r~  231 (264)
                         ++.+.                   .+.+.+++...+...++..+++++||||++.++...           ....+ 
T Consensus        80 ~~g~l~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~vVIDSls~l~~~~-----------~~~~r-  147 (237)
T TIGR03877        80 EEGKFAIVDAFTGGIGEAAEREKYVVKDPTDVRELIDVLRQAIRDINAKRVVIDSVTTLYITK-----------PAMAR-  147 (237)
T ss_pred             hcCCEEEEeccccccccccccccccccCcccHHHHHHHHHHHHHHhCCCEEEEcChhHhhcCC-----------hHHHH-
Confidence               22222                   234567788888888777889999999999876310           12222 


Q ss_pred             HHHHHHHHHHHHhccCcEEEEEcccch
Q 024705          232 MTQALRKIHYSLCQSHTLIIFLNQVKV  258 (264)
Q Consensus       232 i~~~L~~l~~~l~~~g~tVi~i~h~~~  258 (264)
                        +.+.++.+.+++.|+|+++++|...
T Consensus       148 --~~l~~l~~~lk~~~~t~llt~~~~~  172 (237)
T TIGR03877       148 --SIVMQLKRVLSGLGCTSIFVSQVSV  172 (237)
T ss_pred             --HHHHHHHHHHHhCCCEEEEEECccc
Confidence              3455566666899999999998753

Members of this family contain a single copy of the KaiC domain (pfam06745) that occurs in two copies of the circadian clock protein kinase KaiC itself. Members occur primarily in thermophilic archaea and in Thermotoga.

>TIGR03878 thermo_KaiC_2 KaiC domain protein, AF_0795 family

Probab=99.89  E-value=3.2e-22  Score=173.22  Aligned_cols=144  Identities=22%  Similarity=0.348  Sum_probs=112.5

Q ss_pred             ccccCcHHHHHHh--------------cCCCCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCH---
Q 024705          100 VISTGSLKLDLAL--------------GIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP---  162 (264)
Q Consensus       100 ~i~tG~~~LD~~l--------------~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~---  162 (264)
                      +++||++.||+++              + ||+++|++++|+|+||+|||+|+.+++.+.+.+|++++|+++|++...   
T Consensus         3 ~~~tGi~glD~~l~~~~~~~~~~~~~~~-GGip~gs~~lI~G~pGtGKT~l~~qf~~~~a~~Ge~vlyis~Ee~~~~~~~   81 (259)
T TIGR03878         3 GVPTGVEGLDELFFKVEIEEGKIVRKPL-GGIPAYSVINITGVSDTGKSLMVEQFAVTQASRGNPVLFVTVESPANFVYT   81 (259)
T ss_pred             CccCCchhHHHhhccccccccccccccC-CCeECCcEEEEEcCCCCCHHHHHHHHHHHHHhCCCcEEEEEecCCchHHHH
Confidence            5799999999999              6 899999999999999999999999999998888999999999976542   


Q ss_pred             ---HHHHHcCCCcc----ceeEeCCC-------CHHHHHHHHHHHhhcCCccEEEEcCccccccccccCCCcCCCCcHHH
Q 024705          163 ---SLAEAMGIDAE----NLLIAQPD-------SAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQ  228 (264)
Q Consensus       163 ---~~~~~~g~~~~----~l~~~~~~-------~~ee~~~~i~~~~~~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q  228 (264)
                         .++..+|++.+    ++.+.++.       +.+++...+...++..+++++||||++.+....           ..+
T Consensus        82 ~l~~~a~~~g~d~~~~~~~l~~id~~~~~~~~~~~~~l~~~l~~~i~~~~~~~vVIDSls~l~~~~-----------~~~  150 (259)
T TIGR03878        82 SLKERAKAMGVDFDKIEENIILIDAASSTELRENVPNLLATLAYAIKEYKVKNTVIDSITGLYEAK-----------EMM  150 (259)
T ss_pred             HHHHHHHHcCCCHHHHhCCEEEEECCCchhhhhhHHHHHHHHHHHHHhhCCCEEEEcCchHhcccc-----------hHH
Confidence               24566888754    45555443       245666677777777899999999999876310           022


Q ss_pred             HHHHHHHHHHHHHHHhccCcEEEEEcccch
Q 024705          229 SRIMTQALRKIHYSLCQSHTLIIFLNQVKV  258 (264)
Q Consensus       229 ~r~i~~~L~~l~~~l~~~g~tVi~i~h~~~  258 (264)
                      .+   +.+.++...+++.|+|+++++|...
T Consensus       151 ~r---~~~~~L~~~lk~~~~t~ll~~e~~~  177 (259)
T TIGR03878       151 AR---EIVRQLFNFMKKWYQTALFVSQKRS  177 (259)
T ss_pred             HH---HHHHHHHHHHHHcCCeEEEEecccc
Confidence            23   4455556666899999999999643

This KaiC domain-containing protein family occurs sporadically across a broad taxonomic range (Euryarchaeota, Aquificae, Dictyoglomi, Epsilonproteobacteria, and Firmicutes), but exclusively in thermophiles.

>TIGR02239 recomb_RAD51 DNA repair protein RAD51

Probab=99.89  E-value=5.9e-22  Score=175.78  Aligned_cols=161  Identities=27%  Similarity=0.395  Sum_probs=122.1

Q ss_pred             CCCCccccCcHHHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHHhh---cC---CeEEEEecCCCCCHH----HH
Q 024705           96 RRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQK---LG---GYCAYLDVENALDPS----LA  165 (264)
Q Consensus        96 ~~~~~i~tG~~~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~---~g---~~v~~~~~e~~~~~~----~~  165 (264)
                      .....++||+++||.+|+ ||+++|++++|+||||+|||+|+++++.++..   .|   ++|+|+++|+.+.+.    ++
T Consensus        73 ~~~~~~~tg~~~lD~ll~-gGi~~g~i~~i~G~~g~GKT~l~~~~~~~~~~~~~~Gg~~~~vvyIdtE~~f~~~Rl~~ia  151 (316)
T TIGR02239        73 QEVIQLTTGSKELDKLLG-GGIETGSITEIFGEFRTGKTQLCHTLAVTCQLPIDQGGGEGKALYIDTEGTFRPERLLAIA  151 (316)
T ss_pred             cccceeCCCCHHHHHHhc-CCCCCCeEEEEECCCCCCcCHHHHHHHHHHhhhhhcCCCCceEEEEECCCCCCHHHHHHHH
Confidence            456789999999999999 99999999999999999999999999986542   22   589999999987663    56


Q ss_pred             HHcCCCcc----ceeEeCCCCHHHHHHHHHHH---hhcCCccEEEEcCccccccccccCCCcCCCCcHHHHHHHHHHHHH
Q 024705          166 EAMGIDAE----NLLIAQPDSAENLLSVVDTL---TKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRK  238 (264)
Q Consensus       166 ~~~g~~~~----~l~~~~~~~~ee~~~~i~~~---~~~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r~i~~~L~~  238 (264)
                      ++++++++    ++.+....+.+++...+...   +...++++|||||+++++. .++.+..  . ...++..+.+.+..
T Consensus       152 ~~~~~~~~~~l~~i~~~~~~~~~~~~~~l~~~~~~~~~~~~~LvVIDSI~al~r-~~~~~~~--~-~~~rq~~l~~~~~~  227 (316)
T TIGR02239       152 ERYGLNPEDVLDNVAYARAYNTDHQLQLLQQAAAMMSESRFALLIVDSATALYR-TDFSGRG--E-LSARQMHLARFLRS  227 (316)
T ss_pred             HHcCCChHHhhccEEEEecCChHHHHHHHHHHHHhhccCCccEEEEECcHHHhh-hhcCCcc--h-HHHHHHHHHHHHHH
Confidence            66787754    45666667777665555443   4456899999999999973 4443321  1 11223345667777


Q ss_pred             HHHHHhccCcEEEEEcccchHhh
Q 024705          239 IHYSLCQSHTLIIFLNQVKVLLL  261 (264)
Q Consensus       239 l~~~l~~~g~tVi~i~h~~~~~~  261 (264)
                      |.+.++++|++||++||++.+.+
T Consensus       228 L~~la~~~~vavv~tNqv~~~~~  250 (316)
T TIGR02239       228 LQRLADEFGVAVVITNQVVAQVD  250 (316)
T ss_pred             HHHHHHHhCCEEEEECceEEecC
Confidence            77777999999999999997654

This eukaryotic sequence family consists of RAD51, a protein involved in DNA homologous recombination and repair. It is similar in sequence the exclusively meiotic recombinase DMC1 (TIGR02238), to archaeal families RadA (TIGR02236) and RadB (TIGR02237), and to bacterial RecA (TIGR02012).

>cd01123 Rad51_DMC1_radA Rad51_DMC1_radA,B

Probab=99.88  E-value=3.5e-22  Score=170.41  Aligned_cols=156  Identities=29%  Similarity=0.457  Sum_probs=116.1

Q ss_pred             cccCcHHHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHHhhc------CCeEEEEecCCCCCHH----HHHHcCC
Q 024705          101 ISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKL------GGYCAYLDVENALDPS----LAEAMGI  170 (264)
Q Consensus       101 i~tG~~~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~------g~~v~~~~~e~~~~~~----~~~~~g~  170 (264)
                      +|||++.||.+++ ||+++|++++|.||||+|||+|+.+++.+....      +++|+|++.|......    .++..+.
T Consensus         1 ~~tG~~~lD~~l~-GGi~~g~i~~i~G~~GsGKT~l~~~l~~~~~~~~~~~g~~~~viyi~~e~~~~~~rl~~~~~~~~~   79 (235)
T cd01123           1 LTTGSKALDELLG-GGIETGSITEIFGEFGSGKTQLCHQLAVTVQLPIELGGLEGKAVYIDTEGTFRPERLVQIAERFGL   79 (235)
T ss_pred             CCCCchhhHhhcc-CCCCCCeEEEEECCCCCCHHHHHHHHHHHeeCccccCCCCccEEEEeCCCCcCHHHHHHHHHHhcc
Confidence            5899999999999 999999999999999999999999999876544      3799999999976652    3444555


Q ss_pred             Cc----cceeEeCCCCHHHHHHH---HHHHhhcC-CccEEEEcCccccccccccCCCcCCCCcHHHHHHHHHHHHHHHHH
Q 024705          171 DA----ENLLIAQPDSAENLLSV---VDTLTKSG-SIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYS  242 (264)
Q Consensus       171 ~~----~~l~~~~~~~~ee~~~~---i~~~~~~~-~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r~i~~~L~~l~~~  242 (264)
                      ++    +++.+....+.+++...   +...+... ++++|||||++.++. ....+..   ......+.+.+.+..|.+.
T Consensus        80 ~~~~~~~~i~~~~~~~~~~l~~~l~~l~~~l~~~~~~~liVIDSis~~~~-~~~~~~~---~~~~r~~~l~~~~~~L~~l  155 (235)
T cd01123          80 DPEEVLDNIYVARAYNSDHQLQLLEELEAILIESSRIKLVIVDSVTALFR-AEFDGRG---ELAERQQHLAKLLRTLKRL  155 (235)
T ss_pred             ChHhHhcCEEEEecCCHHHHHHHHHHHHHHHhhcCCeeEEEEeCcHHHHH-HHhcCCc---cHHHHHHHHHHHHHHHHHH
Confidence            43    35677777666665544   44445556 899999999999873 2222211   0123444566666677667


Q ss_pred             HhccCcEEEEEcccchHhh
Q 024705          243 LCQSHTLIIFLNQVKVLLL  261 (264)
Q Consensus       243 l~~~g~tVi~i~h~~~~~~  261 (264)
                      ++++|++||++||+....+
T Consensus       156 a~~~~~avl~tn~~~~~~~  174 (235)
T cd01123         156 ADEFNVAVVITNQVTARPD  174 (235)
T ss_pred             HHHhCCEEEEeccEeecCC
Confidence            7999999999999986543

This group of recombinases includes the eukaryotic proteins RAD51, RAD55/57 and the meiosis-specific protein DMC1, and the archaeal proteins radA and radB. They are closely related to the bacterial RecA group. Rad51 proteins catalyze a similiar recombination reaction as RecA, using ATP-dependent DNA binding activity and a DNA-dependent ATPase. However, this reaction is less efficient and requires accessory proteins such as RAD55/57 .

>PRK05973 replicative DNA helicase; Provisional

Probab=99.88  E-value=4.1e-22  Score=169.08  Aligned_cols=170  Identities=19%  Similarity=0.235  Sum_probs=125.2

Q ss_pred             HHHHHHHHHHHHHhcCCccccccccccCCCCCCccccCcHHHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHHhh
Q 024705           67 DNALRLALSQLANDFGKESMLSLKRFFGSRRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQK  146 (264)
Q Consensus        67 ~~~l~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~i~tG~~~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~  146 (264)
                      +..+|.+|++++.+-|-.+|..+.....    ...|     .|++.  ||+++|++++|.|+||+|||+|+++++.+++.
T Consensus        22 ~~~~~~~~~~~a~~~g~~~w~~~~~~~~----~~~p-----~~~l~--GGl~~Gsl~LIaG~PG~GKT~lalqfa~~~a~   90 (237)
T PRK05973         22 NIPLHEALDRIAAEEGFSSWSLLAAKAA----ATTP-----AEELF--SQLKPGDLVLLGARPGHGKTLLGLELAVEAMK   90 (237)
T ss_pred             CCcHHHHHHHHHHHhccchHHHHHHhcc----CCCC-----HHHhc--CCCCCCCEEEEEeCCCCCHHHHHHHHHHHHHh
Confidence            3468899999999999999966654321    1112     58766  59999999999999999999999999999998


Q ss_pred             cCCeEEEEecCCCCCH--HHHHHcCCCccce----eEe--CCCCHHHHHHHHHHHhhcCCccEEEEcCccccccccccCC
Q 024705          147 LGGYCAYLDVENALDP--SLAEAMGIDAENL----LIA--QPDSAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGV  218 (264)
Q Consensus       147 ~g~~v~~~~~e~~~~~--~~~~~~g~~~~~l----~~~--~~~~~ee~~~~i~~~~~~~~~~~vvIDsl~~~~~~~~~~~  218 (264)
                      +|++++||++|++..+  .++..+|++.++.    .+.  +..+.+++   ++.+....++++|||||++.+...  ...
T Consensus        91 ~Ge~vlyfSlEes~~~i~~R~~s~g~d~~~~~~~~~~d~~d~~~~~~i---i~~l~~~~~~~lVVIDsLq~l~~~--~~~  165 (237)
T PRK05973         91 SGRTGVFFTLEYTEQDVRDRLRALGADRAQFADLFEFDTSDAICADYI---IARLASAPRGTLVVIDYLQLLDQR--REK  165 (237)
T ss_pred             cCCeEEEEEEeCCHHHHHHHHHHcCCChHHhccceEeecCCCCCHHHH---HHHHHHhhCCCEEEEEcHHHHhhc--ccc
Confidence            9999999999999876  5677788887643    222  12334443   334444467899999999988521  110


Q ss_pred             CcCCCCcHHHHHHHHHHHHHHHHHHhccCcEEEEEcccchHhhhc
Q 024705          219 PINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVKVLLLKH  263 (264)
Q Consensus       219 ~~~~~~~~~q~r~i~~~L~~l~~~l~~~g~tVi~i~h~~~~~~~~  263 (264)
                              ..   +...++.|...+++.|+|||+++|+.+.++.+
T Consensus       166 --------~e---l~~~~~~Lk~~Ak~~gitvIl~sQl~r~~e~~  199 (237)
T PRK05973        166 --------PD---LSVQVRALKSFARERGLIIVFISQIDRSFDPS  199 (237)
T ss_pred             --------hh---HHHHHHHHHHHHHhCCCeEEEEecCccccccC
Confidence                    11   22334555555699999999999999988764

>PRK04328 hypothetical protein; Provisional

Probab=99.88  E-value=7.2e-22  Score=170.14  Aligned_cols=145  Identities=23%  Similarity=0.354  Sum_probs=114.8

Q ss_pred             CCccccCcHHHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCH--HHHHHcCCCccc-
Q 024705           98 GPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP--SLAEAMGIDAEN-  174 (264)
Q Consensus        98 ~~~i~tG~~~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~--~~~~~~g~~~~~-  174 (264)
                      .++++||++.||++++ ||+++|++++|.|+||+|||+|+.+++.+.+.+|++++|+++|++...  ..++.+|++.++ 
T Consensus         2 ~~rv~tGi~~LD~lL~-GGip~gs~ili~G~pGsGKT~l~~~fl~~~~~~ge~~lyis~ee~~~~i~~~~~~~g~d~~~~   80 (249)
T PRK04328          2 VKRVKTGIPGMDEILY-GGIPERNVVLLSGGPGTGKSIFSQQFLWNGLQMGEPGVYVALEEHPVQVRRNMRQFGWDVRKY   80 (249)
T ss_pred             CceecCCchhHHHHhc-CCCcCCcEEEEEcCCCCCHHHHHHHHHHHHHhcCCcEEEEEeeCCHHHHHHHHHHcCCCHHHH
Confidence            3578999999999999 999999999999999999999999999998889999999999998776  456778886542 


Q ss_pred             -----eeEe-------------------CCCCHHHHHHHHHHHhhcCCccEEEEcCccccccccccCCCcCCCCcHHHHH
Q 024705          175 -----LLIA-------------------QPDSAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSR  230 (264)
Q Consensus       175 -----l~~~-------------------~~~~~ee~~~~i~~~~~~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r  230 (264)
                           +.+.                   ++.+.+++...+...++..+++++||||++.+... .          ....+
T Consensus        81 ~~~~~l~iid~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~vVIDSlt~l~~~-~----------~~~~r  149 (249)
T PRK04328         81 EEEGKFAIVDAFTGGIGSAAKREKYVVKDPDDVRELIDVLRQAIKDIGAKRVVIDSVSTLYLT-K----------PAMAR  149 (249)
T ss_pred             hhcCCEEEEeccccccccccccccccccCcccHHHHHHHHHHHHHhhCCCEEEEeChhHhhcC-C----------hHHHH
Confidence                 2222                   22345677777777777789999999999988631 0          12223


Q ss_pred             HHHHHHHHHHHHHhccCcEEEEEcccc
Q 024705          231 IMTQALRKIHYSLCQSHTLIIFLNQVK  257 (264)
Q Consensus       231 ~i~~~L~~l~~~l~~~g~tVi~i~h~~  257 (264)
                         ..+..+.+.+++.|+|+++++|..
T Consensus       150 ---~~~~~l~~~lk~~g~t~llt~e~~  173 (249)
T PRK04328        150 ---SIVMQLKRVLSGLGCTAIFVSQVS  173 (249)
T ss_pred             ---HHHHHHHHHHHhCCCEEEEEECcc
Confidence               344555555689999999999986

>PRK04301 radA DNA repair and recombination protein RadA; Validated

Probab=99.88  E-value=1.9e-21  Score=173.21  Aligned_cols=160  Identities=27%  Similarity=0.381  Sum_probs=119.7

Q ss_pred             CCCccccCcHHHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHHhhc------CCeEEEEecCCCCCH----HHHH
Q 024705           97 RGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKL------GGYCAYLDVENALDP----SLAE  166 (264)
Q Consensus        97 ~~~~i~tG~~~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~------g~~v~~~~~e~~~~~----~~~~  166 (264)
                      ....++||+++||.+|+ ||+++|.+++|+||||+|||+|+++++.+++.+      +++++|+++|+.+..    .+++
T Consensus        80 s~~~~~Tg~~~lD~~l~-GGi~~g~vtei~G~~GsGKT~l~~~~~~~~~~~~~~gg~~~~~~yi~te~~f~~~rl~~~~~  158 (317)
T PRK04301         80 NVGKITTGSKELDELLG-GGIETQSITEFYGEFGSGKTQICHQLAVNVQLPEEKGGLEGKAVYIDTEGTFRPERIEQMAE  158 (317)
T ss_pred             cCCccCCCCHHHHHHhc-CCccCCcEEEEECCCCCCHhHHHHHHHHHhccccccCCCCceEEEEeCCCCcCHHHHHHHHH
Confidence            45679999999999999 999999999999999999999999999987643      358999999998765    3456


Q ss_pred             HcCCCcc----ceeEeCCCCHHHH---HHHHHHHhhc-CCccEEEEcCccccccccccCCCcCCCCcHHHHHHHHHHHHH
Q 024705          167 AMGIDAE----NLLIAQPDSAENL---LSVVDTLTKS-GSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRK  238 (264)
Q Consensus       167 ~~g~~~~----~l~~~~~~~~ee~---~~~i~~~~~~-~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r~i~~~L~~  238 (264)
                      ++|++++    ++.+.+..+.++.   +..+...+.. .++++|||||+++++. .++.+.. + . ...++.+.+.+..
T Consensus       159 ~~g~~~~~~l~~i~~~~~~~~~~~~~~~~~l~~~i~~~~~~~lvVIDSisa~~~-~~~~~~~-~-~-~~r~~~l~~~~~~  234 (317)
T PRK04301        159 ALGLDPDEVLDNIHVARAYNSDHQMLLAEKAEELIKEGENIKLVIVDSLTAHFR-AEYVGRG-N-L-AERQQKLNKHLHD  234 (317)
T ss_pred             HcCCChHhhhccEEEEeCCCHHHHHHHHHHHHHHHhccCceeEEEEECchHHhh-hhccCCc-c-H-HHHHHHHHHHHHH
Confidence            6787764    4666666655543   3344445554 6899999999999873 3443321 1 1 1223335566666


Q ss_pred             HHHHHhccCcEEEEEcccchHhh
Q 024705          239 IHYSLCQSHTLIIFLNQVKVLLL  261 (264)
Q Consensus       239 l~~~l~~~g~tVi~i~h~~~~~~  261 (264)
                      |.+.++++|++||++||+.++.+
T Consensus       235 L~~la~~~~vavl~tnqv~~~~~  257 (317)
T PRK04301        235 LLRLADLYNAAVVVTNQVMARPD  257 (317)
T ss_pred             HHHHHHHhCCEEEEeceEEeccc
Confidence            77777999999999999887653

>TIGR02236 recomb_radA DNA repair and recombination protein RadA

Probab=99.86  E-value=5.4e-21  Score=169.86  Aligned_cols=160  Identities=27%  Similarity=0.402  Sum_probs=118.5

Q ss_pred             CCCCccccCcHHHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHHhh------cCCeEEEEecCCCCCHH----HH
Q 024705           96 RRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQK------LGGYCAYLDVENALDPS----LA  165 (264)
Q Consensus        96 ~~~~~i~tG~~~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~------~g~~v~~~~~e~~~~~~----~~  165 (264)
                      .....++||.+.+|.+|+ ||++.|.+++|+||||+|||+|+.+++.+++.      .+++++|+++|+.+...    .+
T Consensus        72 ~s~~~~~Tg~~~lD~~l~-GGi~~g~i~ei~G~~g~GKT~l~~~~~~~~~~~~~~g~~~~~~~yi~te~~f~~~rl~~~~  150 (310)
T TIGR02236        72 KTIGKITTGSKELDELLG-GGIETQAITEVFGEFGSGKTQICHQLAVNVQLPEEKGGLGGKAVYIDTENTFRPERIMQMA  150 (310)
T ss_pred             ccCCeecCCCHHHHHHhc-CCCCCCeEEEEECCCCCCHHHHHHHHHHHhcCCcccCCCcceEEEEECCCCCCHHHHHHHH
Confidence            346679999999999999 99999999999999999999999999998763      24599999999987763    34


Q ss_pred             HHcCCCc----cceeEeCCCCHHHH---HHHHHHHhhcC--CccEEEEcCccccccccccCCCcCCCCcHHHHHHHHHHH
Q 024705          166 EAMGIDA----ENLLIAQPDSAENL---LSVVDTLTKSG--SIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQAL  236 (264)
Q Consensus       166 ~~~g~~~----~~l~~~~~~~~ee~---~~~i~~~~~~~--~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r~i~~~L  236 (264)
                      +.+|++.    +++.+....+.++.   +..+...+...  ++++|||||++.++. .++.+.. .  ....++.+.+.+
T Consensus       151 ~~~gl~~~~~~~~i~i~~~~~~~~~~~lld~l~~~i~~~~~~~~lVVIDSisa~~r-~e~~~~~-~--~~~r~~~l~~~~  226 (310)
T TIGR02236       151 EARGLDPDEVLKNIYVARAYNSNHQMLLVEKAEDLIKELNNPVKLLIVDSLTSHFR-AEYVGRG-A--LAERQQKLNKHL  226 (310)
T ss_pred             HHcCCCHHHHhhceEEEecCCHHHHHHHHHHHHHHHHhcCCCceEEEEecchHhhh-HhhcCch-h--HHHHHHHHHHHH
Confidence            5567764    45667666655442   33334444443  488999999999873 4444321 1  112234455666


Q ss_pred             HHHHHHHhccCcEEEEEcccchHh
Q 024705          237 RKIHYSLCQSHTLIIFLNQVKVLL  260 (264)
Q Consensus       237 ~~l~~~l~~~g~tVi~i~h~~~~~  260 (264)
                      ..|...++++|++||++||++.+.
T Consensus       227 ~~L~~~a~~~~~~v~~tnqv~~~~  250 (310)
T TIGR02236       227 HDLLRLADLYNAAVVVTNQVMARP  250 (310)
T ss_pred             HHHHHHHHHhCcEEEEeceeeecC
Confidence            777777799999999999998764

This family consists exclusively of archaeal RadA protein, a homolog of bacterial RecA (TIGR02012), eukaryotic RAD51 (TIGR02239), and archaeal RadB (TIGR02237). This protein is involved in DNA repair and recombination. The member from Pyrococcus horikoshii contains an intein.

>TIGR02237 recomb_radB DNA repair and recombination protein RadB

Probab=99.86  E-value=4.9e-21  Score=160.64  Aligned_cols=145  Identities=24%  Similarity=0.370  Sum_probs=106.8

Q ss_pred             HHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCHHHHHHc-----CCCccceeEeCCCC
Q 024705          108 LDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAM-----GIDAENLLIAQPDS  182 (264)
Q Consensus       108 LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~~~~~~~-----g~~~~~l~~~~~~~  182 (264)
                      ||.+|+ ||+++|++++|+||||+|||+|+++++.+.+..|++|+|+++|+ ....+...+     +...+++.+.++.+
T Consensus         1 lD~~l~-GGi~~g~i~~i~G~~GsGKT~l~~~~~~~~~~~g~~v~yi~~e~-~~~~rl~~~~~~~~~~~~~~i~~~~~~~   78 (209)
T TIGR02237         1 IDELLG-GGVERGTITQIYGPPGSGKTNICMILAVNAARQGKKVVYIDTEG-LSPERFKQIAEDRPERALSNFIVFEVFD   78 (209)
T ss_pred             Chhhhc-CCCCCCeEEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEECCC-CCHHHHHHHHHhChHHHhcCEEEEECCC
Confidence            699999 99999999999999999999999999999988899999999997 444322221     22246777777777


Q ss_pred             HHHH---HHHHHHHhhcCCccEEEEcCccccccccccCCCcCCCCcHHHHHHHHHHHHHHHHHHhccCcEEEEEcccchH
Q 024705          183 AENL---LSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVKVL  259 (264)
Q Consensus       183 ~ee~---~~~i~~~~~~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r~i~~~L~~l~~~l~~~g~tVi~i~h~~~~  259 (264)
                      .++.   +..+...+...++++|||||+++++. .+..+..     ..+.+.+...+..|.+.++++|++++++||+...
T Consensus        79 ~~~~~~~~~~l~~~~~~~~~~lvVIDSis~l~~-~~~~~~~-----~~~~~~l~~~~~~L~~~~~~~~v~vl~t~~~~~~  152 (209)
T TIGR02237        79 FDEQGVAIQKTSKFIDRDSASLVVVDSFTALYR-LELSDDR-----ISRNRELARQLTLLLSLARKKNLAVVITNQVYTD  152 (209)
T ss_pred             HHHHHHHHHHHHHHHhhcCccEEEEeCcHHHhH-HHhCCcc-----HHHHHHHHHHHHHHHHHHHHcCCEEEEEcccEEe
Confidence            6655   44444445556899999999999873 2322211     1233445555566666669999999999998764


Q ss_pred             h
Q 024705          260 L  260 (264)
Q Consensus       260 ~  260 (264)
                      .
T Consensus       153 ~  153 (209)
T TIGR02237       153 V  153 (209)
T ss_pred             c
Confidence            4

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

>PF06745 KaiC: KaiC; InterPro: IPR014774 This entry represents a domain within bacterial and archaeal proteins, most of which are hypothetical

Probab=99.86  E-value=1.7e-21  Score=165.41  Aligned_cols=142  Identities=32%  Similarity=0.446  Sum_probs=109.6

Q ss_pred             cccCcHHHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHHhhc-CCeEEEEecCCCCCH--HHHHHcCCCccc---
Q 024705          101 ISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKL-GGYCAYLDVENALDP--SLAEAMGIDAEN---  174 (264)
Q Consensus       101 i~tG~~~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~-g~~v~~~~~e~~~~~--~~~~~~g~~~~~---  174 (264)
                      ++||++.||++++ ||+++|++++|.|+||+|||+|+.+++.+.+.+ |++|+|++++++...  ..++.+|++.+.   
T Consensus         1 V~TGI~~LD~~l~-GGip~gs~~li~G~~GsGKT~l~~q~l~~~~~~~ge~vlyvs~ee~~~~l~~~~~s~g~d~~~~~~   79 (226)
T PF06745_consen    1 VPTGIPGLDELLG-GGIPKGSVVLISGPPGSGKTTLALQFLYNGLKNFGEKVLYVSFEEPPEELIENMKSFGWDLEEYED   79 (226)
T ss_dssp             E--SSTTHHHHTT-TSEETTSEEEEEESTTSSHHHHHHHHHHHHHHHHT--EEEEESSS-HHHHHHHHHTTTS-HHHHHH
T ss_pred             CCCCchhHHHhhc-CCCCCCcEEEEEeCCCCCcHHHHHHHHHHhhhhcCCcEEEEEecCCHHHHHHHHHHcCCcHHHHhh
Confidence            6899999999999 999999999999999999999999999999998 999999999998876  456678887653   


Q ss_pred             ---eeEeC---------CCCHHHHHHHHHHHhhcCCccEEEEcCccccccccccCCCcCCCCcHHHHHHHHHHHHHHHHH
Q 024705          175 ---LLIAQ---------PDSAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYS  242 (264)
Q Consensus       175 ---l~~~~---------~~~~ee~~~~i~~~~~~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r~i~~~L~~l~~~  242 (264)
                         +.+.+         +.+.+++...+...++..+++++||||++.+.. ..  . +      .+   +...+..+...
T Consensus        80 ~g~l~~~d~~~~~~~~~~~~~~~l~~~i~~~i~~~~~~~vVIDsls~l~~-~~--~-~------~~---~r~~l~~l~~~  146 (226)
T PF06745_consen   80 SGKLKIIDAFPERIGWSPNDLEELLSKIREAIEELKPDRVVIDSLSALLL-YD--D-P------EE---LRRFLRALIKF  146 (226)
T ss_dssp             TTSEEEEESSGGGST-TSCCHHHHHHHHHHHHHHHTSSEEEEETHHHHTT-SS--S-G------GG---HHHHHHHHHHH
T ss_pred             cCCEEEEecccccccccccCHHHHHHHHHHHHHhcCCCEEEEECHHHHhh-cC--C-H------HH---HHHHHHHHHHH
Confidence               43332         346788888888888777889999999999931 11  0 0      12   23466777777


Q ss_pred             HhccCcEEEEEccc
Q 024705          243 LCQSHTLIIFLNQV  256 (264)
Q Consensus       243 l~~~g~tVi~i~h~  256 (264)
                      +++.|+|++++.|.
T Consensus       147 l~~~~~t~llt~~~  160 (226)
T PF06745_consen  147 LKSRGVTTLLTSEM  160 (226)
T ss_dssp             HHHTTEEEEEEEEE
T ss_pred             HHHCCCEEEEEEcc
Confidence            79999999999985

More than one copy is sometimes found in each protein in this entry. These include KaiC, which is one of the Kai proteins among which direct protein-protein association may be a critical process in the generation of circadian rhythms in cyanobacteria []. The circadian clock protein KaiC, is encoded in the kaiABC operon that controls circadian rhythms and may be universal in Cyanobacteria. Each member contains two copies of this domain, which is also found in other proteins. KaiC performs autophosphorylation and acts as its own transcriptional repressor. RadA/Sms is a highly conserved eubacterial protein that shares sequence similarity with both RecA strand transferase and lon protease. The RadA/Sms family are probable ATP-dependent proteases involved in both DNA repair and degradation of proteins, peptides, glycopeptides. They are classified in as non-peptidase homologues and unassigned peptidases in MEROPS peptidase family S16 (lon protease family, clan SJ). RadA/Sms is involved in recombination and recombinational repair, most likely involving the stabilisation or processing of branched DNA molecules or blocked replication forks because of its genetic redundancy with RecG and RuvABC [].; PDB: 2W0M_A 2ZTS_C 4DUG_B 3K0E_B 3K09_B 3S1A_E 3JZM_E 2GBL_B 3DVL_A 1TF7_C ....

>TIGR03600 phage_DnaB phage replicative helicase, DnaB family, HK022 subfamily

Probab=99.86  E-value=3.4e-20  Score=171.29  Aligned_cols=155  Identities=24%  Similarity=0.322  Sum_probs=116.5

Q ss_pred             CCCccccCcHHHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHHh-hcCCeEEEEecCCCCCHHH----HHHcCCC
Q 024705           97 RGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQ-KLGGYCAYLDVENALDPSL----AEAMGID  171 (264)
Q Consensus        97 ~~~~i~tG~~~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~-~~g~~v~~~~~e~~~~~~~----~~~~g~~  171 (264)
                      ...+++||++.||.+++  |+.+|++++|+|+||+|||+|+++++.+++ ..|.+|+||+.|++..+..    +...|++
T Consensus       173 ~~~gi~tG~~~LD~~~~--G~~~g~liviag~pg~GKT~~al~ia~~~a~~~g~~v~~fSlEm~~~~l~~Rl~~~~~~v~  250 (421)
T TIGR03600       173 ELTGLSTGLPKLDRLTN--GLVKGDLIVIGARPSMGKTTLALNIAENVALREGKPVLFFSLEMSAEQLGERLLASKSGIN  250 (421)
T ss_pred             CCcceeCCChhHHHHhc--CCCCCceEEEEeCCCCCHHHHHHHHHHHHHHhCCCcEEEEECCCCHHHHHHHHHHHHcCCC
Confidence            35789999999999996  999999999999999999999999998887 6788999999999876622    2233443


Q ss_pred             cc-------------------------ceeEeCC--CCHHHHHHHHHHHhhcC-CccEEEEcCccccccccccCCCcCCC
Q 024705          172 AE-------------------------NLLIAQP--DSAENLLSVVDTLTKSG-SIDVIVVDSVAALIPKCEIGVPINGM  223 (264)
Q Consensus       172 ~~-------------------------~l~~~~~--~~~ee~~~~i~~~~~~~-~~~~vvIDsl~~~~~~~~~~~~~~~~  223 (264)
                      ..                         ++++.+.  .+++++...++.+.... ++++||||+++.+.+.   .+    .
T Consensus       251 ~~~~~~~~l~~~~~~~~~~~~~~l~~~~l~i~d~~~~t~~~i~~~~r~~~~~~~~~~lvvIDyLql~~~~---~~----~  323 (421)
T TIGR03600       251 TGNIRTGRFNDSDFNRLLNAVDRLSEKDLYIDDTGGLTVAQIRSIARRIKRKKGGLDLIVVDYIQLMAPT---RG----R  323 (421)
T ss_pred             HHHHhcCCCCHHHHHHHHHHHHHHhcCCEEEECCCCCCHHHHHHHHHHHHHhcCCCCEEEEecccccCCC---CC----C
Confidence            22                         2334333  56888888888776554 7999999999988641   11    1


Q ss_pred             CcHHHHHHHHHHHHHHHHHHhccCcEEEEEcccchHhhhc
Q 024705          224 YSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVKVLLLKH  263 (264)
Q Consensus       224 ~~~~q~r~i~~~L~~l~~~l~~~g~tVi~i~h~~~~~~~~  263 (264)
                      ....+...+++.|+.++   ++++++||+++|+++..+.|
T Consensus       324 ~~~~~~~~i~~~Lk~lA---ke~~i~Vi~lsQlnr~~~~r  360 (421)
T TIGR03600       324 DRNEELGGISRGLKALA---KELDVPVVLLAQLNRGSEKR  360 (421)
T ss_pred             CHHHHHHHHHHHHHHHH---HHhCCcEEEecccCcchhhc
Confidence            11233334555555555   99999999999999887654

Members of this family are phage (or prophage-region) homologs of the bacterial homohexameric replicative helicase DnaB. Some phage may rely on host DnaB, while others encode their own verions. This model describes the largest phage-specific clade among the close homologs of DnaB, but there are, or course, other DnaB homologs from phage that fall outside the scope of this model.

>PRK06067 flagellar accessory protein FlaH; Validated

Probab=99.85  E-value=1.6e-20  Score=160.37  Aligned_cols=148  Identities=26%  Similarity=0.361  Sum_probs=111.1

Q ss_pred             CCCCccccCcHHHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCH--HHHHHcCCCcc
Q 024705           96 RRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP--SLAEAMGIDAE  173 (264)
Q Consensus        96 ~~~~~i~tG~~~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~--~~~~~~g~~~~  173 (264)
                      +..+.++||++.||.+++ ||+++|++++|+|+||+|||+|+.+++.+.+.+|++|+|+++|++...  ..++++|++..
T Consensus         2 ~~~~~~~tGi~~LD~~l~-gG~~~g~~~~i~G~~GsGKt~l~~~~~~~~~~~g~~~~y~~~e~~~~~~~~~~~~~g~~~~   80 (234)
T PRK06067          2 GKKEIISTGNEELDRKLG-GGIPFPSLILIEGDHGTGKSVLSQQFVYGALKQGKKVYVITTENTSKSYLKQMESVKIDIS   80 (234)
T ss_pred             CCceEEecCCHHHHHhhC-CCCcCCcEEEEECCCCCChHHHHHHHHHHHHhCCCEEEEEEcCCCHHHHHHHHHHCCCChh
Confidence            346789999999999999 999999999999999999999999999998889999999999988766  34567887765


Q ss_pred             ce------eEe---------CCCCHHHHHHHHHHHhhcCCccEEEEcCccccccccccCCCcCCCCcHHHHHHHHHHHHH
Q 024705          174 NL------LIA---------QPDSAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRK  238 (264)
Q Consensus       174 ~l------~~~---------~~~~~ee~~~~i~~~~~~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r~i~~~L~~  238 (264)
                      ..      .+.         .....++++..+...++..++++++||+++.+...  .        +...   +..++..
T Consensus        81 ~~~~~g~l~i~~~~~~~~~~~~~~~~~ll~~l~~~i~~~~~~~iviDs~t~~~~~--~--------~~~~---~~~~l~~  147 (234)
T PRK06067         81 DFFLWGYLRIFPLNTEGFEWNSTLANKLLELIIEFIKSKREDVIIIDSLTIFATY--A--------EEDD---ILNFLTE  147 (234)
T ss_pred             HHHhCCCceEEeccccccccCcchHHHHHHHHHHHHHhcCCCEEEEecHHHHHhc--C--------CHHH---HHHHHHH
Confidence            42      121         12344677777888887789999999999976521  0        0111   2233333


Q ss_pred             HHHHHhccCcEEEEEcccch
Q 024705          239 IHYSLCQSHTLIIFLNQVKV  258 (264)
Q Consensus       239 l~~~l~~~g~tVi~i~h~~~  258 (264)
                      +. .+++.|+++++++|...
T Consensus       148 l~-~l~~~g~tvllt~~~~~  166 (234)
T PRK06067        148 AK-NLVDLGKTILITLHPYA  166 (234)
T ss_pred             HH-HHHhCCCEEEEEecCCc
Confidence            32 22456899999998654

>TIGR03881 KaiC_arch_4 KaiC domain protein, PAE1156 family

Probab=99.85  E-value=3.4e-20  Score=157.75  Aligned_cols=143  Identities=29%  Similarity=0.346  Sum_probs=110.3

Q ss_pred             ccccCcHHHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCH--HHHHHcCCCccc---
Q 024705          100 VISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP--SLAEAMGIDAEN---  174 (264)
Q Consensus       100 ~i~tG~~~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~--~~~~~~g~~~~~---  174 (264)
                      +++||+++||++++ ||+++|++++|.|+||+|||+|+.+++.+.+.+|++++|++.|++..+  .+++.+|++.++   
T Consensus         1 ri~tGi~~LD~~l~-GGi~~G~~~~i~G~~G~GKT~l~~~~~~~~~~~g~~~~~is~e~~~~~i~~~~~~~g~~~~~~~~   79 (229)
T TIGR03881         1 RLSTGVEGLDKLLE-GGIPRGFFVAVTGEPGTGKTIFCLHFAYKGLRDGDPVIYVTTEESRESIIRQAAQFGMDFEKAIE   79 (229)
T ss_pred             CcCCChhhHHHhhc-CCCcCCeEEEEECCCCCChHHHHHHHHHHHHhcCCeEEEEEccCCHHHHHHHHHHhCCCHHHHhh
Confidence            37999999999999 999999999999999999999999999888888999999999988765  356678887653   


Q ss_pred             ---eeEeC-------------CCCHHHHHHHHHHHhhcC--CccEEEEcCccccccccccCCCcCCCCcHHHHHHHHHHH
Q 024705          175 ---LLIAQ-------------PDSAENLLSVVDTLTKSG--SIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQAL  236 (264)
Q Consensus       175 ---l~~~~-------------~~~~ee~~~~i~~~~~~~--~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r~i~~~L  236 (264)
                         +.+.+             ..+.+++...++...+..  ++++++||+++.+.. .    ++      .+.+   +.+
T Consensus        80 ~~~l~i~d~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~vvIDsl~~l~~-~----~~------~~~r---~~~  145 (229)
T TIGR03881        80 EGKLVIIDALMKEKEDEWSLRELSIEELLNKVIEAKKYLGYGHARLVIDSMSAFWL-D----KP------AMAR---KYS  145 (229)
T ss_pred             cCCEEEEEccccccccccccccCCHHHHHHHHHHHHHhhccCceEEEecCchhhhc-c----Ch------HHHH---HHH
Confidence               22221             235677777777776553  578999999999863 1    11      2223   334


Q ss_pred             HHHHHHHhccCcEEEEEcccc
Q 024705          237 RKIHYSLCQSHTLIIFLNQVK  257 (264)
Q Consensus       237 ~~l~~~l~~~g~tVi~i~h~~  257 (264)
                      ..+.+.+++.|+|+|+++|..
T Consensus       146 ~~l~~~l~~~~~tvil~~~~~  166 (229)
T TIGR03881       146 YYLKRVLNRWNFTILLTSQYA  166 (229)
T ss_pred             HHHHHHHHhCCCEEEEEeccc
Confidence            455555588999999999964

Members of this protein family are archaeal single-domain KaiC_related proteins, homologous to the Cyanobacterial circadian clock cycle protein KaiC, an autokinase/autophosphorylase that has two copies of the domain.

>PRK09302 circadian clock protein KaiC; Reviewed

Probab=99.85  E-value=2.2e-21  Score=183.15  Aligned_cols=148  Identities=24%  Similarity=0.286  Sum_probs=119.1

Q ss_pred             CCCccccCcHHHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCH--HHHHHcCCCccc
Q 024705           97 RGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP--SLAEAMGIDAEN  174 (264)
Q Consensus        97 ~~~~i~tG~~~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~--~~~~~~g~~~~~  174 (264)
                      ..+.++||+++||.+++ ||+++|++++|.|+||+|||+|+.+++.+.+..|++++|+++|++..+  ..++.+|++.+.
T Consensus       251 ~~~~~~tGi~~lD~~l~-GG~~~g~~~li~G~~G~GKT~l~~~~~~~~~~~g~~~~yis~e~~~~~i~~~~~~~g~~~~~  329 (509)
T PRK09302        251 SNERISSGVPDLDEMLG-GGFFRGSIILVSGATGTGKTLLASKFAEAACRRGERCLLFAFEESRAQLIRNARSWGIDLEK  329 (509)
T ss_pred             ccccccCCcHHHHHhhc-CCCCCCcEEEEEcCCCCCHHHHHHHHHHHHHhCCCcEEEEEecCCHHHHHHHHHHcCCChHH
Confidence            35689999999999999 999999999999999999999999999999999999999999998776  456778887653


Q ss_pred             e------eEeC----CCCHHHHHHHHHHHhhcCCccEEEEcCccccccccccCCCcCCCCcHHHHHHHHHHHHHHHHHHh
Q 024705          175 L------LIAQ----PDSAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLC  244 (264)
Q Consensus       175 l------~~~~----~~~~ee~~~~i~~~~~~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r~i~~~L~~l~~~l~  244 (264)
                      .      .+..    ....++.+..+...++..+++++||||++.+.....          ..   .+.+.+..+...++
T Consensus       330 ~~~~g~l~i~~~~~~~~~~~~~~~~i~~~i~~~~~~~vVIDslt~l~~~~~----------~~---~~~~~l~~l~~~~k  396 (509)
T PRK09302        330 MEEKGLLKIICARPESYGLEDHLIIIKREIEEFKPSRVAIDPLSALARGGS----------LN---EFRQFVIRLTDYLK  396 (509)
T ss_pred             HhhcCCceeecCCcccCCHHHHHHHHHHHHHHcCCCEEEEcCHHHHHHhCC----------HH---HHHHHHHHHHHHHH
Confidence            2      2221    224567777788888778999999999999873110          01   23456777777779


Q ss_pred             ccCcEEEEEcccch
Q 024705          245 QSHTLIIFLNQVKV  258 (264)
Q Consensus       245 ~~g~tVi~i~h~~~  258 (264)
                      +.|+|+|+++|...
T Consensus       397 ~~~~t~l~t~~~~~  410 (509)
T PRK09302        397 SEEITGLFTNLTPD  410 (509)
T ss_pred             hCCCeEEEEecccc
Confidence            99999999998754

>PF03796 DnaB_C: DnaB-like helicase C terminal domain; InterPro: IPR007694 The hexameric helicase DnaB unwinds the DNA duplex at the Escherichia coli chromosome replication fork

Probab=99.85  E-value=3.1e-20  Score=160.94  Aligned_cols=153  Identities=24%  Similarity=0.294  Sum_probs=113.4

Q ss_pred             ccccCcHHHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHHhhc-CCeEEEEecCCCCCHH----HHHHcCCCcc-
Q 024705          100 VISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKL-GGYCAYLDVENALDPS----LAEAMGIDAE-  173 (264)
Q Consensus       100 ~i~tG~~~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~-g~~v~~~~~e~~~~~~----~~~~~g~~~~-  173 (264)
                      +++||++.||+++|  |+.+|++++|.|+||+|||+|+++++.+++.. +.+|+||+.|++..+.    .+...+++.. 
T Consensus         1 Gi~TG~~~LD~~lg--G~~~g~L~vi~a~pg~GKT~~~l~ia~~~a~~~~~~vly~SlEm~~~~l~~R~la~~s~v~~~~   78 (259)
T PF03796_consen    1 GIPTGFPALDRLLG--GLRPGELTVIAARPGVGKTAFALQIALNAALNGGYPVLYFSLEMSEEELAARLLARLSGVPYNK   78 (259)
T ss_dssp             SB-SSTHHHHHHHS--SB-TT-EEEEEESTTSSHHHHHHHHHHHHHHTTSSEEEEEESSS-HHHHHHHHHHHHHTSTHHH
T ss_pred             CCCCChHHHHHHhc--CCCcCcEEEEEecccCCchHHHHHHHHHHHHhcCCeEEEEcCCCCHHHHHHHHHHHhhcchhhh
Confidence            58999999999996  99999999999999999999999999999987 5899999999987662    2222343321 


Q ss_pred             ------------------------ceeEeC--CCCHHHHHHHHHHHhhc-CCccEEEEcCccccccccccCCCcCCCCcH
Q 024705          174 ------------------------NLLIAQ--PDSAENLLSVVDTLTKS-GSIDVIVVDSVAALIPKCEIGVPINGMYSD  226 (264)
Q Consensus       174 ------------------------~l~~~~--~~~~ee~~~~i~~~~~~-~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~  226 (264)
                                              .+.+.+  ..+.+++...++.+... .++++||||+++.+.+...      .....
T Consensus        79 i~~g~l~~~e~~~~~~~~~~l~~~~l~i~~~~~~~~~~i~~~i~~~~~~~~~~~~v~IDyl~ll~~~~~------~~~~~  152 (259)
T PF03796_consen   79 IRSGDLSDEEFERLQAAAEKLSDLPLYIEDTPSLTIDDIESKIRRLKREGKKVDVVFIDYLQLLKSEDS------SDNRR  152 (259)
T ss_dssp             HHCCGCHHHHHHHHHHHHHHHHTSEEEEEESSS-BHHHHHHHHHHHHHHSTTEEEEEEEEGGGSBTSCS------SSCCH
T ss_pred             hhccccCHHHHHHHHHHHHHHhhCcEEEECCCCCCHHHHHHHHHHHHhhccCCCEEEechHHHhcCCCC------CCCHH
Confidence                                    123322  34788888888887766 7899999999998875321      11223


Q ss_pred             HHHHHHHHHHHHHHHHHhccCcEEEEEcccchHhhhc
Q 024705          227 AQSRIMTQALRKIHYSLCQSHTLIIFLNQVKVLLLKH  263 (264)
Q Consensus       227 ~q~r~i~~~L~~l~~~l~~~g~tVi~i~h~~~~~~~~  263 (264)
                      .+...+++.|+.++   +++|++||+++|+++..+++
T Consensus       153 ~~~~~i~~~Lk~lA---~~~~i~vi~~sQlnr~~~~~  186 (259)
T PF03796_consen  153 QEIGEISRELKALA---KELNIPVIALSQLNREAEDR  186 (259)
T ss_dssp             HHHHHHHHHHHHHH---HHHTSEEEEEEEBSGGGGGS
T ss_pred             HHHHHHHHHHHHHH---HHcCCeEEEccccChhhhcc
Confidence            55555666666666   99999999999999887654

Although the mechanism by which DnaB both couples ATP hydrolysis to translocation along DNA and denatures the duplex is unknown, a change in the quaternary structure of the protein involving dimerization of the N-terminal domain has been observed and may occur during the enzymatic cycle. This C-terminal domain contains an ATP-binding site and is therefore probably the site of ATP hydrolysis. ; GO: 0003678 DNA helicase activity, 0005524 ATP binding, 0006260 DNA replication; PDB: 1Q57_E 1E0K_D 1E0J_B 1CR2_A 1CR4_A 1CR1_A 1CR0_A 1MI8_A 2R6D_B 2R6C_C ....

>PRK06321 replicative DNA helicase; Provisional

Probab=99.84  E-value=1.9e-19  Score=167.37  Aligned_cols=159  Identities=17%  Similarity=0.209  Sum_probs=117.4

Q ss_pred             CCCccccCcHHHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHHh-hcCCeEEEEecCCCCCHHHHH----HcCCC
Q 024705           97 RGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQ-KLGGYCAYLDVENALDPSLAE----AMGID  171 (264)
Q Consensus        97 ~~~~i~tG~~~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~-~~g~~v~~~~~e~~~~~~~~~----~~g~~  171 (264)
                      ...+++||+..||.+++  |+++|++++|+|+||+|||+|+++++.+++ ..|.+|+||+.|++..+...+    ..+++
T Consensus       205 ~~~Gi~tG~~~LD~~t~--Gl~~G~LiiiaarPgmGKTafal~ia~~~a~~~g~~v~~fSLEMs~~ql~~Rlla~~s~v~  282 (472)
T PRK06321        205 MISGIPTHFIDLDKMIN--GFSPSNLMILAARPAMGKTALALNIAENFCFQNRLPVGIFSLEMTVDQLIHRIICSRSEVE  282 (472)
T ss_pred             CCCccccCcHHHHHHhc--CCCCCcEEEEEeCCCCChHHHHHHHHHHHHHhcCCeEEEEeccCCHHHHHHHHHHhhcCCC
Confidence            35689999999999996  999999999999999999999999999987 458899999999987763222    11232


Q ss_pred             cc-------------------------ceeEeC--CCCHHHHHHHHHHHhhcCCccEEEEcCccccccccccCCCcCCCC
Q 024705          172 AE-------------------------NLLIAQ--PDSAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMY  224 (264)
Q Consensus       172 ~~-------------------------~l~~~~--~~~~ee~~~~i~~~~~~~~~~~vvIDsl~~~~~~~~~~~~~~~~~  224 (264)
                      ..                         .+++.+  ..+++++...++.+....++++||||+++.+........   .  
T Consensus       283 ~~~i~~~~l~~~e~~~~~~a~~~l~~~~~~idd~~~~ti~~i~~~~r~~~~~~~~~lvvIDyLql~~~~~~~~~---~--  357 (472)
T PRK06321        283 SKKISVGDLSGRDFQRIVSVVNEMQEHTLLIDDQPGLKITDLRARARRMKESYDIQFLIIDYLQLLSGSGNLRN---S--  357 (472)
T ss_pred             HHHhhcCCCCHHHHHHHHHHHHHHHcCCEEEeCCCCCCHHHHHHHHHHHHHhcCCCEEEEcchHHcCCCCccCC---c--
Confidence            21                         123332  346788888888887778899999999998753111100   0  


Q ss_pred             cHHHHHHHHHHHHHHHHHHhccCcEEEEEcccchHhhhc
Q 024705          225 SDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVKVLLLKH  263 (264)
Q Consensus       225 ~~~q~r~i~~~L~~l~~~l~~~g~tVi~i~h~~~~~~~~  263 (264)
                       +.+..++..+.+.|+.++++.|++||+++|+++.++.|
T Consensus       358 -~~r~~ei~~Isr~LK~lAkel~vpVi~lsQLnR~~e~r  395 (472)
T PRK06321        358 -ESRQTEISEISRMLKNLARELNIPILCLSQLSRKVEDR  395 (472)
T ss_pred             -chHHHHHHHHHHHHHHHHHHhCCcEEEEeecChhhhcc
Confidence             12223344555555555599999999999999998765

>PHA02542 41 41 helicase; Provisional

Probab=99.84  E-value=3e-20  Score=172.70  Aligned_cols=160  Identities=16%  Similarity=0.169  Sum_probs=117.8

Q ss_pred             CCCccccCcHHHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCHH--H--HHHcCCCc
Q 024705           97 RGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPS--L--AEAMGIDA  172 (264)
Q Consensus        97 ~~~~i~tG~~~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~~--~--~~~~g~~~  172 (264)
                      ...+++||++.||.+++ ||+.+|++++|+|+||+|||+|+++++.+++..|.+|+||+.|++..+.  |  +...+++.
T Consensus       168 ~~~gi~TG~~~LD~~t~-gGl~~G~LiiIaarPgmGKTtfalniA~~~a~~g~~Vl~fSLEM~~~ql~~Rl~a~~~~i~~  246 (473)
T PHA02542        168 KANKIPFKLEILNKITK-GGAERKTLNVLLAGVNVGKSLGLCSLAADYLQQGYNVLYISMEMAEEVIAKRIDANLLDVSL  246 (473)
T ss_pred             CCCccCCCcHHHHHhcc-CCCCCCcEEEEEcCCCccHHHHHHHHHHHHHhcCCcEEEEeccCCHHHHHHHHHHHHcCCCH
Confidence            36789999999999997 8999999999999999999999999999998889999999999988762  1  22234443


Q ss_pred             c-----------------------ceeEeC----CCCHHHHHHHHHHHhhcCC--ccEEEEcCccccccccccCCCcCCC
Q 024705          173 E-----------------------NLLIAQ----PDSAENLLSVVDTLTKSGS--IDVIVVDSVAALIPKCEIGVPINGM  223 (264)
Q Consensus       173 ~-----------------------~l~~~~----~~~~ee~~~~i~~~~~~~~--~~~vvIDsl~~~~~~~~~~~~~~~~  223 (264)
                      +                       ++++..    ..++.++...++++....+  +++||||+++.+.+ ....+..  .
T Consensus       247 ~~l~~l~~~~~~~~~~~~~~~~~~~l~I~~~d~~~lt~~~ir~~~rrlk~~~g~~~dlVvIDYLqL~~~-~~~~~~~--~  323 (473)
T PHA02542        247 DDIDDLSKAEYKAKMEKLRSKTQGKLIIKQYPTGGAHAGHFRALLNELKLKKNFKPDVIIVDYLGICAS-SRLRVSS--E  323 (473)
T ss_pred             HHHhhcCHHHHHHHHHHHHHHhCCCceeecCCCCCCCHHHHHHHHHHHHHhcCCCCCEEEEechhhccC-CcccCCC--C
Confidence            2                       222221    2356788888877764443  89999999998863 1111111  1


Q ss_pred             CcHHHHHHHHHHHHHHHHHHhccCcEEEEEcccchHhhhc
Q 024705          224 YSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVKVLLLKH  263 (264)
Q Consensus       224 ~~~~q~r~i~~~L~~l~~~l~~~g~tVi~i~h~~~~~~~~  263 (264)
                      ....+...+++.|+.++   +++|++||+++|+++.++.+
T Consensus       324 nr~~ei~~Isr~LK~lA---kel~vpVi~lsQLnR~~e~r  360 (473)
T PHA02542        324 NSYTYVKAIAEELRGLA---VEHDVVVWTAAQTTRSGWDS  360 (473)
T ss_pred             ChHHHHHHHHHHHHHHH---HHhCCeEEEEEeeCcccccc
Confidence            11233444555555555   99999999999999998765

>PRK08506 replicative DNA helicase; Provisional

Probab=99.84  E-value=1.4e-19  Score=168.87  Aligned_cols=156  Identities=19%  Similarity=0.225  Sum_probs=116.9

Q ss_pred             CCCccccCcHHHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCHHH----HHHcCCCc
Q 024705           97 RGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSL----AEAMGIDA  172 (264)
Q Consensus        97 ~~~~i~tG~~~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~~~----~~~~g~~~  172 (264)
                      ...+++||++.||.+++  |+.+|++++|+|+||+|||+|+++++.+++..|.+|+||+.|++..+..    +...|++.
T Consensus       171 ~~~Gi~TG~~~LD~~~~--G~~~G~LivIaarpg~GKT~fal~ia~~~~~~g~~V~~fSlEMs~~ql~~Rlla~~s~v~~  248 (472)
T PRK08506        171 DIIGLDTGFVELNKMTK--GFNKGDLIIIAARPSMGKTTLCLNMALKALNQDKGVAFFSLEMPAEQLMLRMLSAKTSIPL  248 (472)
T ss_pred             CCCcccCChHHHHhhcC--CCCCCceEEEEcCCCCChHHHHHHHHHHHHhcCCcEEEEeCcCCHHHHHHHHHHHhcCCCH
Confidence            35689999999999985  9999999999999999999999999999988899999999999877622    22223322


Q ss_pred             c-------------------------ceeEeC--CCCHHHHHHHHHHHhhc-CCccEEEEcCccccccccccCCCcCCCC
Q 024705          173 E-------------------------NLLIAQ--PDSAENLLSVVDTLTKS-GSIDVIVVDSVAALIPKCEIGVPINGMY  224 (264)
Q Consensus       173 ~-------------------------~l~~~~--~~~~ee~~~~i~~~~~~-~~~~~vvIDsl~~~~~~~~~~~~~~~~~  224 (264)
                      +                         ++++.+  ..+++++...++.+... +++++||||+++.+......      ..
T Consensus       249 ~~i~~~~l~~~e~~~~~~a~~~l~~~~l~I~d~~~~ti~~I~~~~r~l~~~~~~~~lvvIDyLql~~~~~~~------~~  322 (472)
T PRK08506        249 QNLRTGDLDDDEWERLSDACDELSKKKLFVYDSGYVNIHQVRAQLRKLKSQHPEIGLAVIDYLQLMSGSGNF------KD  322 (472)
T ss_pred             HHHhcCCCCHHHHHHHHHHHHHHHcCCeEEECCCCCCHHHHHHHHHHHHHhCCCCCEEEEcChhhccCCCCC------CC
Confidence            1                         234433  24688888888887654 46899999999977531110      11


Q ss_pred             cHHHHHHHHHHHHHHHHHHhccCcEEEEEcccchHhhhc
Q 024705          225 SDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVKVLLLKH  263 (264)
Q Consensus       225 ~~~q~r~i~~~L~~l~~~l~~~g~tVi~i~h~~~~~~~~  263 (264)
                      ...+...+++.|+.++   +++|++||+++|+++.++.|
T Consensus       323 r~~ev~~isr~LK~lA---kel~ipVi~lsQLnR~~e~r  358 (472)
T PRK08506        323 RHLQISEISRGLKLLA---RELDIPIIALSQLNRSLESR  358 (472)
T ss_pred             HHHHHHHHHHHHHHHH---HHhCCcEEEEeecCcchhhc
Confidence            1233444555565555   99999999999999988754

>PRK09165 replicative DNA helicase; Provisional

Probab=99.84  E-value=6.9e-20  Score=171.81  Aligned_cols=158  Identities=25%  Similarity=0.309  Sum_probs=118.7

Q ss_pred             CCCccccCcHHHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHHhhc---------------CCeEEEEecCCCCC
Q 024705           97 RGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKL---------------GGYCAYLDVENALD  161 (264)
Q Consensus        97 ~~~~i~tG~~~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~---------------g~~v~~~~~e~~~~  161 (264)
                      ...+++||+++||.++|  |+.+|++++|+|+||+|||+|+++++.+++..               |.+|+||+.|++..
T Consensus       196 ~~~gi~TG~~~LD~~~g--G~~~g~livIaarpg~GKT~~al~ia~~~a~~~~~~~~~~~~~~~~~g~~vl~fSlEMs~~  273 (497)
T PRK09165        196 HLSGISTGLRDLDSKLG--GLHPSDLIILAGRPSMGKTALATNIAFNAAKAYRREAQPDGSKKAVNGGVVGFFSLEMSAE  273 (497)
T ss_pred             CCCcccCChHHHhhhcC--CCCCCceEEEEeCCCCChHHHHHHHHHHHHHhhcccccccccccccCCCeEEEEeCcCCHH
Confidence            45789999999999996  99999999999999999999999999988753               68899999999987


Q ss_pred             HHH----HHHcCCCccc-------------------------eeEeC--CCCHHHHHHHHHHHhhcCCccEEEEcCcccc
Q 024705          162 PSL----AEAMGIDAEN-------------------------LLIAQ--PDSAENLLSVVDTLTKSGSIDVIVVDSVAAL  210 (264)
Q Consensus       162 ~~~----~~~~g~~~~~-------------------------l~~~~--~~~~ee~~~~i~~~~~~~~~~~vvIDsl~~~  210 (264)
                      +..    +...|++..+                         +++.+  ..+++++...++++...+++++||||+++.+
T Consensus       274 ql~~R~la~~s~v~~~~i~~~~l~~~e~~~l~~a~~~l~~~~l~I~d~~~~ti~~i~~~ir~l~~~~~~~lvvIDyLqli  353 (497)
T PRK09165        274 QLATRILSEQSEISSSKIRRGKISEEDFEKLVDASQELQKLPLYIDDTPALSISQLRARARRLKRQHGLDLLVVDYLQLI  353 (497)
T ss_pred             HHHHHHHHHhcCCCHHHHhcCCCCHHHHHHHHHHHHHHhcCCeEEeCCCCCCHHHHHHHHHHHHHhcCCCEEEEcchHhc
Confidence            732    2333443321                         33332  2468889888888877788999999999987


Q ss_pred             ccccccCCCcCCCCcHHHHHHHHHHHHHHHHHHhccCcEEEEEcccchHhhhc
Q 024705          211 IPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVKVLLLKH  263 (264)
Q Consensus       211 ~~~~~~~~~~~~~~~~~q~r~i~~~L~~l~~~l~~~g~tVi~i~h~~~~~~~~  263 (264)
                      ..... .  . ......+...+++.|+.++   ++.|++||+++|+++.++.|
T Consensus       354 ~~~~~-~--~-~~~r~~ev~~is~~LK~lA---kel~ipVi~lsQLnR~~e~r  399 (497)
T PRK09165        354 RGSSK-R--S-SDNRVQEISEITQGLKALA---KELNIPVIALSQLSRQVEQR  399 (497)
T ss_pred             cCCCC-C--C-CCchHHHHHHHHHHHHHHH---HHhCCeEEEeecccchhhcc
Confidence            63111 0  0 1111234455555555555   99999999999999998764

>PRK08760 replicative DNA helicase; Provisional

Probab=99.83  E-value=1.6e-19  Score=168.42  Aligned_cols=156  Identities=21%  Similarity=0.214  Sum_probs=116.6

Q ss_pred             CCCccccCcHHHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHHhh-cCCeEEEEecCCCCCHHHHHH----cCCC
Q 024705           97 RGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQK-LGGYCAYLDVENALDPSLAEA----MGID  171 (264)
Q Consensus        97 ~~~~i~tG~~~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~-~g~~v~~~~~e~~~~~~~~~~----~g~~  171 (264)
                      ...+++||++.||.+++  |+.+|++++|+|+||+|||+|+++++.+++. .|.+|+||+.|++..+...+.    -+++
T Consensus       208 ~~~Gi~TG~~~LD~~t~--G~~~G~LivIaarPg~GKTafal~iA~~~a~~~g~~V~~fSlEMs~~ql~~Rl~a~~s~i~  285 (476)
T PRK08760        208 NITGLPTGYNDFDAMTA--GLQPTDLIILAARPAMGKTTFALNIAEYAAIKSKKGVAVFSMEMSASQLAMRLISSNGRIN  285 (476)
T ss_pred             CCCcccCCcHHHHHHhc--CCCCCceEEEEeCCCCChhHHHHHHHHHHHHhcCCceEEEeccCCHHHHHHHHHHhhCCCc
Confidence            45689999999999986  8999999999999999999999999998875 488999999999877622111    1222


Q ss_pred             cc-------------------------ceeEeCC--CCHHHHHHHHHHHhhcCCccEEEEcCccccccccccCCCcCCCC
Q 024705          172 AE-------------------------NLLIAQP--DSAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMY  224 (264)
Q Consensus       172 ~~-------------------------~l~~~~~--~~~ee~~~~i~~~~~~~~~~~vvIDsl~~~~~~~~~~~~~~~~~  224 (264)
                      ..                         ++++.+.  .+++++...++.+....++++||||+++.+.....      ...
T Consensus       286 ~~~i~~g~l~~~e~~~~~~a~~~l~~~~l~I~d~~~~t~~~I~~~~r~l~~~~~~~lVvIDyLql~~~~~~------~~~  359 (476)
T PRK08760        286 AQRLRTGALEDEDWARVTGAIKMLKETKIFIDDTPGVSPEVLRSKCRRLKREHDLGLIVIDYLQLMSVPGN------SEN  359 (476)
T ss_pred             HHHHhcCCCCHHHHHHHHHHHHHHhcCCEEEeCCCCCCHHHHHHHHHHHHHhcCCCEEEEecHHhcCCCCC------Ccc
Confidence            11                         2333332  46888988888888778899999999997752111      011


Q ss_pred             cHHHHHHHHHHHHHHHHHHhccCcEEEEEcccchHhhhc
Q 024705          225 SDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVKVLLLKH  263 (264)
Q Consensus       225 ~~~q~r~i~~~L~~l~~~l~~~g~tVi~i~h~~~~~~~~  263 (264)
                      ...+...+++.|+.++   ++++++||+++|+++.++.|
T Consensus       360 r~~ei~~Isr~LK~lA---kel~ipVi~lsQLnR~~e~r  395 (476)
T PRK08760        360 RATEISEISRSLKGLA---KELNVPVIALSQLNRSLETR  395 (476)
T ss_pred             cHHHHHHHHHHHHHHH---HHhCCEEEEeeccCcccccc
Confidence            2234445555566555   99999999999999988754

>PRK05595 replicative DNA helicase; Provisional

Probab=99.83  E-value=2.8e-19  Score=166.09  Aligned_cols=156  Identities=19%  Similarity=0.250  Sum_probs=116.4

Q ss_pred             CCCccccCcHHHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHHh-hcCCeEEEEecCCCCCHHH----HHHcCCC
Q 024705           97 RGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQ-KLGGYCAYLDVENALDPSL----AEAMGID  171 (264)
Q Consensus        97 ~~~~i~tG~~~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~-~~g~~v~~~~~e~~~~~~~----~~~~g~~  171 (264)
                      ...+++||++.||.+++  |+.+|++++|+|+||+|||+|+++++.+++ ..|.+|+||+.|++..+..    +...+++
T Consensus       180 ~~~gi~tg~~~ld~~~~--G~~~g~liviaarpg~GKT~~al~ia~~~a~~~g~~vl~fSlEms~~~l~~R~~a~~~~v~  257 (444)
T PRK05595        180 ETTGVASGFRELDAKTS--GFQKGDMILIAARPSMGKTTFALNIAEYAALREGKSVAIFSLEMSKEQLAYKLLCSEANVD  257 (444)
T ss_pred             CCCcccCChHHHHHhcC--CCCCCcEEEEEecCCCChHHHHHHHHHHHHHHcCCcEEEEecCCCHHHHHHHHHHHhcCCC
Confidence            35689999999999985  999999999999999999999999998765 5688999999999876621    2223333


Q ss_pred             cc-------------------------ceeEeC--CCCHHHHHHHHHHHhhcCCccEEEEcCccccccccccCCCcCCCC
Q 024705          172 AE-------------------------NLLIAQ--PDSAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMY  224 (264)
Q Consensus       172 ~~-------------------------~l~~~~--~~~~ee~~~~i~~~~~~~~~~~vvIDsl~~~~~~~~~~~~~~~~~  224 (264)
                      ..                         ++++.+  ..+++++...++.+....++++||||+++.+.....      ...
T Consensus       258 ~~~~~~~~l~~~e~~~~~~~~~~l~~~~l~i~d~~~~t~~~i~~~~r~~~~~~~~~~vvIDylql~~~~~~------~~~  331 (444)
T PRK05595        258 MLRLRTGNLEDKDWENIARASGPLAAAKIFIDDTAGVSVMEMRSKCRRLKIEHGIDMILIDYLQLMSGGKG------SES  331 (444)
T ss_pred             HHHHhcCCCCHHHHHHHHHHHHHHhcCCEEEECCCCCCHHHHHHHHHHHHHhcCCCEEEEeHHHhccCCCC------Ccc
Confidence            22                         233333  245788888888887777899999999998753111      111


Q ss_pred             cHHHHHHHHHHHHHHHHHHhccCcEEEEEcccchHhhhc
Q 024705          225 SDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVKVLLLKH  263 (264)
Q Consensus       225 ~~~q~r~i~~~L~~l~~~l~~~g~tVi~i~h~~~~~~~~  263 (264)
                      ...+...+++.|+.++   ++.|++||+++|+++..++|
T Consensus       332 r~~~v~~is~~LK~lA---ke~~i~vi~lsQLnR~~e~r  367 (444)
T PRK05595        332 RQQEVSEISRSIKALA---KEMECPVIALSQLSRAPEQR  367 (444)
T ss_pred             HHHHHHHHHHHHHHHH---HHhCCeEEEeeccCcchhcc
Confidence            2233444555555555   99999999999999988764

>TIGR00665 DnaB replicative DNA helicase

Probab=99.83  E-value=2.9e-19  Score=165.69  Aligned_cols=155  Identities=18%  Similarity=0.234  Sum_probs=114.3

Q ss_pred             CCCccccCcHHHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHHhh-cCCeEEEEecCCCCCHHH----HHHcCCC
Q 024705           97 RGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQK-LGGYCAYLDVENALDPSL----AEAMGID  171 (264)
Q Consensus        97 ~~~~i~tG~~~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~-~g~~v~~~~~e~~~~~~~----~~~~g~~  171 (264)
                      ...+++||++.||.+++  |+++|++++|.|+||+|||+|+++++.+++. .|.+|+||+.|++..+..    +...+++
T Consensus       174 ~~~gi~tG~~~LD~~~~--G~~~G~l~vi~g~pg~GKT~~~l~~a~~~a~~~g~~vl~~SlEm~~~~i~~R~~~~~~~v~  251 (434)
T TIGR00665       174 GITGVPTGFTDLDKLTS--GLQPSDLIILAARPSMGKTAFALNIAENAAIKEGKPVAFFSLEMSAEQLAMRMLSSESRVD  251 (434)
T ss_pred             CCCcccCCchhhHhhcC--CCCCCeEEEEEeCCCCChHHHHHHHHHHHHHhCCCeEEEEeCcCCHHHHHHHHHHHhcCCC
Confidence            46789999999999985  9999999999999999999999999998775 588999999999877622    1112332


Q ss_pred             cc-------------------------ceeEeC--CCCHHHHHHHHHHHhhcCCccEEEEcCccccccccccCCCcCCCC
Q 024705          172 AE-------------------------NLLIAQ--PDSAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMY  224 (264)
Q Consensus       172 ~~-------------------------~l~~~~--~~~~ee~~~~i~~~~~~~~~~~vvIDsl~~~~~~~~~~~~~~~~~  224 (264)
                      ..                         .+++.+  ..+++++...++.+....++++||||+++.+.....  .    ..
T Consensus       252 ~~~~~~g~l~~~~~~~~~~a~~~l~~~~l~i~d~~~~~~~~i~~~i~~~~~~~~~~~vvID~l~~i~~~~~--~----~~  325 (434)
T TIGR00665       252 SQKLRTGKLSDEDWEKLTSAAGKLSEAPLYIDDTPGLTITELRAKARRLKREHGLGLIVIDYLQLMSGSGR--S----EN  325 (434)
T ss_pred             HHHhccCCCCHHHHHHHHHHHHHHhcCCEEEECCCCCCHHHHHHHHHHHHHhcCCCEEEEcchHhcCCCCC--C----CC
Confidence            11                         223322  246788888888888778899999999998753111  0    11


Q ss_pred             cHHHHHHHHHHHHHHHHHHhccCcEEEEEcccchHhhh
Q 024705          225 SDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVKVLLLK  262 (264)
Q Consensus       225 ~~~q~r~i~~~L~~l~~~l~~~g~tVi~i~h~~~~~~~  262 (264)
                      ...+...+++.|+.   .++++|++||+++|+++..+.
T Consensus       326 r~~~i~~i~~~Lk~---lA~e~~i~vi~lsqlnr~~~~  360 (434)
T TIGR00665       326 RQQEVSEISRSLKA---LAKELNVPVIALSQLSRSVEQ  360 (434)
T ss_pred             HHHHHHHHHHHHHH---HHHHhCCeEEEEeccCcchhc
Confidence            11223334444444   459999999999999987654

This model describes the helicase DnaB, a homohexameric protein required for DNA replication. The homohexamer can form a ring around a single strand of DNA near a replication fork. An intein of 400 residues is found at a conserved location in DnaB of Synechocystis PCC6803, Rhodothermus marinus (both experimentally confirmed), and Mycobacterium tuberculosis. The intein removes itself by a self-splicing reaction. The seed alignment contains inteins so that the model built from the seed alignment will model a low cost at common intein insertion sites.

>PRK05748 replicative DNA helicase; Provisional

Probab=99.83  E-value=4.4e-19  Score=165.03  Aligned_cols=157  Identities=17%  Similarity=0.204  Sum_probs=115.5

Q ss_pred             CCCccccCcHHHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHHhh-cCCeEEEEecCCCCCHHHHHH----cCCC
Q 024705           97 RGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQK-LGGYCAYLDVENALDPSLAEA----MGID  171 (264)
Q Consensus        97 ~~~~i~tG~~~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~-~g~~v~~~~~e~~~~~~~~~~----~g~~  171 (264)
                      ...+++||++.||.+++  |+++|++++|+|+||+|||+|+++++.+++. .|.+|+||+.|++..+...+.    -+++
T Consensus       182 ~~~gi~TG~~~LD~~~~--G~~~G~livIaarpg~GKT~~al~ia~~~a~~~g~~v~~fSlEms~~~l~~R~l~~~~~v~  259 (448)
T PRK05748        182 DITGIPTGFTDLDKMTS--GLQPNDLIIVAARPSVGKTAFALNIAQNVATKTDKNVAIFSLEMGAESLVMRMLCAEGNID  259 (448)
T ss_pred             CCCCccCChHHHHHhcC--CCCCCceEEEEeCCCCCchHHHHHHHHHHHHhCCCeEEEEeCCCCHHHHHHHHHHHhcCCC
Confidence            45789999999999985  9999999999999999999999999998774 588999999999887632221    1222


Q ss_pred             cc-------------------------ceeEeC--CCCHHHHHHHHHHHhhcC-CccEEEEcCccccccccccCCCcCCC
Q 024705          172 AE-------------------------NLLIAQ--PDSAENLLSVVDTLTKSG-SIDVIVVDSVAALIPKCEIGVPINGM  223 (264)
Q Consensus       172 ~~-------------------------~l~~~~--~~~~ee~~~~i~~~~~~~-~~~~vvIDsl~~~~~~~~~~~~~~~~  223 (264)
                      ..                         ++++.+  ..+++++...++.+.... ++++||||+++.+... .   ..++ 
T Consensus       260 ~~~i~~~~l~~~e~~~~~~a~~~l~~~~~~i~d~~~~ti~~i~~~~r~~~~~~~~~~~vvIDyL~li~~~-~---~~~~-  334 (448)
T PRK05748        260 AQRLRTGQLTDDDWPKLTIAMGSLSDAPIYIDDTPGIKVTEIRARCRRLAQEHGGLGLILIDYLQLIQGS-G---RSGE-  334 (448)
T ss_pred             HHHhhcCCCCHHHHHHHHHHHHHHhcCCEEEECCCCCCHHHHHHHHHHHHHhcCCCCEEEEccchhcCCC-C---CCCc-
Confidence            11                         223322  246788888888887765 7999999999988531 1   1101 


Q ss_pred             CcHHHHHHHHHHHHHHHHHHhccCcEEEEEcccchHhhhc
Q 024705          224 YSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVKVLLLKH  263 (264)
Q Consensus       224 ~~~~q~r~i~~~L~~l~~~l~~~g~tVi~i~h~~~~~~~~  263 (264)
                         ....++....+.|+..++++|++||+++|+++.++.|
T Consensus       335 ---~r~~~i~~i~~~LK~lAke~~i~vi~lsQlnr~~~~r  371 (448)
T PRK05748        335 ---NRQQEVSEISRSLKALAKELKVPVIALSQLSRGVEQR  371 (448)
T ss_pred             ---CHHHHHHHHHHHHHHHHHHhCCeEEEecccChhHhhc
Confidence               1222344444555555599999999999999987654

>PRK08006 replicative DNA helicase; Provisional

Probab=99.82  E-value=3.2e-19  Score=165.97  Aligned_cols=156  Identities=15%  Similarity=0.190  Sum_probs=115.4

Q ss_pred             CCCccccCcHHHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHHhh-cCCeEEEEecCCCCCHHHHHH----cCCC
Q 024705           97 RGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQK-LGGYCAYLDVENALDPSLAEA----MGID  171 (264)
Q Consensus        97 ~~~~i~tG~~~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~-~g~~v~~~~~e~~~~~~~~~~----~g~~  171 (264)
                      ...+++||+++||.+++  |+.+|++++|+|+||+|||+|+++++.+++. .|.+|+||+.|++..+...+.    .+++
T Consensus       203 ~~~Gi~TG~~~LD~~~~--Gl~~G~LiiIaarPgmGKTafalnia~~~a~~~g~~V~~fSlEM~~~ql~~Rlla~~~~v~  280 (471)
T PRK08006        203 GVTGVNTGYDDLNKKTA--GLQPSDLIIVAARPSMGKTTFAMNLCENAAMLQDKPVLIFSLEMPGEQIMMRMLASLSRVD  280 (471)
T ss_pred             CCCcccCCCHHHHHhhc--CCCCCcEEEEEeCCCCCHHHHHHHHHHHHHHhcCCeEEEEeccCCHHHHHHHHHHHhcCCC
Confidence            35689999999999985  9999999999999999999999999999874 588999999999876522111    1111


Q ss_pred             c--------------------------cceeEeC--CCCHHHHHHHHHHHhhcC-CccEEEEcCccccccccccCCCcCC
Q 024705          172 A--------------------------ENLLIAQ--PDSAENLLSVVDTLTKSG-SIDVIVVDSVAALIPKCEIGVPING  222 (264)
Q Consensus       172 ~--------------------------~~l~~~~--~~~~ee~~~~i~~~~~~~-~~~~vvIDsl~~~~~~~~~~~~~~~  222 (264)
                      .                          .++++.+  ..++.++...++++...+ ++++||||+++.+.....      .
T Consensus       281 ~~~i~~~~l~~~e~~~~~~a~~~~~~~~~l~I~d~~~~t~~~i~~~~r~~~~~~~~~~lvvIDYLqli~~~~~------~  354 (471)
T PRK08006        281 QTRIRTGQLDDEDWARISGTMGILLEKRNMYIDDSSGLTPTEVRSRARRIFREHGGLSLIMIDYLQLMRVPSL------S  354 (471)
T ss_pred             HHHhhcCCCCHHHHHHHHHHHHHHHhcCCEEEECCCCCCHHHHHHHHHHHHHhcCCCCEEEEccHHHccCCCC------C
Confidence            1                          1234433  246888888888876654 699999999998753111      0


Q ss_pred             CCcHHHHHHHHHHHHHHHHHHhccCcEEEEEcccchHhhhc
Q 024705          223 MYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVKVLLLKH  263 (264)
Q Consensus       223 ~~~~~q~r~i~~~L~~l~~~l~~~g~tVi~i~h~~~~~~~~  263 (264)
                      .....+...+++.|+.++   ++.|++||+++|+++.++.|
T Consensus       355 ~~r~~ei~~isr~LK~lA---kel~ipVi~LsQLnR~~e~r  392 (471)
T PRK08006        355 DNRTLEIAEISRSLKALA---KELQVPVVALSQLNRSLEQR  392 (471)
T ss_pred             CCcHHHHHHHHHHHHHHH---HHhCCeEEEEEecCcccccc
Confidence            111233444555555555   99999999999999988765

>TIGR02655 circ_KaiC circadian clock protein KaiC

Probab=99.82  E-value=1.1e-19  Score=170.25  Aligned_cols=148  Identities=18%  Similarity=0.208  Sum_probs=112.1

Q ss_pred             CccccCcHHHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHHhhc-CCeEEEEecCCCCCH--HHHHHcCCCccc-
Q 024705           99 PVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKL-GGYCAYLDVENALDP--SLAEAMGIDAEN-  174 (264)
Q Consensus        99 ~~i~tG~~~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~-g~~v~~~~~e~~~~~--~~~~~~g~~~~~-  174 (264)
                      ++++||++.||.+++ ||+++|++++|.|+||+|||||+.+++.+.+.+ |++++|+++|++..+  ..++++|++.+. 
T Consensus         1 ~r~~TGI~gLD~il~-GGlp~g~~~Li~G~pGsGKT~la~qfl~~g~~~~ge~~lyvs~eE~~~~l~~~~~~~G~~~~~~   79 (484)
T TIGR02655         1 AKIRTMIEGFDDISH-GGLPIGRSTLVSGTSGTGKTLFSIQFLYNGIIHFDEPGVFVTFEESPQDIIKNARSFGWDLQKL   79 (484)
T ss_pred             CcCCCCchhHHHhcC-CCCCCCeEEEEEcCCCCCHHHHHHHHHHHHHHhCCCCEEEEEEecCHHHHHHHHHHcCCCHHHH
Confidence            358999999999999 999999999999999999999999999887666 899999999988877  467789998763 


Q ss_pred             -----eeEeC------------CCCHHHHHHHHHHHhhcCCccEEEEcCccccccccccCCCcCCCCcHHHHHHHHHHHH
Q 024705          175 -----LLIAQ------------PDSAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALR  237 (264)
Q Consensus       175 -----l~~~~------------~~~~ee~~~~i~~~~~~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r~i~~~L~  237 (264)
                           +.+.+            ....++++..+...+..++++.|+||++..+....+  ..      ....    +.+.
T Consensus        80 ~~~g~l~~~~~~~~~~~~~~~~~~~l~~~l~~i~~~ls~g~~qRVvIDSl~aL~~~~~--~~------~~~r----~~l~  147 (484)
T TIGR02655        80 VDEGKLFILDASPDPEGQDVVGGFDLSALIERINYAIRKYKAKRVSIDSVTAVFQQYD--AV------SVVR----REIF  147 (484)
T ss_pred             hhcCceEEEecCchhccccccccCCHHHHHHHHHHHHHHhCCcEEEEeehhHhhhhcC--ch------HHHH----HHHH
Confidence                 33322            124456666666777778999999999998763111  10      0122    2333


Q ss_pred             HHHHHHhccCcEEEEEcccchH
Q 024705          238 KIHYSLCQSHTLIIFLNQVKVL  259 (264)
Q Consensus       238 ~l~~~l~~~g~tVi~i~h~~~~  259 (264)
                      ++...+++.|+|+|+++|..+.
T Consensus       148 ~Li~~L~~~g~TvLLtsh~~~~  169 (484)
T TIGR02655       148 RLVARLKQIGVTTVMTTERIEE  169 (484)
T ss_pred             HHHHHHHHCCCEEEEEecCccc
Confidence            4444447789999999997653

Members of this family are the circadian clock protein KaiC, part of the kaiABC operon that controls circadian rhythm. It may be universal in Cyanobacteria. Each member has two copies of the KaiC domain (Pfam model pfam06745), which is also found in other proteins. KaiC performs autophosphorylation and acts as its own transcriptional repressor.

>cd01122 GP4d_helicase GP4d_helicase is a homohexameric 5'-3' helicases

Probab=99.81  E-value=2.1e-19  Score=156.50  Aligned_cols=154  Identities=14%  Similarity=0.169  Sum_probs=112.9

Q ss_pred             CCCccccCcHHHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHHhhc-CCeEEEEecCCCCCHH--H--HHHcCCC
Q 024705           97 RGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKL-GGYCAYLDVENALDPS--L--AEAMGID  171 (264)
Q Consensus        97 ~~~~i~tG~~~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~-g~~v~~~~~e~~~~~~--~--~~~~g~~  171 (264)
                      +.++++||++.||.++|  |+++|++++|.|+||+|||+|+.+++.+++.. |.+|+|++.|+.....  +  +...|++
T Consensus         9 ~~~~~~tg~~~Ld~~~g--G~~~g~~~~i~g~~G~GKT~l~~~~~~~~~~~~g~~vl~iS~E~~~~~~~~r~~~~~~~~~   86 (271)
T cd01122           9 SNEEVWWPFPVLNKLTK--GLRKGELIILTAGTGVGKTTFLREYALDLITQHGVRVGTISLEEPVVRTARRLLGQYAGKR   86 (271)
T ss_pred             cccCCCCCcceeeeeeE--EEcCCcEEEEEcCCCCCHHHHHHHHHHHHHHhcCceEEEEEcccCHHHHHHHHHHHHhCCC
Confidence            34589999999999985  99999999999999999999999999998877 9999999999976552  1  1112332


Q ss_pred             cc------------------------ceeEeCC---CCHHHHHHHHHHHhhcCCccEEEEcCccccccccccCCCcCCCC
Q 024705          172 AE------------------------NLLIAQP---DSAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMY  224 (264)
Q Consensus       172 ~~------------------------~l~~~~~---~~~ee~~~~i~~~~~~~~~~~vvIDsl~~~~~~~~~~~~~~~~~  224 (264)
                      ..                        .+.++..   .+.+++...++.++...++++||||+++.+..... ..    . 
T Consensus        87 ~~~~~~~~~~~~~~~~~~~~~~~~~~~l~i~d~~~~~~~~~i~~~i~~~~~~~~~~~vvID~l~~l~~~~~-~~----~-  160 (271)
T cd01122          87 LHLPDTVFIYTLEEFDAAFDEFEGTGRLFMYDSFGEYSMDSVLEKVRYMAVSHGIQHIIIDNLSIMVSDER-AS----G-  160 (271)
T ss_pred             cccCCccccccHHHHHHHHHHhcCCCcEEEEcCCCccCHHHHHHHHHHHHhcCCceEEEECCHHHHhccCC-Cc----h-
Confidence            21                        2333332   25778888888887778999999999999874210 00    0 


Q ss_pred             cHHHHHHHHHHHHHHHHHHhccCcEEEEEcccchHh
Q 024705          225 SDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVKVLL  260 (264)
Q Consensus       225 ~~~q~r~i~~~L~~l~~~l~~~g~tVi~i~h~~~~~  260 (264)
                        .....+...+..|...++++|++|++++|.++..
T Consensus       161 --~~~~~~~~~~~~L~~la~~~~vtvll~sq~~~~~  194 (271)
T cd01122         161 --DERKALDEIMTKLRGFATEHGIHITLVSHLRRPD  194 (271)
T ss_pred             --hHHHHHHHHHHHHHHHHHHhCCEEEEEecccCcc
Confidence              1122233445555555599999999999998643

Helicases couple NTP hydrolysis to the unwinding of nucleic acid duplexes into their component strands.

>PRK09302 circadian clock protein KaiC; Reviewed

Probab=99.81  E-value=2e-19  Score=169.94  Aligned_cols=150  Identities=23%  Similarity=0.282  Sum_probs=116.5

Q ss_pred             CCCCccccCcHHHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHHhhc-CCeEEEEecCCCCCH--HHHHHcCCCc
Q 024705           96 RRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKL-GGYCAYLDVENALDP--SLAEAMGIDA  172 (264)
Q Consensus        96 ~~~~~i~tG~~~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~-g~~v~~~~~e~~~~~--~~~~~~g~~~  172 (264)
                      ...++++||++.||.+++ ||+++|++++|.|+||+|||+|+.+++.+.+.+ |++|+|+++|++..+  ..+..+|++.
T Consensus         8 ~~~~ri~TGI~~LD~~l~-GG~p~Gs~~li~G~pGsGKT~l~~qf~~~~~~~~ge~~lyis~ee~~~~i~~~~~~~g~d~   86 (509)
T PRK09302          8 PGIEKLPTGIEGFDDITH-GGLPKGRPTLVSGTAGTGKTLFALQFLVNGIKRFDEPGVFVTFEESPEDIIRNVASFGWDL   86 (509)
T ss_pred             CCCccccCCchhHHHhhc-CCCCCCcEEEEEeCCCCCHHHHHHHHHHHHHHhcCCCEEEEEccCCHHHHHHHHHHcCCCH
Confidence            356799999999999999 999999999999999999999999999988877 999999999998887  4566788876


Q ss_pred             cc------eeEeC------------CCCHHHHHHHHHHHhhcCCccEEEEcCccccccccccCCCcCCCCcHHHHHHHHH
Q 024705          173 EN------LLIAQ------------PDSAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQ  234 (264)
Q Consensus       173 ~~------l~~~~------------~~~~ee~~~~i~~~~~~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r~i~~  234 (264)
                      .+      +.+..            ..+.+++...+...+...+++.+||||++.+...  .+.       ..+   +..
T Consensus        87 ~~~~~~g~l~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~i~~~~~~~vVIDSls~l~~~--~d~-------~~~---~r~  154 (509)
T PRK09302         87 QKLIDEGKLFILDASPDPSEQEEAGEYDLEALFIRIEYAIDKIGAKRVVLDSIEALFSG--FSN-------EAV---VRR  154 (509)
T ss_pred             HHHhhCCeEEEEecCcccccccccccccHHHHHHHHHHHHHhhCCCEEEECCHHHHHhh--ccC-------HHH---HHH
Confidence            54      22221            1234567777777777789999999999987631  111       122   224


Q ss_pred             HHHHHHHHHhccCcEEEEEcccch
Q 024705          235 ALRKIHYSLCQSHTLIIFLNQVKV  258 (264)
Q Consensus       235 ~L~~l~~~l~~~g~tVi~i~h~~~  258 (264)
                      .+.++.+.+++.|+|+|+++|...
T Consensus       155 ~l~~L~~~Lk~~g~TvLlt~~~~~  178 (509)
T PRK09302        155 ELRRLFAWLKQKGVTAVITGERGD  178 (509)
T ss_pred             HHHHHHHHHHhCCCEEEEEECCcc
Confidence            455565666888999999999754

>TIGR03880 KaiC_arch_3 KaiC domain protein, AF_0351 family

Probab=99.81  E-value=5.8e-19  Score=149.75  Aligned_cols=141  Identities=25%  Similarity=0.391  Sum_probs=104.9

Q ss_pred             CcHHHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCH--HHHHHcCCCccc-----ee
Q 024705          104 GSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP--SLAEAMGIDAEN-----LL  176 (264)
Q Consensus       104 G~~~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~--~~~~~~g~~~~~-----l~  176 (264)
                      |+++||++++ ||+++|++++|.|+||+|||+|+.+++.+.+.+|++|+|+++|++..+  .++..+|++.+.     +.
T Consensus         1 Gi~~LD~~l~-gGi~~g~~~li~G~~G~GKt~~~~~~~~~~~~~g~~~~y~s~e~~~~~l~~~~~~~~~~~~~~~~~~l~   79 (224)
T TIGR03880         1 GIPGLDEMLG-GGFPEGHVIVVIGEYGTGKTTFSLQFLYQGLKNGEKAMYISLEEREERILGYAKSKGWDLEDYIDKSLY   79 (224)
T ss_pred             CchhhHHHhc-CCCCCCeEEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEECCCCHHHHHHHHHHcCCChHHHHhCCeE
Confidence            7899999999 999999999999999999999999999999889999999999998776  456678876543     34


Q ss_pred             EeCCCC------HHHHHHHHHHHhhcCCccEEEEcCccccccccccCCCcCCCCcHHHHHHHHHHHHHHHHHHhccCcEE
Q 024705          177 IAQPDS------AENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLI  250 (264)
Q Consensus       177 ~~~~~~------~ee~~~~i~~~~~~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r~i~~~L~~l~~~l~~~g~tV  250 (264)
                      +.+..+      ..++...+...++..+++++||||++.+.+.  ..+      .....+    .+.++.+.+++.|+|+
T Consensus        80 ~~~~~~~~~~~~~~~l~~~~~~~i~~~~~~~vVIDsls~l~~~--~~~------~~~~r~----~l~~l~~~lk~~~~tv  147 (224)
T TIGR03880        80 IVRLDPSDFKTSLNRIKNELPILIKELGASRVVIDPISLLETL--FDD------DAERRT----ELFRFYSSLRETGVTT  147 (224)
T ss_pred             EEecCHHHHHhhHHHHHHHHHHHHHHhCCCEEEEcChHHHhhh--cCC------HHHHHH----HHHHHHHHHHhCCCEE
Confidence            443221      3344455566666778999999999987421  111      112222    3344444447889999


Q ss_pred             EEEcccc
Q 024705          251 IFLNQVK  257 (264)
Q Consensus       251 i~i~h~~  257 (264)
                      ++++|..
T Consensus       148 ll~s~~~  154 (224)
T TIGR03880       148 ILTSEAD  154 (224)
T ss_pred             EEEEccc
Confidence            9999975

This model represents a rather narrowly distributed archaeal protein family in which members have a single copy of the KaiC domain. This stands in contrast to the circadian clock protein KaiC itself, with two copies of the domain. Members are expected to have weak ATPase activity, by homology to the autokinase/autophosphorylase KaiC itself.

>PRK05636 replicative DNA helicase; Provisional

Probab=99.81  E-value=6.5e-19  Score=164.97  Aligned_cols=156  Identities=18%  Similarity=0.214  Sum_probs=115.8

Q ss_pred             CCCccccCcHHHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHHh-hcCCeEEEEecCCCCCHHHHH----HcCCC
Q 024705           97 RGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQ-KLGGYCAYLDVENALDPSLAE----AMGID  171 (264)
Q Consensus        97 ~~~~i~tG~~~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~-~~g~~v~~~~~e~~~~~~~~~----~~g~~  171 (264)
                      ...+++||+..||.+++  |+.+|++++|+|+||+|||+|+++++.+++ ..+.+|+||+.|++..+...+    ..+++
T Consensus       244 ~~~Gi~TG~~~LD~~t~--Gl~~G~Liiiaarpg~GKT~~al~~a~~~a~~~g~~v~~fSlEMs~~ql~~R~ls~~s~v~  321 (505)
T PRK05636        244 IATGIPTGFKDLDDLTN--GLRGGQMIIVAARPGVGKSTLALDFMRSASIKHNKASVIFSLEMSKSEIVMRLLSAEAEVR  321 (505)
T ss_pred             CCCceecChHHHhhhcC--CCCCCceEEEEeCCCCCHHHHHHHHHHHHHHhCCCeEEEEEeeCCHHHHHHHHHHHhcCCC
Confidence            35689999999999875  999999999999999999999999998876 457899999999987662211    11221


Q ss_pred             c-------------------------cceeEeC--CCCHHHHHHHHHHHhhcCCccEEEEcCccccccccccCCCcCCCC
Q 024705          172 A-------------------------ENLLIAQ--PDSAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMY  224 (264)
Q Consensus       172 ~-------------------------~~l~~~~--~~~~ee~~~~i~~~~~~~~~~~vvIDsl~~~~~~~~~~~~~~~~~  224 (264)
                      .                         .++++.+  ..++.++...++.+....++++||||+++.+.+....      . 
T Consensus       322 ~~~i~~g~l~~~e~~~~~~a~~~l~~~~l~I~d~~~~ti~~I~~~~r~~~~~~~~~lvvIDYLql~~~~~~~------~-  394 (505)
T PRK05636        322 LSDMRGGKMDEDAWEKLVQRLGKIAQAPIFIDDSANLTMMEIRSKARRLKQKHDLKLIVVDYLQLMSSGKRV------E-  394 (505)
T ss_pred             HHHHhcCCCCHHHHHHHHHHHHHHhcCCEEEECCCCCCHHHHHHHHHHHHHhcCCCEEEEcchHhcCCCCCC------C-
Confidence            1                         1234433  2467888888888877788999999999987531110      1 


Q ss_pred             cHHHHHHHHHHHHHHHHHHhccCcEEEEEcccchHhhhc
Q 024705          225 SDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVKVLLLKH  263 (264)
Q Consensus       225 ~~~q~r~i~~~L~~l~~~l~~~g~tVi~i~h~~~~~~~~  263 (264)
                        ....++..+.+.|+.++++.+|+||+++|+++.+++|
T Consensus       395 --~r~~ei~~isr~LK~lAkel~ipVi~lsQLnR~~e~r  431 (505)
T PRK05636        395 --SRQQEVSEFSRQLKLLAKELDVPLIAISQLNRGPESR  431 (505)
T ss_pred             --cHHHHHHHHHHHHHHHHHHhCCeEEEEeecCcccccc
Confidence              1223344455555555599999999999999988765

>PRK08840 replicative DNA helicase; Provisional

Probab=99.80  E-value=1.3e-18  Score=161.54  Aligned_cols=156  Identities=15%  Similarity=0.204  Sum_probs=113.9

Q ss_pred             CCCccccCcHHHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHHhh-cCCeEEEEecCCCCCHHHH----HHcCCC
Q 024705           97 RGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQK-LGGYCAYLDVENALDPSLA----EAMGID  171 (264)
Q Consensus        97 ~~~~i~tG~~~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~-~g~~v~~~~~e~~~~~~~~----~~~g~~  171 (264)
                      ...+++||++.||.+++  |+.+|++++|+|+||+|||+|+++++.+++. .|.+|+||+.|++..+...    ..-+++
T Consensus       196 ~~~gi~TG~~~LD~~~~--G~~~g~LiviaarPg~GKTafalnia~~~a~~~~~~v~~fSlEMs~~ql~~Rlla~~s~v~  273 (464)
T PRK08840        196 GVTGVDTGFTDLNKKTA--GLQGSDLIIVAARPSMGKTTFAMNLCENAAMDQDKPVLIFSLEMPAEQLMMRMLASLSRVD  273 (464)
T ss_pred             CCCCcCCCcHHHHHhhc--CCCCCceEEEEeCCCCchHHHHHHHHHHHHHhCCCeEEEEeccCCHHHHHHHHHHhhCCCC
Confidence            45789999999999996  8999999999999999999999999999874 5889999999998766221    111221


Q ss_pred             c--------------------------cceeEeC--CCCHHHHHHHHHHHhhcC-CccEEEEcCccccccccccCCCcCC
Q 024705          172 A--------------------------ENLLIAQ--PDSAENLLSVVDTLTKSG-SIDVIVVDSVAALIPKCEIGVPING  222 (264)
Q Consensus       172 ~--------------------------~~l~~~~--~~~~ee~~~~i~~~~~~~-~~~~vvIDsl~~~~~~~~~~~~~~~  222 (264)
                      .                          .++++.+  ..++.++...++.+.... ++++||||+++.+.....      .
T Consensus       274 ~~~i~~~~l~~~e~~~~~~a~~~l~~~~~l~I~d~~~~ti~~i~~~~r~~~~~~~~~~lvvIDYLql~~~~~~------~  347 (464)
T PRK08840        274 QTKIRTGQLDDEDWARISSTMGILMEKKNMYIDDSSGLTPTEVRSRARRIAREHGGLSMIMVDYLQLMRVPAL------S  347 (464)
T ss_pred             HHHHhcCCCCHHHHHHHHHHHHHHHhcCCEEEECCCCCCHHHHHHHHHHHHHhcCCCCEEEEccHHhcCCCCC------C
Confidence            1                          1234433  246788888888776554 589999999998753111      0


Q ss_pred             CCcHHHHHHHHHHHHHHHHHHhccCcEEEEEcccchHhhhc
Q 024705          223 MYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVKVLLLKH  263 (264)
Q Consensus       223 ~~~~~q~r~i~~~L~~l~~~l~~~g~tVi~i~h~~~~~~~~  263 (264)
                      .....+...+++.|+.+   +++.|++||+++|+++.++.|
T Consensus       348 ~~r~~ei~~isr~LK~l---Akel~ipVi~LsQLnR~~e~r  385 (464)
T PRK08840        348 DNRTLEIAEISRSLKAL---AKELNVPVVALSQLNRSLEQR  385 (464)
T ss_pred             CchHHHHHHHHHHHHHH---HHHhCCeEEEEEecCcccccc
Confidence            11112333444455555   499999999999999988765

>PRK06904 replicative DNA helicase; Validated

Probab=99.80  E-value=1.1e-18  Score=162.59  Aligned_cols=156  Identities=18%  Similarity=0.231  Sum_probs=115.0

Q ss_pred             CCCccccCcHHHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHHhh-cCCeEEEEecCCCCCHHHHH----HcCCC
Q 024705           97 RGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQK-LGGYCAYLDVENALDPSLAE----AMGID  171 (264)
Q Consensus        97 ~~~~i~tG~~~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~-~g~~v~~~~~e~~~~~~~~~----~~g~~  171 (264)
                      ...+++||++.||.+++  |+.+|++++|+|+||+|||+|+++++.+++. .|.+|+||+.|++..+...+    .-+++
T Consensus       200 ~~~Gi~TG~~~LD~~t~--Gl~~G~LiiIaarPg~GKTafalnia~~~a~~~g~~Vl~fSlEMs~~ql~~Rlla~~s~v~  277 (472)
T PRK06904        200 GVTGVTTGFTDLDKKTA--GLQPSDLIIVAARPSMGKTTFAMNLCENAAMASEKPVLVFSLEMPAEQIMMRMLASLSRVD  277 (472)
T ss_pred             CCCCccCChHHHHHHHh--ccCCCcEEEEEeCCCCChHHHHHHHHHHHHHhcCCeEEEEeccCCHHHHHHHHHHhhCCCC
Confidence            45789999999999985  9999999999999999999999999998875 58899999999987662211    11111


Q ss_pred             c---------------------------cceeEeC--CCCHHHHHHHHHHHhhc-CCccEEEEcCccccccccccCCCcC
Q 024705          172 A---------------------------ENLLIAQ--PDSAENLLSVVDTLTKS-GSIDVIVVDSVAALIPKCEIGVPIN  221 (264)
Q Consensus       172 ~---------------------------~~l~~~~--~~~~ee~~~~i~~~~~~-~~~~~vvIDsl~~~~~~~~~~~~~~  221 (264)
                      .                           .++++.+  ..++.++...++.+... +++++||||+++.+... ..     
T Consensus       278 ~~~i~~g~~l~~~e~~~~~~a~~~l~~~~~l~I~d~~~~t~~~i~~~~r~~~~~~~~~~lvvIDYLqli~~~-~~-----  351 (472)
T PRK06904        278 QTKIRTGQNLDQQDWAKISSTVGMFKQKPNLYIDDSSGLTPTELRSRARRVYRENGGLSLIMVDYLQLMRAP-GF-----  351 (472)
T ss_pred             HHHhccCCCCCHHHHHHHHHHHHHHhcCCCEEEECCCCCCHHHHHHHHHHHHHhCCCCCEEEEecHHhcCCC-CC-----
Confidence            1                           1244433  24678888888777654 36899999999977531 11     


Q ss_pred             CCCcHHHHHHHHHHHHHHHHHHhccCcEEEEEcccchHhhhc
Q 024705          222 GMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVKVLLLKH  263 (264)
Q Consensus       222 ~~~~~~q~r~i~~~L~~l~~~l~~~g~tVi~i~h~~~~~~~~  263 (264)
                      ......+...+++.|+.++   ++.|++||+++|+++.++.|
T Consensus       352 ~~~r~~ei~~isr~LK~lA---kel~ipVi~lsQLnR~~e~r  390 (472)
T PRK06904        352 EDNRTLEIAEISRSLKALA---KELKVPVVALSQLNRTLENR  390 (472)
T ss_pred             CCcHHHHHHHHHHHHHHHH---HHhCCeEEEEEecCchhhcc
Confidence            0112233444555555555   99999999999999988765

>PRK07004 replicative DNA helicase; Provisional

Probab=99.80  E-value=1.2e-18  Score=162.01  Aligned_cols=156  Identities=17%  Similarity=0.224  Sum_probs=114.7

Q ss_pred             CCCccccCcHHHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHHh-hcCCeEEEEecCCCCCHHHHHHc----CCC
Q 024705           97 RGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQ-KLGGYCAYLDVENALDPSLAEAM----GID  171 (264)
Q Consensus        97 ~~~~i~tG~~~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~-~~g~~v~~~~~e~~~~~~~~~~~----g~~  171 (264)
                      ...+++||++.||++++  |+.+|++++|+|+||+|||+|+++++.+++ ..|.+|+||+.|++..+...+.+    +++
T Consensus       192 ~~~gi~TG~~~LD~~t~--G~~~g~liviaarpg~GKT~~al~ia~~~a~~~~~~v~~fSlEM~~~ql~~R~la~~~~v~  269 (460)
T PRK07004        192 DVTGTPTGFVDLDRMTS--GMHGGELIIVAGRPSMGKTAFSMNIGEYVAVEYGLPVAVFSMEMPGTQLAMRMLGSVGRLD  269 (460)
T ss_pred             CCCCccCCcHHhccccc--CCCCCceEEEEeCCCCCccHHHHHHHHHHHHHcCCeEEEEeCCCCHHHHHHHHHHhhcCCC
Confidence            35689999999999986  999999999999999999999999998876 46889999999999876322211    222


Q ss_pred             cc-------------------------ceeEeC--CCCHHHHHHHHHHHhhcC-CccEEEEcCccccccccccCCCcCCC
Q 024705          172 AE-------------------------NLLIAQ--PDSAENLLSVVDTLTKSG-SIDVIVVDSVAALIPKCEIGVPINGM  223 (264)
Q Consensus       172 ~~-------------------------~l~~~~--~~~~ee~~~~i~~~~~~~-~~~~vvIDsl~~~~~~~~~~~~~~~~  223 (264)
                      .+                         ++++.+  ..++.++...++++.... ++++||||+++.+.....     . .
T Consensus       270 ~~~i~~g~l~~~e~~~~~~a~~~l~~~~l~I~d~~~~~~~~i~~~~r~l~~~~~~~~lviIDYLql~~~~~~-----~-~  343 (460)
T PRK07004        270 QHRMRTGRLTDEDWPKLTHAVQKMSEAQLFIDETGGLNPMELRSRARRLARQCGKLGLIIIDYLQLMSGSSQ-----G-E  343 (460)
T ss_pred             HHHHhcCCCCHHHHHHHHHHHHHHhcCCEEEECCCCCCHHHHHHHHHHHHHhCCCCCEEEEChhhhccCCCC-----C-C
Confidence            11                         233332  236778888888776654 589999999998863211     1 1


Q ss_pred             CcHHHHHHHHHHHHHHHHHHhccCcEEEEEcccchHhhhc
Q 024705          224 YSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVKVLLLKH  263 (264)
Q Consensus       224 ~~~~q~r~i~~~L~~l~~~l~~~g~tVi~i~h~~~~~~~~  263 (264)
                         ....++....+.|+.++++.+|+||+++|+++.++.|
T Consensus       344 ---~r~~ei~~Isr~LK~lAkel~ipVi~lsQLnR~~e~r  380 (460)
T PRK07004        344 ---NRATEISEISRSLKSLAKELDVPVIALSQLNRGLEQR  380 (460)
T ss_pred             ---cHHHHHHHHHHHHHHHHHHhCCeEEEEeccChhhhcc
Confidence               1223344445555555599999999999999988764

>cd00984 DnaB_C DnaB helicase C terminal domain

Probab=99.79  E-value=2e-18  Score=147.80  Aligned_cols=143  Identities=22%  Similarity=0.285  Sum_probs=105.0

Q ss_pred             HHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHHhhc-CCeEEEEecCCCCCHHH----HHHcCCCcc--------
Q 024705          107 KLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKL-GGYCAYLDVENALDPSL----AEAMGIDAE--------  173 (264)
Q Consensus       107 ~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~-g~~v~~~~~e~~~~~~~----~~~~g~~~~--------  173 (264)
                      +||.+++  |+++|++++|+|+||+|||+|+.+++.+++.. |.+++||+.|++....+    +...|++..        
T Consensus         2 ~LD~~~~--Gl~~G~l~lI~G~~G~GKT~~~~~~~~~~~~~~g~~vly~s~E~~~~~~~~r~~~~~~~~~~~~~~~~~~~   79 (242)
T cd00984           2 DLDNLTG--GLQPGDLIIIAARPSMGKTAFALNIAENIAKKQGKPVLFFSLEMSKEQLLQRLLASESGISLSKLRTGSLS   79 (242)
T ss_pred             chhhhhc--CCCCCeEEEEEeCCCCCHHHHHHHHHHHHHHhCCCceEEEeCCCCHHHHHHHHHHHhcCCCHHHHhcCCCC
Confidence            5899996  99999999999999999999999999999887 99999999999876522    223344322        


Q ss_pred             -----------------ceeEe--CCCCHHHHHHHHHHHhhcCCccEEEEcCccccccccccCCCcCCCCcHHHHHHHHH
Q 024705          174 -----------------NLLIA--QPDSAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQ  234 (264)
Q Consensus       174 -----------------~l~~~--~~~~~ee~~~~i~~~~~~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r~i~~  234 (264)
                                       ++.+.  ...+.+++...++.+....++++||||+++.+....  .    ........   ..
T Consensus        80 ~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~l~~~i~~~~~~~~~~~vvID~l~~l~~~~--~----~~~~~~~~---~~  150 (242)
T cd00984          80 DEDWERLAEAIGELKELPIYIDDSSSLTVSDIRSRARRLKKEHGLGLIVIDYLQLMSGSK--K----KGNRQQEV---AE  150 (242)
T ss_pred             HHHHHHHHHHHHHHhcCCEEEeCCCCCCHHHHHHHHHHHHHhcCCCEEEEcCchhcCCCC--C----CCCHHHHH---HH
Confidence                             12222  234678888888888777899999999999876321  0    01111233   34


Q ss_pred             HHHHHHHHHhccCcEEEEEcccchHh
Q 024705          235 ALRKIHYSLCQSHTLIIFLNQVKVLL  260 (264)
Q Consensus       235 ~L~~l~~~l~~~g~tVi~i~h~~~~~  260 (264)
                      .+..|...++++|+++|+++|.++..
T Consensus       151 ~~~~L~~la~~~~~~ii~~~q~~r~~  176 (242)
T cd00984         151 ISRSLKLLAKELNVPVIALSQLSRGV  176 (242)
T ss_pred             HHHHHHHHHHHhCCeEEEecccChhh
Confidence            44444445599999999999998754

The hexameric helicase DnaB unwinds the DNA duplex at the chromosome replication fork. Although the mechanism by which DnaB both couples ATP hydrolysis to translocation along DNA and denatures the duplex is unknown, a change in the quaternary structure of the protein involving dimerization of the N-terminal domain has been observed and may occur during the enzymatic cycle. This C-terminal domain contains an ATP-binding site and is therefore probably the site of ATP hydrolysis.

>PRK06749 replicative DNA helicase; Provisional

Probab=99.78  E-value=2.9e-18  Score=158.05  Aligned_cols=157  Identities=18%  Similarity=0.174  Sum_probs=113.3

Q ss_pred             CCCccccCcHHHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCHHHHHH----cCCCc
Q 024705           97 RGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEA----MGIDA  172 (264)
Q Consensus        97 ~~~~i~tG~~~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~~~~~~----~g~~~  172 (264)
                      ...+++||++.||.+++  |+.+|++++|+|+||+|||+|+++++.+++..|.+|+||+.|++..+...+.    .+++.
T Consensus       165 ~~~Gi~TG~~~LD~~t~--Gl~~G~LiiIaarPgmGKTafal~ia~~~a~~g~~v~~fSlEMs~~ql~~R~ls~~~~i~~  242 (428)
T PRK06749        165 EITGIETGYTSLNKMTC--GLQEGDFVVLGARPSMGKTAFALNVGLHAAKSGAAVGLFSLEMSSKQLLKRMASCVGEVSG  242 (428)
T ss_pred             CCCCccCCcHHHHHHhC--CCCCCcEEEEEeCCCCCchHHHHHHHHHHHhcCCCEEEEEeeCCHHHHHHHHHHhccCCCH
Confidence            45789999999999985  9999999999999999999999999999998888999999999877622111    12221


Q ss_pred             c---------------------------ceeEeC--CCCHHHHHHHHHHHhhcCC--ccEEEEcCccccccccccCCCcC
Q 024705          173 E---------------------------NLLIAQ--PDSAENLLSVVDTLTKSGS--IDVIVVDSVAALIPKCEIGVPIN  221 (264)
Q Consensus       173 ~---------------------------~l~~~~--~~~~ee~~~~i~~~~~~~~--~~~vvIDsl~~~~~~~~~~~~~~  221 (264)
                      .                           ++++.+  ..+..++...++.+....+  ..+||||+++.+.....    ..
T Consensus       243 ~~l~~~~~~l~~~e~~~~~~a~~~l~~~~i~i~d~~~~t~~~I~~~~r~~~~~~~~~~~lvvIDyLqli~~~~~----~~  318 (428)
T PRK06749        243 GRLKNPKHRFAMEDWEKVSKAFAEIGELPLEIYDNAGVTVQDIWMQTRKLKRKHGDKKILIIVDYLQLITGDPK----HK  318 (428)
T ss_pred             HHHhcCcccCCHHHHHHHHHHHHHHhcCCEEEECCCCCCHHHHHHHHHHHHHhcCCCCcEEEEeChhhcCCCCC----CC
Confidence            1                           123333  2357788887887766544  55999999997753111    00


Q ss_pred             CCCcHHHHHHHHHHHHHHHHHHhccCcEEEEEcccchHhhhc
Q 024705          222 GMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVKVLLLKH  263 (264)
Q Consensus       222 ~~~~~~q~r~i~~~L~~l~~~l~~~g~tVi~i~h~~~~~~~~  263 (264)
                       .....+...+++.|+.+   +++.+|+||+++|+++.++.|
T Consensus       319 -~~r~~ei~~isr~LK~l---Akel~vpVi~lsQLnR~~e~r  356 (428)
T PRK06749        319 -GNRFQEISEISRKLKLL---ARELNVCVVALSQLSRSVESR  356 (428)
T ss_pred             -CCHHHHHHHHHHHHHHH---HHHhCCeEEEEEecCcccccc
Confidence             11112333344455555   499999999999999988765

>PRK07773 replicative DNA helicase; Validated

Probab=99.77  E-value=5.5e-18  Score=168.93  Aligned_cols=156  Identities=16%  Similarity=0.203  Sum_probs=116.5

Q ss_pred             CCCccccCcHHHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHHhhc-CCeEEEEecCCCCCHHHHH----HcCCC
Q 024705           97 RGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKL-GGYCAYLDVENALDPSLAE----AMGID  171 (264)
Q Consensus        97 ~~~~i~tG~~~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~-g~~v~~~~~e~~~~~~~~~----~~g~~  171 (264)
                      ...+++||++.||.+++  |+++|++++|+|+||+|||+|+++++.+++.. +.+|+||+.|++..+...+    ..+++
T Consensus       196 ~~~Gi~TG~~~LD~l~~--Gl~~G~livIagrPg~GKT~fal~ia~~~a~~~~~~V~~fSlEms~~ql~~R~~s~~~~i~  273 (886)
T PRK07773        196 LARGVPTGFTELDAMTN--GLHPGQLIIVAARPSMGKTTFGLDFARNCAIRHRLAVAIFSLEMSKEQLVMRLLSAEAKIK  273 (886)
T ss_pred             CCCCccCChhHhccccC--CCCCCcEEEEEeCCCCCcHHHHHHHHHHHHHhcCCeEEEEecCCCHHHHHHHHHHHhcCCC
Confidence            46789999999999885  99999999999999999999999999998754 7899999999998763221    12332


Q ss_pred             cc-------------------------ceeEeC--CCCHHHHHHHHHHHhhcCCccEEEEcCccccccccccCCCcCCCC
Q 024705          172 AE-------------------------NLLIAQ--PDSAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMY  224 (264)
Q Consensus       172 ~~-------------------------~l~~~~--~~~~ee~~~~i~~~~~~~~~~~vvIDsl~~~~~~~~~~~~~~~~~  224 (264)
                      .+                         ++++.+  ..+++++...++.+....++++||||+++.+... .   .  .. 
T Consensus       274 ~~~i~~g~l~~~~~~~~~~a~~~l~~~~i~i~d~~~~~i~~i~~~~r~~~~~~~~~lvvIDyLql~~~~-~---~--~~-  346 (886)
T PRK07773        274 LSDMRSGRMSDDDWTRLARAMGEISEAPIFIDDTPNLTVMEIRAKARRLRQEANLGLIVVDYLQLMTSG-K---K--YE-  346 (886)
T ss_pred             HHHHhcCCCCHHHHHHHHHHHHHHhcCCEEEECCCCCCHHHHHHHHHHHHHhcCCCEEEEcchhhcCCC-C---C--CC-
Confidence            21                         223322  2467888888888877788999999999987531 1   0  01 


Q ss_pred             cHHHHHHHHHHHHHHHHHHhccCcEEEEEcccchHhhhc
Q 024705          225 SDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVKVLLLKH  263 (264)
Q Consensus       225 ~~~q~r~i~~~L~~l~~~l~~~g~tVi~i~h~~~~~~~~  263 (264)
                        ....++..+.+.|+.++++.|++||+++|+++.++.|
T Consensus       347 --~r~~ei~~isr~LK~lAkel~vpvi~lsQLnR~~e~r  383 (886)
T PRK07773        347 --NRQQEVSEISRHLKLLAKELEVPVVALSQLSRGVEQR  383 (886)
T ss_pred             --CHHHHHHHHHHHHHHHHHHHCCcEEEecccCcchhcc
Confidence              1123344444555555599999999999999988765

>KOG1434 consensus Meiotic recombination protein Dmc1 [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]

Probab=99.77  E-value=1.6e-19  Score=150.89  Aligned_cols=162  Identities=28%  Similarity=0.417  Sum_probs=129.4

Q ss_pred             CCCCccccCcHHHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHHh------hcCCeEEEEecCCCCCHH----HH
Q 024705           96 RRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQ------KLGGYCAYLDVENALDPS----LA  165 (264)
Q Consensus        96 ~~~~~i~tG~~~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~------~~g~~v~~~~~e~~~~~~----~~  165 (264)
                      .....|+||..+||.+|| ||++.=++++|.|.+|+|||.+..+++..++      ..+++++|||+|.++.+.    ++
T Consensus        92 ~~v~~ItTgs~~lD~ILG-GGI~~m~iTEifGefr~GKTQlshtLcVt~QlPr~~Gg~~Gk~ifIDTEgtFrpdRi~~IA  170 (335)
T KOG1434|consen   92 KTVGSITTGSSALDDILG-GGIPSMSITEIFGEFRCGKTQLSHTLCVTVQLPREMGGVGGKAIFIDTEGTFRPDRIKDIA  170 (335)
T ss_pred             hccceeecchHHHhhhhc-CCccchhhHHHcCCCCcCccceeeEEEEEeecchhhCCCCceEEEEecCCccchHHHHHHH
Confidence            457789999999999999 9999999999999999999999998877665      246899999999998874    46


Q ss_pred             HHcCCCcc----ceeEeCCCCHHHHHHHHHHH---h-hcCCccEEEEcCccccccccccCCCcCCCCcHHHHHHHHHHHH
Q 024705          166 EAMGIDAE----NLLIAQPDSAENLLSVVDTL---T-KSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALR  237 (264)
Q Consensus       166 ~~~g~~~~----~l~~~~~~~~ee~~~~i~~~---~-~~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r~i~~~L~  237 (264)
                      ++++++++    |+.+.+..+.++..+.+..+   . +.++.++||+||+...+ +-+++++.  .++ ..++.+.+.+.
T Consensus       171 e~~~~d~d~~LdNI~y~Ra~~se~qmelv~~L~~~~se~g~~rlvIVDsIma~F-RvDy~grg--eLs-eRqqkLn~ml~  246 (335)
T KOG1434|consen  171 ERFKVDPDFTLDNILYFRAYNSEEQMELVYLLGDFLSEHGKYRLVIVDSIMALF-RVDYDGRG--ELS-ERQQKLNQMLQ  246 (335)
T ss_pred             HHhCCCHHHHHHHHHHHHHcChHHHHHHHHHHHHHHhhcCcEEEEEEeceehhe-eecccccc--cHH-HHHHHHHHHHH
Confidence            77787765    66777777777666655433   3 33689999999999999 46777653  233 33444777888


Q ss_pred             HHHHHHhccCcEEEEEcccchHhhh
Q 024705          238 KIHYSLCQSHTLIIFLNQVKVLLLK  262 (264)
Q Consensus       238 ~l~~~l~~~g~tVi~i~h~~~~~~~  262 (264)
                      ++.+.++++|++|+++||+..+...
T Consensus       247 kl~~laeefnvAVfltNQvttdpga  271 (335)
T KOG1434|consen  247 KLNKLAEEFNVAVFLTNQVTTDPGA  271 (335)
T ss_pred             HHHHHHHhccEEEEEecceecCCcc
Confidence            8888889999999999999887653

>COG0467 RAD55 RecA-superfamily ATPases implicated in signal transduction [Signal transduction mechanisms]

Probab=99.75  E-value=2.1e-17  Score=143.32  Aligned_cols=146  Identities=29%  Similarity=0.379  Sum_probs=111.7

Q ss_pred             CCccccCcHHHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCH--HHHHHcCCCccce
Q 024705           98 GPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP--SLAEAMGIDAENL  175 (264)
Q Consensus        98 ~~~i~tG~~~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~--~~~~~~g~~~~~l  175 (264)
                      .+++|||++.||++++ ||+++|++++|.|+||+|||+|+.+++.+.+..|++|+|+++++....  ..+.++|++++..
T Consensus         2 ~~~~~TGI~glD~~l~-GG~p~g~~~lI~G~pGsGKT~f~~qfl~~~~~~ge~vlyvs~~e~~~~l~~~~~~~g~d~~~~   80 (260)
T COG0467           2 MERIPTGIPGLDEILG-GGLPRGSVVLITGPPGTGKTIFALQFLYEGAREGEPVLYVSTEESPEELLENARSFGWDLEVY   80 (260)
T ss_pred             CccccCCCcchHHHhc-CCCcCCcEEEEEcCCCCcHHHHHHHHHHHHHhcCCcEEEEEecCCHHHHHHHHHHcCCCHHHH
Confidence            4678999999999999 999999999999999999999999999999999999999999998887  4466688876521


Q ss_pred             ------eEe---------------CCCCHHHHHHHHHHHhhcCCccEEEEcCccccccccccCCCcCCCCcHHHHHHHHH
Q 024705          176 ------LIA---------------QPDSAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQ  234 (264)
Q Consensus       176 ------~~~---------------~~~~~ee~~~~i~~~~~~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r~i~~  234 (264)
                            .+.               .+...+.+...+...+...++..+|+||+..+.....  .       ....+   .
T Consensus        81 ~~~g~l~i~d~~~~~~~~~~~~~~~~~~~~~l~~~I~~~~~~~~~~~~ViDsi~~~~~~~~--~-------~~~~r---~  148 (260)
T COG0467          81 IEKGKLAILDAFLSEKGLVSIVVGDPLDLEELLDRIREIVEKEGADRVVIDSITELTLYLN--D-------PALVR---R  148 (260)
T ss_pred             hhcCCEEEEEccccccccccccccCCccHHHHHHHHHHHHHHhCCCEEEEeCCchHhhhcC--c-------hHHHH---H
Confidence                  111               0234566777788887777899999999996552111  0       12223   3


Q ss_pred             HHHHHHHHHhccCcEEEEEccc
Q 024705          235 ALRKIHYSLCQSHTLIIFLNQV  256 (264)
Q Consensus       235 ~L~~l~~~l~~~g~tVi~i~h~  256 (264)
                      .+..+.+.+++.++|.+++++.
T Consensus       149 ~~~~l~~~~~~~~~t~~~~~~~  170 (260)
T COG0467         149 ILLLLKRFLKKLGVTSLLTTEA  170 (260)
T ss_pred             HHHHHHHHHHhCCCEEEEEecc
Confidence            4444455558888999988864

>COG0305 DnaB Replicative DNA helicase [DNA replication, recombination, and repair]

Probab=99.74  E-value=8e-17  Score=146.49  Aligned_cols=155  Identities=18%  Similarity=0.213  Sum_probs=120.6

Q ss_pred             CCccccCcHHHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHHhhc-CCeEEEEecCCCCCHHHHHHc----CCCc
Q 024705           98 GPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKL-GGYCAYLDVENALDPSLAEAM----GIDA  172 (264)
Q Consensus        98 ~~~i~tG~~~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~-g~~v~~~~~e~~~~~~~~~~~----g~~~  172 (264)
                      ..++|||+..||.+++  |+.+|++++++|+||.|||+|+++++.+++.. +.+|++|+.|++..+...+.+    +++.
T Consensus       176 ~~Gi~tgf~~LD~~t~--G~~~~dLii~AaRP~mGKTafalnia~n~a~~~~~~v~iFSLEM~~eql~~R~Ls~~s~v~~  253 (435)
T COG0305         176 LIGVPTGFTDLDEITS--GFRPGDLIIVAARPGMGKTALALNIALNAAADGRKPVAIFSLEMSEEQLVMRLLSSESGIES  253 (435)
T ss_pred             CcccccCchhhHHHhc--CCccCCEEEEccCCCCChHHHHHHHHHHHHHhcCCCeEEEEccCCHHHHHHHhhccccccch
Confidence            7899999999999997  89999999999999999999999999999875 556999999999877433322    2221


Q ss_pred             c-------------------------ceeEeC--CCCHHHHHHHHHHHhhcCCccEEEEcCccccccccccCCCcCCCCc
Q 024705          173 E-------------------------NLLIAQ--PDSAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYS  225 (264)
Q Consensus       173 ~-------------------------~l~~~~--~~~~ee~~~~i~~~~~~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~  225 (264)
                      .                         .+++.+  ..+..++...++++...++.++++||+++.+......         
T Consensus       254 ~kirtg~l~~~d~~~l~~a~~~l~~~~i~IdD~~~~si~eir~~aRrlk~~~~l~~i~iDYLqLm~~~~~~---------  324 (435)
T COG0305         254 SKLRTGRLSDDEWERLIKAASELSEAPIFIDDTPGLTITEIRSKARRLKLKHNLGLIVIDYLQLMTGGKKS---------  324 (435)
T ss_pred             hccccccccHHHHHHHHHHHHHHhhCCeeecCCCcCCHHHHHHHHHHHHHhcCccEEEEEEEEeecccccc---------
Confidence            1                         123322  2467788888999988888999999999998842111         


Q ss_pred             HHHHHHHHHHHHHHHHHHhccCcEEEEEcccchHhhhc
Q 024705          226 DAQSRIMTQALRKIHYSLCQSHTLIIFLNQVKVLLLKH  263 (264)
Q Consensus       226 ~~q~r~i~~~L~~l~~~l~~~g~tVi~i~h~~~~~~~~  263 (264)
                      .....+++..-+.|...+++.+++||..+|+++.+|.|
T Consensus       325 ~~r~qevs~iSr~LK~lAkEl~vpvialSQLsR~~E~R  362 (435)
T COG0305         325 ENRKQEVSEISRSLKGLAKELGVPVIALSQLNRSVEQR  362 (435)
T ss_pred             hhHHHHHHHHHHHHHHHHHhcCCcEEehhhhcccchhc
Confidence            23444455555555556699999999999999999986

>KOG1564 consensus DNA repair protein RHP57 [Replication, recombination and repair]

Probab=99.73  E-value=2.3e-17  Score=139.85  Aligned_cols=160  Identities=24%  Similarity=0.381  Sum_probs=118.8

Q ss_pred             CCCccccCcHHHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHHhh------cCCeEEEEecCCCCCHHHHHHc--
Q 024705           97 RGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQK------LGGYCAYLDVENALDPSLAEAM--  168 (264)
Q Consensus        97 ~~~~i~tG~~~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~------~g~~v~~~~~e~~~~~~~~~~~--  168 (264)
                      ..+.++||...||+.++ ||++.+.+++|+|++|+|||.|+++++...+-      -|++++|+.+|..+...|...+  
T Consensus        80 ~~~~lttgc~~LD~~L~-GGi~~~giTEi~GeSg~GKtQL~lQL~L~VQLp~~~GGL~~~~vYI~TE~~fP~rRL~qL~~  158 (351)
T KOG1564|consen   80 NRSKLTTGCVALDECLR-GGIPTDGITEICGESGCGKTQLLLQLSLCVQLPRSHGGLGGGAVYICTESPFPTRRLHQLSH  158 (351)
T ss_pred             CchhcccccHHHHHHhc-CCcccccHHHHhhccCCcHHHHHHHHHHHhhCchhhCCCCCceEEEEcCCCCcHHHHHHHHH
Confidence            34679999999999999 99999999999999999999999999887652      4678999999999886442111  


Q ss_pred             --C---------C----CccceeEeCCCCHHHHHHHHHHH----hhcCCccEEEEcCccccccccccCCCcCCC-CcHHH
Q 024705          169 --G---------I----DAENLLIAQPDSAENLLSVVDTL----TKSGSIDVIVVDSVAALIPKCEIGVPINGM-YSDAQ  228 (264)
Q Consensus       169 --g---------~----~~~~l~~~~~~~~ee~~~~i~~~----~~~~~~~~vvIDsl~~~~~~~~~~~~~~~~-~~~~q  228 (264)
                        .         .    +-+++++....+++.+.+.+...    ....++++|||||+.+.+ +.+++..+.+. ..+.+
T Consensus       159 ~~~~rp~~~~~~~~~~Npgd~IFv~~~~d~d~l~~iv~~qlPiL~~r~~i~LVIiDSVAa~f-R~E~d~~~Sdl~~r~~~  237 (351)
T KOG1564|consen  159 TLPQRPNPEKELNYNDNPGDHIFVENVHDVDHLLHIVNRQLPILLNRKKIKLVIIDSVAALF-RSEFDYNPSDLKKRARH  237 (351)
T ss_pred             hcccCCCcchhhhhccCCCceEEEEeccchhhHHHHHhhhccceeccCcceEEEEehhhHHH-HHHhccChhhhhhHHHH
Confidence              1         1    11236666677788777777654    356789999999999999 46766433211 11233


Q ss_pred             HHHHHHHHHHHHHHHhccCcEEEEEcccchHhh
Q 024705          229 SRIMTQALRKIHYSLCQSHTLIIFLNQVKVLLL  261 (264)
Q Consensus       229 ~r~i~~~L~~l~~~l~~~g~tVi~i~h~~~~~~  261 (264)
                      ...++..|+.++   .+++++|+++||+.+.++
T Consensus       238 l~rla~~Lr~LA---~~~~~aVV~~NQVtd~~~  267 (351)
T KOG1564|consen  238 LFRLAGKLRQLA---SKFDLAVVCANQVTDRVE  267 (351)
T ss_pred             HHHHHHHHHHHH---HhcCccEEEeeccccccc
Confidence            333555555555   899999999999998754

>PRK08533 flagellar accessory protein FlaH; Reviewed

Probab=99.71  E-value=1.8e-16  Score=135.00  Aligned_cols=145  Identities=22%  Similarity=0.333  Sum_probs=102.0

Q ss_pred             CccccCcHHHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCH--HHHHHcCCCccce-
Q 024705           99 PVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP--SLAEAMGIDAENL-  175 (264)
Q Consensus        99 ~~i~tG~~~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~--~~~~~~g~~~~~l-  175 (264)
                      ..+.++++.||..++ ||+++|++++|.|+||+|||||+.+++...+++|++++|++++++...  ..++++|++.+.. 
T Consensus         4 ~~~~~~~~~ld~~l~-ggi~~g~~~~i~G~~G~GKTtl~~~~~~~~~~~g~~~~yi~~e~~~~~~~~~~~~~g~~~~~~~   82 (230)
T PRK08533          4 AKIELSRDELHKRLG-GGIPAGSLILIEGDESTGKSILSQRLAYGFLQNGYSVSYVSTQLTTTEFIKQMMSLGYDINKKL   82 (230)
T ss_pred             EEEEEEEeeeehhhC-CCCCCCcEEEEECCCCCCHHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHHHHHHhCCchHHHh
Confidence            457889999999999 999999999999999999999999999998889999999999998776  3345678776532 


Q ss_pred             -----eEeCC----CC---HHHHHHHHHHHhhcCCccEEEEcCccccccccccCCCcCCCCcHHHHHHHHHHHHHHHHHH
Q 024705          176 -----LIAQP----DS---AENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSL  243 (264)
Q Consensus       176 -----~~~~~----~~---~ee~~~~i~~~~~~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r~i~~~L~~l~~~l  243 (264)
                           .+.+.    ..   .+..+..+.......++++++||+++..... .        .+....+.+.+.++.+    
T Consensus        83 ~~~~l~~~~~~~~~~~~~~~~~~l~~il~~~~~~~~~~lVIDe~t~~l~~-~--------~d~~~~~~l~~~l~~l----  149 (230)
T PRK08533         83 ISGKLLYIPVYPLLSGNSEKRKFLKKLMNTRRFYEKDVIIIDSLSSLISN-D--------ASEVAVNDLMAFFKRI----  149 (230)
T ss_pred             hcCcEEEEEecccccChHHHHHHHHHHHHHHHhcCCCEEEEECccHHhcC-C--------cchHHHHHHHHHHHHH----
Confidence                 11111    11   2333333333344468999999999987621 0        1112334455555555    


Q ss_pred             hccCcEEEEEcccc
Q 024705          244 CQSHTLIIFLNQVK  257 (264)
Q Consensus       244 ~~~g~tVi~i~h~~  257 (264)
                      ++.|++++++++..
T Consensus       150 ~~~g~tvi~t~~~~  163 (230)
T PRK08533        150 SSLNKVIILTANPK  163 (230)
T ss_pred             HhCCCEEEEEeccc
Confidence            45588887776643

>PF13481 AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C

Probab=99.69  E-value=3.6e-17  Score=135.25  Aligned_cols=151  Identities=24%  Similarity=0.322  Sum_probs=84.6

Q ss_pred             CCCccccCcHHHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHHhh----------cCCeEEEEecCCCCCH--HH
Q 024705           97 RGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQK----------LGGYCAYLDVENALDP--SL  164 (264)
Q Consensus        97 ~~~~i~tG~~~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~----------~g~~v~~~~~e~~~~~--~~  164 (264)
                      ....++++.+.+|.+++ |++++|++++|+||+|+|||+++.+++..++.          .+.+|+|+++|.+...  .+
T Consensus        10 ~~~~~~~~~~~~~~li~-g~~~~g~l~~i~g~~g~GKT~~~~~l~~~~~~g~~~~g~~~~~~~~Vl~i~~E~~~~~~~~r   88 (193)
T PF13481_consen   10 SFEDLDTGFPPLDWLID-GLLPRGELTLIAGPPGSGKTTLALQLAAALATGRPFLGELPPRPGRVLYISLEDSESQIARR   88 (193)
T ss_dssp             ---HHHS------EEET-TEE-TTSEEEEEECSTSSHHHHHHHHHHHHHT---TT---------EEEEESSS-HHHHHHH
T ss_pred             hhhhccCCCCCcceeEC-CcccCCeEEEEEeCCCCCHHHHHHHHHHHHHhCCccCCcccccCceEEEEeccCCHHHHHHH
Confidence            34568899999999999 89999999999999999999999999998886          5779999999998644  23


Q ss_pred             HHHcCCCc---cc-----------eeEeCCC----CHHHHHHHHHHHhhc-CCccEEEEcCccccccccccCCCcCCCCc
Q 024705          165 AEAMGIDA---EN-----------LLIAQPD----SAENLLSVVDTLTKS-GSIDVIVVDSVAALIPKCEIGVPINGMYS  225 (264)
Q Consensus       165 ~~~~g~~~---~~-----------l~~~~~~----~~ee~~~~i~~~~~~-~~~~~vvIDsl~~~~~~~~~~~~~~~~~~  225 (264)
                      ...++...   ++           +.+....    ..+..++.+...+.. .++++||||+++.+... .       ..+
T Consensus        89 l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~lvviD~l~~~~~~-~-------~~~  160 (193)
T PF13481_consen   89 LRALLQDYDDDANLFFVDLSNWGCIRLFEPDSGGPLLDEDLEELEAALKELYGPDLVVIDPLQSLHDG-D-------ENS  160 (193)
T ss_dssp             HHHHHTTS-HHHHHHHHHH--E-EE---TTS---TTSHHHHHHHHHHHTT----SEEEEE-GGGG--S---------TT-
T ss_pred             HHHHhcccCCccceEEeeccccccceeeecccccccchHHHHHHHHHHhhcCCCcEEEEcCHHHHhcC-C-------CCC
Confidence            22222211   11           1111111    124445555666555 68999999999999853 1       111


Q ss_pred             HHHHHHHHHHHHHHHHHHhccCcEEEEEcccchH
Q 024705          226 DAQSRIMTQALRKIHYSLCQSHTLIIFLNQVKVL  259 (264)
Q Consensus       226 ~~q~r~i~~~L~~l~~~l~~~g~tVi~i~h~~~~  259 (264)
                      ......+.+.|++++   +++|++|++++|.++.
T Consensus       161 ~~~~~~~~~~l~~la---~~~~~~vi~v~H~~K~  191 (193)
T PF13481_consen  161 NSAVAQLMQELKRLA---KEYGVAVILVHHTNKS  191 (193)
T ss_dssp             HHHHHHHHHHHHHHH---HHH--EEEEEEEE---
T ss_pred             HHHHHHHHHHHHHHH---HHcCCEEEEEECCCCC
Confidence            122244455555554   8899999999998764

>COG2874 FlaH Predicted ATPases involved in biogenesis of archaeal flagella [Cell motility and secretion / Intracellular trafficking and secretion]

Probab=99.66  E-value=1.5e-15  Score=124.61  Aligned_cols=143  Identities=27%  Similarity=0.376  Sum_probs=109.7

Q ss_pred             ccccCcHHHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCH--HHHHHcCCCccce--
Q 024705          100 VISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP--SLAEAMGIDAENL--  175 (264)
Q Consensus       100 ~i~tG~~~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~--~~~~~~g~~~~~l--  175 (264)
                      -+++|.++||+-+| ||+|-|++++|-|++|+|||.|+.++++.++.+|.++.|+++|.+...  ...+.++++..+.  
T Consensus         9 ii~~gndelDkrLG-GGiP~GsL~lIEGd~~tGKSvLsqr~~YG~L~~g~~v~yvsTe~T~refi~qm~sl~ydv~~~~l   87 (235)
T COG2874           9 IIKSGNDELDKRLG-GGIPVGSLILIEGDNGTGKSVLSQRFAYGFLMNGYRVTYVSTELTVREFIKQMESLSYDVSDFLL   87 (235)
T ss_pred             hccCCcHHHHhhcc-CCCccCeEEEEECCCCccHHHHHHHHHHHHHhCCceEEEEEechhHHHHHHHHHhcCCCchHHHh
Confidence            47999999999999 999999999999999999999999999999999999999999988766  3456678776532  


Q ss_pred             ----eEeC---------CCCHHHHHHHHHHHhhcCCccEEEEcCccccccccccCCCcCCCCcHHHHHHHHHHHHHHHHH
Q 024705          176 ----LIAQ---------PDSAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYS  242 (264)
Q Consensus       176 ----~~~~---------~~~~ee~~~~i~~~~~~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r~i~~~L~~l~~~  242 (264)
                          .+++         ......+++.+-...+..+.++++|||++.....+          +..++..+...++++   
T Consensus        88 ~G~l~~~~~~~~~~~~~~~~~~~~L~~l~~~~k~~~~dViIIDSls~~~~~~----------~~~~vl~fm~~~r~l---  154 (235)
T COG2874          88 SGRLLFFPVNLEPVNWGRRSARKLLDLLLEFIKRWEKDVIIIDSLSAFATYD----------SEDAVLNFMTFLRKL---  154 (235)
T ss_pred             cceeEEEEecccccccChHHHHHHHHHHHhhHHhhcCCEEEEecccHHhhcc----------cHHHHHHHHHHHHHH---
Confidence                2222         11244566666666666789999999999988532          123444444444444   


Q ss_pred             HhccCcEEEEEcccc
Q 024705          243 LCQSHTLIIFLNQVK  257 (264)
Q Consensus       243 l~~~g~tVi~i~h~~  257 (264)
                       ...|.+||++-|..
T Consensus       155 -~d~gKvIilTvhp~  168 (235)
T COG2874         155 -SDLGKVIILTVHPS  168 (235)
T ss_pred             -HhCCCEEEEEeChh
Confidence             57799999998864

>cd01124 KaiC KaiC is a circadian clock protein primarily found in cyanobacteria KaiC is a RecA-like ATPase, having both Walker A and Walker B motifs

Probab=99.54  E-value=7.6e-14  Score=114.60  Aligned_cols=124  Identities=22%  Similarity=0.304  Sum_probs=87.3

Q ss_pred             EEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCH--HHHHHcCCCccce------eEeCCC----CH------
Q 024705          122 IVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP--SLAEAMGIDAENL------LIAQPD----SA------  183 (264)
Q Consensus       122 ~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~--~~~~~~g~~~~~l------~~~~~~----~~------  183 (264)
                      +++|.||||+|||+|+.+++...++.|++|+|+++|++...  .+++++|++.+.+      .+.+..    ..      
T Consensus         1 ~~li~G~~G~GKT~l~~~~~~~~~~~g~~v~~~s~e~~~~~~~~~~~~~g~~~~~l~~~g~l~~~d~~~~~~s~~~~~~~   80 (187)
T cd01124           1 STLLSGGPGTGKTTFALQFLYAGLARGEPGLYVTLEESPEELIENAESLGWDLERLEDEGLLAIVDADPDEIGPAESSLR   80 (187)
T ss_pred             CEEEEcCCCCCHHHHHHHHHHHHHHCCCcEEEEECCCCHHHHHHHHHHcCCChHHHHhcCCeEEEecCccccchhhhhhh
Confidence            47899999999999999999999999999999999998876  4667788875532      222211    11      


Q ss_pred             HHHHHHHHHHhhcCCccEEEEcCccccccccccCCCcCCCCcHHHHHHHHHHHHHHHHHHhccCcEEEEEcccchH
Q 024705          184 ENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVKVL  259 (264)
Q Consensus       184 ee~~~~i~~~~~~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r~i~~~L~~l~~~l~~~g~tVi~i~h~~~~  259 (264)
                      .++...+...+...++++++||+++.+...    +.      ....    ..+..+...+++.|+++|+++|....
T Consensus        81 ~~~~~~i~~~~~~~~~~~lviD~~~~~~~~----~~------~~~~----~~i~~l~~~l~~~g~tvi~v~~~~~~  142 (187)
T cd01124          81 LELIQRLKDAIEEFKAKRVVIDSVSGLLLM----EQ------STAR----LEIRRLLFALKRFGVTTLLTSEQSGL  142 (187)
T ss_pred             HHHHHHHHHHHHHhCCCEEEEeCcHHHhhc----Ch------HHHH----HHHHHHHHHHHHCCCEEEEEeccccC
Confidence            134455666666678999999999988731    00      0122    23333444446679999999997654

A related protein is found in archaea.

>KOG1433 consensus DNA repair protein RAD51/RHP55 [Replication, recombination and repair]

Probab=99.51  E-value=1e-13  Score=122.09  Aligned_cols=162  Identities=24%  Similarity=0.353  Sum_probs=113.7

Q ss_pred             CCCCccccCcHHHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCH----HHHHHcCCC
Q 024705           96 RRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP----SLAEAMGID  171 (264)
Q Consensus        96 ~~~~~i~tG~~~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~----~~~~~~g~~  171 (264)
                      .....++||..+||.+|+ ||++-|.+++|+||||+|||.|++.++.....-+++++|+|.+..+..    .++.+.|..
T Consensus        88 ~~~~~l~Tg~~~lD~lL~-gGi~~g~~TEi~G~p~~GKtQlc~~~~v~~~gge~~~l~IDs~s~~~~~~~~~ia~~~~~~  166 (326)
T KOG1433|consen   88 SELGFLSTGSKALDKLLG-GGIETGSLTELVGPPGSGKTQLCHTLAVTCGGGEGKVLYIDTESTFRLERLTEIAGRSGLR  166 (326)
T ss_pred             ccceeeccchhhhhHhhc-cCcccCceeEEecCCCccHHHHHHHHHHhccCCcceEEEEecchhcccchhhhhhhhhhhh
Confidence            456779999999999999 999999999999999999999998888766455678999999885332    455555554


Q ss_pred             cc----ceeEeCCCCHHHHHHH---HHHHhhcCCccEEEEcCccccccccccCCCcCCCCcHHHHHHHHHHHHHHHHHHh
Q 024705          172 AE----NLLIAQPDSAENLLSV---VDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLC  244 (264)
Q Consensus       172 ~~----~l~~~~~~~~ee~~~~---i~~~~~~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r~i~~~L~~l~~~l~  244 (264)
                      ..    ++.+....+.++....   ...........++++|+...... .++.+ .++  ....+..++..++.+.+.++
T Consensus       167 ~~~~~~~l~~~~~~~~~~~l~~~~~a~~~~~~~~~~l~~vds~ta~~~-~~~~g-~~~--~~a~~~~~~~~~~~l~~la~  242 (326)
T KOG1433|consen  167 GRDTLSNLMLARAYNLDHQLQLIQEAEIMINQSRVKLLIVDSATALYR-TTFKG-RGE--LSARQMLLAKFLRSLKKLAD  242 (326)
T ss_pred             hHHHHHHHHHHHHHhhHHHHHHHHHHHHHhhccceeEEEecccccccc-ccccc-ccc--hHHHHHHHHHHHHHHHHHHH
Confidence            44    2222222222222221   22223445778999999999884 44444 211  12333446677777777779


Q ss_pred             ccCcEEEEEcccchHhhh
Q 024705          245 QSHTLIIFLNQVKVLLLK  262 (264)
Q Consensus       245 ~~g~tVi~i~h~~~~~~~  262 (264)
                      ++|..||+.||+...++.
T Consensus       243 ~~g~~vvitn~v~~~~d~  260 (326)
T KOG1433|consen  243 EFGVAVVITNQVTAQVDG  260 (326)
T ss_pred             hcCceEEEeccccccccc
Confidence            999999999999987754

>cd01120 RecA-like_NTPases RecA-like NTPases

Probab=99.41  E-value=5.6e-12  Score=100.34  Aligned_cols=133  Identities=25%  Similarity=0.356  Sum_probs=89.1

Q ss_pred             EEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCHHHHHH----cCCCccceeEeCCC----CHHHHHHHHHHH
Q 024705          122 IVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEA----MGIDAENLLIAQPD----SAENLLSVVDTL  193 (264)
Q Consensus       122 ~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~~~~~~----~g~~~~~l~~~~~~----~~ee~~~~i~~~  193 (264)
                      +++|+|+||+|||+++..++..+...+++++|++.+..........    .....++..+....    ............
T Consensus         1 ~~~i~G~~G~GKT~l~~~i~~~~~~~~~~v~~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   80 (165)
T cd01120           1 LILVFGPTGSGKTTLALQLALNIATKGGKVVYVDIEEEIEELTERLIGESLKGALDNLIIVFATADDPAAARLLSKAERL   80 (165)
T ss_pred             CeeEeCCCCCCHHHHHHHHHHHHHhcCCEEEEEECCcchHHHHHHHhhhhhccccccEEEEEcCCCCCcHHHHHHHHHHH
Confidence            3789999999999999999999998999999999998876533221    11122333333222    233333344455


Q ss_pred             hhcCCccEEEEcCccccccccccCCCcCCCCcHHHHHHHHHHHHHHHHHHhccCcEEEEEcccchHhh
Q 024705          194 TKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVKVLLL  261 (264)
Q Consensus       194 ~~~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r~i~~~L~~l~~~l~~~g~tVi~i~h~~~~~~  261 (264)
                      ....+++++|||+++.+...... ...      .....+...+..+...+++.|+++|+++|..+..+
T Consensus        81 ~~~~~~~~lviDe~~~~~~~~~~-~~~------~~~~~~~~~l~~l~~~~~~~~~~vv~~~~~~~~~~  141 (165)
T cd01120          81 RERGGDDLIILDELTRLVRALRE-IRE------GYPGELDEELRELLERARKGGVTVIFTLQVPSGDK  141 (165)
T ss_pred             HhCCCCEEEEEEcHHHHHHHHHH-HHh------cCChHHHHHHHHHHHHHhcCCceEEEEEecCCccc
Confidence            56678999999999998742111 000      01122446677777777889999999999887654

This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.

>cd01125 repA Hexameric Replicative Helicase RepA

Probab=99.38  E-value=7.9e-12  Score=107.08  Aligned_cols=128  Identities=20%  Similarity=0.304  Sum_probs=80.8

Q ss_pred             CcEEEEEecCCCChHHHHHHHHHHHhh------------cCCeEEEEecCCCCCH--HHHHHcCCC------ccceeE--
Q 024705          120 GRIVEIYGREASGKTTLALHVIKEAQK------------LGGYCAYLDVENALDP--SLAEAMGID------AENLLI--  177 (264)
Q Consensus       120 G~~~~I~G~~GsGKTtl~~~l~~~~~~------------~g~~v~~~~~e~~~~~--~~~~~~g~~------~~~l~~--  177 (264)
                      |++.+|+||+|+|||+|+++++..++.            .+++|+|++.|++...  .+...++..      .+++.+  
T Consensus         1 g~~~ll~g~~G~GKS~lal~la~~va~G~~~~g~~~~~~~~~~Vlyi~~Ed~~~~i~~Rl~~i~~~~~~~~~~~rl~~~~   80 (239)
T cd01125           1 GYVSALVAPGGTGKSSLLLVLALAMALGKNLFGGGLKVTEPGRVVYLSAEDPREEIHRRLEAILQHLEPDDAGDRLFIDS   80 (239)
T ss_pred             CceeEEEcCCCCCHHHHHHHHHHHHhcCccccCCccccCCCceEEEEECCCCHHHHHHHHHHHHhhcCCcCcccceEEec
Confidence            678999999999999999999987652            5678999999998764  333333221      112221  


Q ss_pred             --------eCC---CCHHHHHHHHHHHhhcCCccEEEEcCccccccccccCCCcCCCCcHHHHHHHHHHHHHHHHHHhcc
Q 024705          178 --------AQP---DSAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQS  246 (264)
Q Consensus       178 --------~~~---~~~ee~~~~i~~~~~~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r~i~~~L~~l~~~l~~~  246 (264)
                              ...   ...+.+...++ .+...+++++|||++..+....+        .+....+.+.+.|.+++   ++.
T Consensus        81 g~~~~l~~~~~~~~~~~~~~~~l~~-~~~~~~~~lvviDpl~~~~~~~~--------~d~~~~~~~~~~L~~~a---~~~  148 (239)
T cd01125          81 GRIQPISIAREGRIIVVPEFERIIE-QLLIRRIDLVVIDPLVSFHGVSE--------NDNGAMDAVIKALRRIA---AQT  148 (239)
T ss_pred             cCCCceecccCCcccccHHHHHHHH-HHHhcCCCEEEECChHHhCCCCc--------CCHHHHHHHHHHHHHHH---HHh
Confidence                    111   11223333333 23346899999999888742111        11233443444555554   888


Q ss_pred             CcEEEEEcccchH
Q 024705          247 HTLIIFLNQVKVL  259 (264)
Q Consensus       247 g~tVi~i~h~~~~  259 (264)
                      |++|++++|..+.
T Consensus       149 g~avl~v~H~~K~  161 (239)
T cd01125         149 GAAILLVHHVRKG  161 (239)
T ss_pred             CCEEEEEeccCcc
Confidence            9999999998753

RepA is encoded by a plasmid, which is found in most Gram negative bacteria. RepA is a 5'-3' DNA helicase which can utilize ATP, GTP and CTP to a lesser extent.

>COG1136 SalX ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]

Probab=99.38  E-value=4.9e-12  Score=106.29  Aligned_cols=74  Identities=16%  Similarity=0.123  Sum_probs=53.7

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCC-C-----HHHHHHcCCCccceeEeCCCCHHHHHHH
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENAL-D-----PSLAEAMGIDAENLLIAQPDSAENLLSV  189 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~-~-----~~~~~~~g~~~~~l~~~~~~~~ee~~~~  189 (264)
                      -+++|+++.|.||+|||||||+..+..-..+.++.+.+...+... .     ..|.+.+|+..|++.+.+..++.|.+..
T Consensus        27 ~i~~Ge~vaI~GpSGSGKSTLLniig~ld~pt~G~v~i~g~d~~~l~~~~~~~~R~~~iGfvFQ~~nLl~~ltv~ENv~l  106 (226)
T COG1136          27 EIEAGEFVAIVGPSGSGKSTLLNLLGGLDKPTSGEVLINGKDLTKLSEKELAKLRRKKIGFVFQNFNLLPDLTVLENVEL  106 (226)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhcccCCCCceEEECCEEcCcCCHHHHHHHHHHhEEEECccCCCCCCCCHHHHHHh
Confidence            488999999999999999997666655555545555554433321 1     2567789999999988888888777653

>COG1125 OpuBA ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]

Probab=99.36  E-value=3.1e-12  Score=107.92  Aligned_cols=140  Identities=16%  Similarity=0.181  Sum_probs=86.0

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCH---HHHHHcCCCccceeEeCCCCHHHHHHHHHH
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP---SLAEAMGIDAENLLIAQPDSAENLLSVVDT  192 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~---~~~~~~g~~~~~l~~~~~~~~ee~~~~i~~  192 (264)
                      -++.|+++++.||+||||||++..+ ..+.....+-++++.+...+.   ...+++||..|.+-+++..++++.+..+-.
T Consensus        23 ~I~~gef~vliGpSGsGKTTtLkMI-NrLiept~G~I~i~g~~i~~~d~~~LRr~IGYviQqigLFPh~Tv~eNIa~VP~  101 (309)
T COG1125          23 TIEEGEFLVLIGPSGSGKTTTLKMI-NRLIEPTSGEILIDGEDISDLDPVELRRKIGYVIQQIGLFPHLTVAENIATVPK  101 (309)
T ss_pred             EecCCeEEEEECCCCCcHHHHHHHH-hcccCCCCceEEECCeecccCCHHHHHHhhhhhhhhcccCCCccHHHHHHhhhh
Confidence            4889999999999999999965554 444444444556666554442   678889999999988888887777655543


Q ss_pred             Hhhc----------CCccEEEEcC--ccccccccccCC----------------------CcCCCCcHHHHHHHHHHHHH
Q 024705          193 LTKS----------GSIDVIVVDS--VAALIPKCEIGV----------------------PINGMYSDAQSRIMTQALRK  238 (264)
Q Consensus       193 ~~~~----------~~~~~vvIDs--l~~~~~~~~~~~----------------------~~~~~~~~~q~r~i~~~L~~  238 (264)
                      +..=          .-.+++-+|.  +..-+| .+++|                      +|.++++.-....+...+.+
T Consensus       102 L~~w~k~~i~~r~~ELl~lvgL~p~~~~~RyP-~eLSGGQQQRVGv~RALAadP~ilLMDEPFgALDpI~R~~lQ~e~~~  180 (309)
T COG1125         102 LLGWDKERIKKRADELLDLVGLDPSEYADRYP-HELSGGQQQRVGVARALAADPPILLMDEPFGALDPITRKQLQEEIKE  180 (309)
T ss_pred             hcCCCHHHHHHHHHHHHHHhCCCHHHHhhcCc-hhcCcchhhHHHHHHHHhcCCCeEeecCCccccChhhHHHHHHHHHH
Confidence            3200          0011222221  111111 11111                      23333333333345556677


Q ss_pred             HHHHHhccCcEEEEEcccchHh
Q 024705          239 IHYSLCQSHTLIIFLNQVKVLL  260 (264)
Q Consensus       239 l~~~l~~~g~tVi~i~h~~~~~  260 (264)
                      +.   ++.|.|+|+++|+.++.
T Consensus       181 lq---~~l~kTivfVTHDidEA  199 (309)
T COG1125         181 LQ---KELGKTIVFVTHDIDEA  199 (309)
T ss_pred             HH---HHhCCEEEEEecCHHHH
Confidence            76   78899999999998764

>COG4555 NatA ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]

Probab=99.34  E-value=1.7e-11  Score=100.09  Aligned_cols=137  Identities=15%  Similarity=0.127  Sum_probs=93.6

Q ss_pred             HHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCH-HHHHHcCCCccceeEeCCCCHHH
Q 024705          107 KLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP-SLAEAMGIDAENLLIAQPDSAEN  185 (264)
Q Consensus       107 ~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~-~~~~~~g~~~~~l~~~~~~~~ee  185 (264)
                      +++.+.=  -.+.|+++.|.||||+||||++..++.-+.+..+++..-..+....+ ...+.+|+.....-++...+++|
T Consensus        17 AvrdVSF--~ae~Gei~GlLG~NGAGKTT~LRmiatlL~P~~G~v~idg~d~~~~p~~vrr~IGVl~~e~glY~RlT~rE   94 (245)
T COG4555          17 AVRDVSF--EAEEGEITGLLGENGAGKTTLLRMIATLLIPDSGKVTIDGVDTVRDPSFVRRKIGVLFGERGLYARLTARE   94 (245)
T ss_pred             hhhheeE--EeccceEEEEEcCCCCCchhHHHHHHHhccCCCceEEEeecccccChHHHhhhcceecCCcChhhhhhHHH
Confidence            3444432  47899999999999999999888888877777776666556655555 45667888776655555555544


Q ss_pred             HHHH----------------------------------------------HHHHhhcCCccEEEEcCccccccccccCCC
Q 024705          186 LLSV----------------------------------------------VDTLTKSGSIDVIVVDSVAALIPKCEIGVP  219 (264)
Q Consensus       186 ~~~~----------------------------------------------i~~~~~~~~~~~vvIDsl~~~~~~~~~~~~  219 (264)
                      .+..                                              .+.++  ++|+++++|...+-..       
T Consensus        95 nl~~Fa~L~~l~~~~~kari~~l~k~l~l~~~~~rRv~~~S~G~kqkV~iARAlv--h~P~i~vlDEP~sGLD-------  165 (245)
T COG4555          95 NLKYFARLNGLSRKEIKARIAELSKRLQLLEYLDRRVGEFSTGMKQKVAIARALV--HDPSILVLDEPTSGLD-------  165 (245)
T ss_pred             HHHHHHHHhhhhhhHHHHHHHHHHHHhChHHHHHHHHhhhchhhHHHHHHHHHHh--cCCCeEEEcCCCCCcc-------
Confidence            3321                                              11111  5788999997654431       


Q ss_pred             cCCCCcHHHHHHHHHHHHHHHHHHhccCcEEEEEcccchHhhhcC
Q 024705          220 INGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVKVLLLKHF  264 (264)
Q Consensus       220 ~~~~~~~~q~r~i~~~L~~l~~~l~~~g~tVi~i~h~~~~~~~~~  264 (264)
                            -.-.    +.++++...+++.|.+||+.+|...++++.|
T Consensus       166 ------i~~~----r~~~dfi~q~k~egr~viFSSH~m~EvealC  200 (245)
T COG4555         166 ------IRTR----RKFHDFIKQLKNEGRAVIFSSHIMQEVEALC  200 (245)
T ss_pred             ------HHHH----HHHHHHHHHhhcCCcEEEEecccHHHHHHhh
Confidence                  0122    3445555555888999999999999999876

>COG2884 FtsE Predicted ATPase involved in cell division [Cell division and chromosome partitioning]

Probab=99.33  E-value=1.8e-12  Score=104.85  Aligned_cols=83  Identities=19%  Similarity=0.194  Sum_probs=63.6

Q ss_pred             ccccCcHHHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCC-----HHHHHHcCCCccc
Q 024705          100 VISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALD-----PSLAEAMGIDAEN  174 (264)
Q Consensus       100 ~i~tG~~~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~-----~~~~~~~g~~~~~  174 (264)
                      .++.|-+.|+.+-=  -+++|+++.++||+|+|||||+..+.....+..+.+.+.+.+-+.-     +...+++|+..|+
T Consensus        10 ~Y~~g~~aL~~vs~--~i~~Gef~fl~GpSGAGKSTllkLi~~~e~pt~G~i~~~~~dl~~l~~~~iP~LRR~IGvVFQD   87 (223)
T COG2884          10 AYPGGREALRDVSF--HIPKGEFVFLTGPSGAGKSTLLKLIYGEERPTRGKILVNGHDLSRLKGREIPFLRRQIGVVFQD   87 (223)
T ss_pred             hcCCCchhhhCceE--eecCceEEEEECCCCCCHHHHHHHHHhhhcCCCceEEECCeecccccccccchhhheeeeEeee
Confidence            44556557777643  6899999999999999999999999888888888888887765532     2567889999887


Q ss_pred             eeEeCCCCHH
Q 024705          175 LLIAQPDSAE  184 (264)
Q Consensus       175 l~~~~~~~~e  184 (264)
                      ..+....++.
T Consensus        88 ~rLL~~~tvy   97 (223)
T COG2884          88 FRLLPDRTVY   97 (223)
T ss_pred             ccccccchHh
Confidence            7665544433

>COG1121 ZnuC ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]

Probab=99.32  E-value=1.4e-11  Score=105.10  Aligned_cols=129  Identities=14%  Similarity=0.228  Sum_probs=79.1

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCHHHHHHcCCCccceeEeC--CCCHHHHHH-----
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQ--PDSAENLLS-----  188 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~~~~~~~g~~~~~l~~~~--~~~~ee~~~-----  188 (264)
                      -+++|+++.|.||||+|||||+..++.-+.+..+.+.++........ ...++|+.||+..+..  |.++.+++.     
T Consensus        26 ~v~~G~~~~iiGPNGaGKSTLlK~iLGll~p~~G~i~~~g~~~~~~~-~~~~IgYVPQ~~~~d~~fP~tV~d~V~~g~~~  104 (254)
T COG1121          26 SVEKGEITALIGPNGAGKSTLLKAILGLLKPSSGEIKIFGKPVRKRR-KRLRIGYVPQKSSVDRSFPITVKDVVLLGRYG  104 (254)
T ss_pred             EEcCCcEEEEECCCCCCHHHHHHHHhCCCcCCcceEEEccccccccc-cCCeEEEcCcccccCCCCCcCHHHHHHccCcc
Confidence            58899999999999999999999988877666666655543221111 1234566666432111  222222211     


Q ss_pred             ---------------------------------------------HHHHHhhcCCccEEEEcCccccccccccCCCcCCC
Q 024705          189 ---------------------------------------------VVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGM  223 (264)
Q Consensus       189 ---------------------------------------------~i~~~~~~~~~~~vvIDsl~~~~~~~~~~~~~~~~  223 (264)
                                                                   +.+.+  ..+++++++|+...-..           
T Consensus       105 ~~g~~~~~~~~d~~~v~~aL~~Vgm~~~~~r~i~~LSGGQ~QRV~lARAL--~~~p~lllLDEP~~gvD-----------  171 (254)
T COG1121         105 KKGWFRRLNKKDKEKVDEALERVGMEDLRDRQIGELSGGQKQRVLLARAL--AQNPDLLLLDEPFTGVD-----------  171 (254)
T ss_pred             cccccccccHHHHHHHHHHHHHcCchhhhCCcccccCcHHHHHHHHHHHh--ccCCCEEEecCCcccCC-----------
Confidence                                                         11111  24678888886554331           


Q ss_pred             CcHHHHHHHHHHHHHHHHHHhccCcEEEEEcccchHhhhcC
Q 024705          224 YSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVKVLLLKHF  264 (264)
Q Consensus       224 ~~~~q~r~i~~~L~~l~~~l~~~g~tVi~i~h~~~~~~~~~  264 (264)
                        ...+..+...|+++.   ++ |+||++++|+...+.+.|
T Consensus       172 --~~~~~~i~~lL~~l~---~e-g~tIl~vtHDL~~v~~~~  206 (254)
T COG1121         172 --VAGQKEIYDLLKELR---QE-GKTVLMVTHDLGLVMAYF  206 (254)
T ss_pred             --HHHHHHHHHHHHHHH---HC-CCEEEEEeCCcHHhHhhC
Confidence              133344666777775   55 999999999998876654

>COG1131 CcmA ABC-type multidrug transport system, ATPase component [Defense mechanisms]

Probab=99.30  E-value=5e-12  Score=111.42  Aligned_cols=133  Identities=14%  Similarity=0.145  Sum_probs=92.5

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCC-HHHHHHcCCCccceeEeCCCCHHHHHHHHHHHh
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALD-PSLAEAMGIDAENLLIAQPDSAENLLSVVDTLT  194 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~-~~~~~~~g~~~~~l~~~~~~~~ee~~~~i~~~~  194 (264)
                      -+++|+++++.||||+||||++..++....+.++.+.+...+.... ....+++|+.++...+++..++.|.+..+..+.
T Consensus        27 ~i~~Gei~gllG~NGAGKTTllk~l~gl~~p~~G~i~i~G~~~~~~~~~~~~~igy~~~~~~~~~~lT~~e~l~~~~~l~  106 (293)
T COG1131          27 EVEPGEIFGLLGPNGAGKTTLLKILAGLLKPTSGEILVLGYDVVKEPAKVRRRIGYVPQEPSLYPELTVRENLEFFARLY  106 (293)
T ss_pred             EEcCCeEEEEECCCCCCHHHHHHHHhCCcCCCceEEEEcCEeCccCHHHHHhheEEEccCCCCCccccHHHHHHHHHHHh
Confidence            6889999999999999999999998888877777777776555443 355667899888877777666666554433321


Q ss_pred             h--------------------------------------------cCCccEEEEcCccccccccccCCCcCCCCcHHHHH
Q 024705          195 K--------------------------------------------SGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSR  230 (264)
Q Consensus       195 ~--------------------------------------------~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r  230 (264)
                      .                                            ..+|+++++|..+.-             ++...++
T Consensus       107 ~~~~~~~~~~~~~~l~~~~L~~~~~~~~~~lS~G~kqrl~ia~aL~~~P~lliLDEPt~G-------------LDp~~~~  173 (293)
T COG1131         107 GLSKEEAEERIEELLELFGLEDKANKKVRTLSGGMKQRLSIALALLHDPELLILDEPTSG-------------LDPESRR  173 (293)
T ss_pred             CCChhHHHHHHHHHHHHcCCchhhCcchhhcCHHHHHHHHHHHHHhcCCCEEEECCCCcC-------------CCHHHHH
Confidence            1                                            133455555543332             2234445


Q ss_pred             HHHHHHHHHHHHHhccCcEEEEEcccchHhhhcC
Q 024705          231 IMTQALRKIHYSLCQSHTLIIFLNQVKVLLLKHF  264 (264)
Q Consensus       231 ~i~~~L~~l~~~l~~~g~tVi~i~h~~~~~~~~~  264 (264)
                      .+.+.|++++   ++.|+||++++|..++++..|
T Consensus       174 ~~~~~l~~l~---~~g~~tvlissH~l~e~~~~~  204 (293)
T COG1131         174 EIWELLRELA---KEGGVTILLSTHILEEAEELC  204 (293)
T ss_pred             HHHHHHHHHH---hCCCcEEEEeCCcHHHHHHhC
Confidence            5566666665   555599999999999998765

>COG1120 FepC ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]

Probab=99.27  E-value=4.1e-11  Score=102.67  Aligned_cols=127  Identities=20%  Similarity=0.258  Sum_probs=82.5

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCC---CHHHHHHcCCCcccee----------------
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENAL---DPSLAEAMGIDAENLL----------------  176 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~---~~~~~~~~g~~~~~l~----------------  176 (264)
                      -+++|+++.|.||||||||||+..++.-..+..|.| +++.....   ...+++.+++.+|...                
T Consensus        24 ~i~~G~i~~iiGpNG~GKSTLLk~l~g~l~p~~G~V-~l~g~~i~~~~~kelAk~ia~vpQ~~~~~~~~tV~d~V~~GR~  102 (258)
T COG1120          24 SIPKGEITGILGPNGSGKSTLLKCLAGLLKPKSGEV-LLDGKDIASLSPKELAKKLAYVPQSPSAPFGLTVYELVLLGRY  102 (258)
T ss_pred             EecCCcEEEEECCCCCCHHHHHHHHhccCCCCCCEE-EECCCchhhcCHHHHhhhEEEeccCCCCCCCcEEeehHhhcCC
Confidence            478999999999999999999988888776555555 44443322   2368888888776421                


Q ss_pred             ----EeCCCCHHH---H---H------------------------HHHHHHhhcCCccEEEEcCccccccccccCCCcCC
Q 024705          177 ----IAQPDSAEN---L---L------------------------SVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPING  222 (264)
Q Consensus       177 ----~~~~~~~ee---~---~------------------------~~i~~~~~~~~~~~vvIDsl~~~~~~~~~~~~~~~  222 (264)
                          +....+.++   +   +                        .+.+.+  ..+++++++|+.++...          
T Consensus       103 p~~~~~~~~~~~D~~~v~~aL~~~~~~~la~r~~~~LSGGerQrv~iArAL--aQ~~~iLLLDEPTs~LD----------  170 (258)
T COG1120         103 PHLGLFGRPSKEDEEIVEEALELLGLEHLADRPVDELSGGERQRVLIARAL--AQETPILLLDEPTSHLD----------  170 (258)
T ss_pred             cccccccCCCHhHHHHHHHHHHHhCcHHHhcCcccccChhHHHHHHHHHHH--hcCCCEEEeCCCccccC----------
Confidence                011111111   1   1                        111111  24678899998887762          


Q ss_pred             CCcHHHHHHHHHHHHHHHHHHhccCcEEEEEcccchHhh
Q 024705          223 MYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVKVLLL  261 (264)
Q Consensus       223 ~~~~~q~r~i~~~L~~l~~~l~~~g~tVi~i~h~~~~~~  261 (264)
                         -..+-++.+.++++.   ++.|.|||++.|+.+-.-
T Consensus       171 ---i~~Q~evl~ll~~l~---~~~~~tvv~vlHDlN~A~  203 (258)
T COG1120         171 ---IAHQIEVLELLRDLN---REKGLTVVMVLHDLNLAA  203 (258)
T ss_pred             ---HHHHHHHHHHHHHHH---HhcCCEEEEEecCHHHHH
Confidence               133444667777776   788999999999876543

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

Probab=99.26  E-value=5.1e-12  Score=112.72  Aligned_cols=74  Identities=19%  Similarity=0.195  Sum_probs=58.4

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCHHHHHHcCCCccceeEeCCCCHHHHHHH
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSV  189 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~~~~~~~g~~~~~l~~~~~~~~ee~~~~  189 (264)
                      -+++|+++.+.|||||||||+++.++.--.+.++.+.+-..+...-+...+.+|+..|+..+++..++.+++..
T Consensus        27 ~i~~Gef~~lLGPSGcGKTTlLR~IAGfe~p~~G~I~l~G~~i~~lpp~kR~ig~VFQ~YALFPHltV~~NVaf  100 (352)
T COG3842          27 DIKKGEFVTLLGPSGCGKTTLLRMIAGFEQPSSGEILLDGEDITDVPPEKRPIGMVFQSYALFPHMTVEENVAF  100 (352)
T ss_pred             eecCCcEEEEECCCCCCHHHHHHHHhCCCCCCCceEEECCEECCCCChhhcccceeecCcccCCCCcHHHHhhh
Confidence            58899999999999999999888888776666776655544444445567779999999998888888776543

>COG3598 RepA RecA-family ATPase [DNA replication, recombination, and repair]

Probab=99.26  E-value=9e-11  Score=101.91  Aligned_cols=133  Identities=20%  Similarity=0.277  Sum_probs=96.5

Q ss_pred             CCCCCCcEEEEEecCCCChHHHHHHHHHHHhh----------cCCeEEEEecCCCCCHH------HHHHcCCCccceeEe
Q 024705          115 GGLPKGRIVEIYGREASGKTTLALHVIKEAQK----------LGGYCAYLDVENALDPS------LAEAMGIDAENLLIA  178 (264)
Q Consensus       115 gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~----------~g~~v~~~~~e~~~~~~------~~~~~g~~~~~l~~~  178 (264)
                      +-+..|-..+|+|++|+||||+++.++..++.          .-++|+|++.|......      ...++|+.+.++...
T Consensus        84 ~~fr~g~~~~~~gdsg~GKttllL~l~IalaaG~~lfG~~v~epGkvlyvslEl~re~~L~Rl~~v~a~mgLsPadvrn~  163 (402)
T COG3598          84 EFFRKGYVSILYGDSGVGKTTLLLYLCIALAAGKNLFGNKVKEPGKVLYVSLELYREDILERLEPVRARMGLSPADVRNM  163 (402)
T ss_pred             HHhhcCeeEEEecCCcccHhHHHHHHHHHHHhhHHHhcccccCCCeEEEEEeccChHHHHHHHHHHHHHcCCChHhhhhe
Confidence            45567878889999999999999888776542          45789999999887762      345678877655333


Q ss_pred             CCCC-----------HHHHHHHHHHHhhcCCccEEEEcCccccccccccCCCcCCCCcHHHHHHHHHHHHHHHHHHhccC
Q 024705          179 QPDS-----------AENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSH  247 (264)
Q Consensus       179 ~~~~-----------~ee~~~~i~~~~~~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r~i~~~L~~l~~~l~~~g  247 (264)
                      +..+           ...+.........+..+++||||++..++..        +..+..|.+++.+.+++++   ...+
T Consensus       164 dltd~~Gaa~~~d~l~pkl~rRfek~~~Q~rp~~vViDp~v~f~~G--------~s~s~vqv~~fi~~~rkla---~~l~  232 (402)
T COG3598         164 DLTDVSGAADESDVLSPKLYRRFEKILEQKRPDFVVIDPFVAFYEG--------KSISDVQVKEFIKKTRKLA---RNLE  232 (402)
T ss_pred             eccccccCCCccccccHHHHHHHHHHHHHhCCCeEEEcchhhhcCC--------ccchhHHHHHHHHHHHHHH---HhcC
Confidence            2211           1144455555556678999999999988842        2233478888888888887   8889


Q ss_pred             cEEEEEcccch
Q 024705          248 TLIIFLNQVKV  258 (264)
Q Consensus       248 ~tVi~i~h~~~  258 (264)
                      |.||+++|...
T Consensus       233 caIiy~hHtsk  243 (402)
T COG3598         233 CAIIYIHHTSK  243 (402)
T ss_pred             CeEEEEecccc
Confidence            99999999764

>PRK13537 nodulation ABC transporter NodI; Provisional

Probab=99.25  E-value=4.8e-11  Score=105.91  Aligned_cols=132  Identities=14%  Similarity=0.122  Sum_probs=80.9

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCH-HHHHHcCCCccceeEeCCCCHHHHHHHHHHHh
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP-SLAEAMGIDAENLLIAQPDSAENLLSVVDTLT  194 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~-~~~~~~g~~~~~l~~~~~~~~ee~~~~i~~~~  194 (264)
                      -+++|+++.|.||||+|||||+..++....+..+.+.+...+..... ...+.+|+.+++..++...++.+.+.......
T Consensus        29 ~i~~Gei~gllGpNGaGKSTLl~~l~Gl~~p~~G~v~i~G~~~~~~~~~~~~~ig~v~q~~~~~~~~tv~e~l~~~~~~~  108 (306)
T PRK13537         29 HVQRGECFGLLGPNGAGKTTTLRMLLGLTHPDAGSISLCGEPVPSRARHARQRVGVVPQFDNLDPDFTVRENLLVFGRYF  108 (306)
T ss_pred             EEeCCcEEEEECCCCCCHHHHHHHHhcCCCCCceEEEECCEecccchHHHHhcEEEEeccCcCCCCCcHHHHHHHHHHHc
Confidence            47899999999999999999999988766666666654433322222 34456788777655554444444433211110


Q ss_pred             --------------------------------------------hcCCccEEEEcCccccccccccCCCcCCCCcHHHHH
Q 024705          195 --------------------------------------------KSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSR  230 (264)
Q Consensus       195 --------------------------------------------~~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r  230 (264)
                                                                  --.+|+++++|..+.-+             +...++
T Consensus       109 ~~~~~~~~~~~~~~l~~~~l~~~~~~~~~~LS~G~~qrl~la~aL~~~P~lllLDEPt~gL-------------D~~~~~  175 (306)
T PRK13537        109 GLSAAAARALVPPLLEFAKLENKADAKVGELSGGMKRRLTLARALVNDPDVLVLDEPTTGL-------------DPQARH  175 (306)
T ss_pred             CCCHHHHHHHHHHHHHHcCCchHhcCchhhCCHHHHHHHHHHHHHhCCCCEEEEeCCCcCC-------------CHHHHH
Confidence                                                        01344555555444333             123333


Q ss_pred             HHHHHHHHHHHHHhccCcEEEEEcccchHhhhcC
Q 024705          231 IMTQALRKIHYSLCQSHTLIIFLNQVKVLLLKHF  264 (264)
Q Consensus       231 ~i~~~L~~l~~~l~~~g~tVi~i~h~~~~~~~~~  264 (264)
                      .+.+.++++    ++.|+|||+++|..+.++..|
T Consensus       176 ~l~~~l~~l----~~~g~till~sH~l~e~~~~~  205 (306)
T PRK13537        176 LMWERLRSL----LARGKTILLTTHFMEEAERLC  205 (306)
T ss_pred             HHHHHHHHH----HhCCCEEEEECCCHHHHHHhC
Confidence            444455554    455999999999999987654

>COG1122 CbiO ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=99.24  E-value=3.1e-11  Score=102.76  Aligned_cols=144  Identities=19%  Similarity=0.195  Sum_probs=99.2

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCC----CHHHHHHcCCCccce--eEeCCC--------
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENAL----DPSLAEAMGIDAENL--LIAQPD--------  181 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~----~~~~~~~~g~~~~~l--~~~~~~--------  181 (264)
                      .+++|+.++|.|+||||||||+..+...+.+..+.+ +++.....    .....+.+|+..|+.  .++.+.        
T Consensus        26 ~i~~Ge~~~i~G~nGsGKSTL~~~l~GLl~p~~G~v-~~~g~~~~~~~~~~~~~~~vG~VfQnpd~q~~~~tV~~evafg  104 (235)
T COG1122          26 EIEKGERVLLIGPNGSGKSTLLKLLNGLLKPTSGEV-LVDGLDTSSEKSLLELRQKVGLVFQNPDDQLFGPTVEDEVAFG  104 (235)
T ss_pred             EECCCCEEEEECCCCCCHHHHHHHHcCcCcCCCCEE-EECCeeccchhhHHHhhcceEEEEECcccccccCcHHHHHhhc
Confidence            688999999999999999999998888777777777 55443322    224566788877754  222222        


Q ss_pred             ------CHHHHHHHHHHHh----------------hcCCccEEEEcCccccccccccCCCcCCCCcHHHHHHHHHHHHHH
Q 024705          182 ------SAENLLSVVDTLT----------------KSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKI  239 (264)
Q Consensus       182 ------~~ee~~~~i~~~~----------------~~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r~i~~~L~~l  239 (264)
                            +.+++...+....                ..+.-+.|.|.++-++.|.--+-+++...++....+.+.+.++++
T Consensus       105 ~~n~g~~~~e~~~rv~~~l~~vgl~~~~~r~p~~LSGGqkqRvaIA~vLa~~P~iliLDEPta~LD~~~~~~l~~~l~~L  184 (235)
T COG1122         105 LENLGLPREEIEERVAEALELVGLEELLDRPPFNLSGGQKQRVAIAGVLAMGPEILLLDEPTAGLDPKGRRELLELLKKL  184 (235)
T ss_pred             hhhcCCCHHHHHHHHHHHHHHcCchhhccCCccccCCcceeeHHhhHHHHcCCCEEEEcCCCCCCCHHHHHHHHHHHHHH
Confidence                  2223333332221                123345677777777776555666777777778888888888888


Q ss_pred             HHHHhccCcEEEEEcccchHhhhc
Q 024705          240 HYSLCQSHTLIIFLNQVKVLLLKH  263 (264)
Q Consensus       240 ~~~l~~~g~tVi~i~h~~~~~~~~  263 (264)
                      .   .+.|.|+|+++|..+.+...
T Consensus       185 ~---~~~~~tii~~tHd~~~~~~~  205 (235)
T COG1122         185 K---EEGGKTIIIVTHDLELVLEY  205 (235)
T ss_pred             H---hcCCCeEEEEeCcHHHHHhh
Confidence            7   67789999999999887654

>COG4152 ABC-type uncharacterized transport system, ATPase component [General function prediction only]

Probab=99.24  E-value=7.8e-11  Score=98.92  Aligned_cols=127  Identities=16%  Similarity=0.209  Sum_probs=85.7

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCHHHHHHcCCCccceeEeCCCCHHHHHH-------
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLS-------  188 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~~~~~~~g~~~~~l~~~~~~~~ee~~~-------  188 (264)
                      -+++|++..+.||||+||||+.+.+..-+.+..+.+-|...+.  .+....++|+.|+.--+++..++++.+.       
T Consensus        24 ~v~~G~i~GllG~NGAGKTTtfRmILglle~~~G~I~~~g~~~--~~~~~~rIGyLPEERGLy~k~tv~dql~yla~LkG  101 (300)
T COG4152          24 EVPPGEIFGLLGPNGAGKTTTFRMILGLLEPTEGEITWNGGPL--SQEIKNRIGYLPEERGLYPKMTVEDQLKYLAELKG  101 (300)
T ss_pred             eecCCeEEEeecCCCCCccchHHHHhccCCccCceEEEcCcch--hhhhhhhcccChhhhccCccCcHHHHHHHHHHhcC
Confidence            4789999999999999999988888877766677777766443  2344556777776555554444332221       


Q ss_pred             ---------------------------------------HHHHHhhcCCccEEEEcCc-cccccccccCCCcCCCCcHHH
Q 024705          189 ---------------------------------------VVDTLTKSGSIDVIVVDSV-AALIPKCEIGVPINGMYSDAQ  228 (264)
Q Consensus       189 ---------------------------------------~i~~~~~~~~~~~vvIDsl-~~~~~~~~~~~~~~~~~~~~q  228 (264)
                                                             .+..+  -+.|+++|+|.. +.+-              ...
T Consensus       102 m~~~e~~~~~~~wLer~~i~~~~~~kIk~LSKGnqQKIQfisav--iHePeLlILDEPFSGLD--------------PVN  165 (300)
T COG4152         102 MPKAEIQKKLQAWLERLEIVGKKTKKIKELSKGNQQKIQFISAV--IHEPELLILDEPFSGLD--------------PVN  165 (300)
T ss_pred             CcHHHHHHHHHHHHHhccccccccchHHHhhhhhhHHHHHHHHH--hcCCCEEEecCCccCCC--------------hhh
Confidence                                                   11111  157888888853 3333              244


Q ss_pred             HHHHHHHHHHHHHHHhccCcEEEEEcccchHhhhcC
Q 024705          229 SRIMTQALRKIHYSLCQSHTLIIFLNQVKVLLLKHF  264 (264)
Q Consensus       229 ~r~i~~~L~~l~~~l~~~g~tVi~i~h~~~~~~~~~  264 (264)
                      ++    .|++....+++.|+|||+.+|.++.++..|
T Consensus       166 ~e----lLk~~I~~lk~~GatIifSsH~Me~vEeLC  197 (300)
T COG4152         166 VE----LLKDAIFELKEEGATIIFSSHRMEHVEELC  197 (300)
T ss_pred             HH----HHHHHHHHHHhcCCEEEEecchHHHHHHHh
Confidence            44    344444444899999999999999999887

>cd03229 ABC_Class3 This class is comprised of all BPD (Binding Protein Dependent) systems that are largely represented in archaea and eubacteria and are primarily involved in scavenging solutes from the environment

Probab=99.24  E-value=7.7e-11  Score=96.44  Aligned_cols=130  Identities=15%  Similarity=0.189  Sum_probs=83.1

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCC----CHHHHHHcCCCccceeEeCCCCHHHHH----
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENAL----DPSLAEAMGIDAENLLIAQPDSAENLL----  187 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~----~~~~~~~~g~~~~~l~~~~~~~~ee~~----  187 (264)
                      -+++|+++.|.||||+|||||+..++....+..+.+.+...+...    ...+.+.+++.+++..+....++.+.+    
T Consensus        22 ~i~~G~~~~i~G~nGsGKSTLl~~l~G~~~~~~G~i~~~g~~~~~~~~~~~~~~~~i~~~~q~~~~~~~~t~~~~l~~~l  101 (178)
T cd03229          22 NIEAGEIVALLGPSGSGKSTLLRCIAGLEEPDSGSILIDGEDLTDLEDELPPLRRRIGMVFQDFALFPHLTVLENIALGL  101 (178)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhCCCCCCceEEEECCEEccccchhHHHHhhcEEEEecCCccCCCCCHHHheeecC
Confidence            377999999999999999999999887655555555543322211    123344566666665444444444332    


Q ss_pred             --------HHHHHHhhcCCccEEEEcCccccccccccCCCcCCCCcHHHHHHHHHHHHHHHHHHhccCcEEEEEcccchH
Q 024705          188 --------SVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVKVL  259 (264)
Q Consensus       188 --------~~i~~~~~~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r~i~~~L~~l~~~l~~~g~tVi~i~h~~~~  259 (264)
                              ..++.+.  .+++++++|....-..             ...+..+.+.++++.   ++.|.++|+++|....
T Consensus       102 S~G~~qr~~la~al~--~~p~llilDEP~~~LD-------------~~~~~~l~~~l~~~~---~~~~~tiii~sH~~~~  163 (178)
T cd03229         102 SGGQQQRVALARALA--MDPDVLLLDEPTSALD-------------PITRREVRALLKSLQ---AQLGITVVLVTHDLDE  163 (178)
T ss_pred             CHHHHHHHHHHHHHH--CCCCEEEEeCCcccCC-------------HHHHHHHHHHHHHHH---HhcCCEEEEEeCCHHH
Confidence                    1223332  5889999998776552             133444556666664   4458999999999888


Q ss_pred             hhhc
Q 024705          260 LLKH  263 (264)
Q Consensus       260 ~~~~  263 (264)
                      +++.
T Consensus       164 ~~~~  167 (178)
T cd03229         164 AARL  167 (178)
T ss_pred             HHHh
Confidence            7643

ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

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

Probab=99.23  E-value=1e-11  Score=102.49  Aligned_cols=127  Identities=15%  Similarity=0.157  Sum_probs=82.6

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCC--H--HHHHHcCCCccceeEeCCCCHHHHHH---
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALD--P--SLAEAMGIDAENLLIAQPDSAENLLS---  188 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~--~--~~~~~~g~~~~~l~~~~~~~~ee~~~---  188 (264)
                      -+.+|+++.|+||+|||||||++++-..-.. ..+-++++.+....  .  ...+.+|+..|++.+++..++-+++-   
T Consensus        24 ~v~~Gevv~iiGpSGSGKSTlLRclN~LE~~-~~G~I~i~g~~~~~~~~~~~~R~~vGmVFQ~fnLFPHlTvleNv~lap  102 (240)
T COG1126          24 SVEKGEVVVIIGPSGSGKSTLLRCLNGLEEP-DSGSITVDGEDVGDKKDILKLRRKVGMVFQQFNLFPHLTVLENVTLAP  102 (240)
T ss_pred             eEcCCCEEEEECCCCCCHHHHHHHHHCCcCC-CCceEEECCEeccchhhHHHHHHhcCeecccccccccchHHHHHHhhh
Confidence            4789999999999999999988877654433 44456676643322  1  45677999999988887665443321   


Q ss_pred             -------------HHHHHhh-----------------------------cCCccEEEEcCccccccccccCCCcCCCCcH
Q 024705          189 -------------VVDTLTK-----------------------------SGSIDVIVVDSVAALIPKCEIGVPINGMYSD  226 (264)
Q Consensus       189 -------------~i~~~~~-----------------------------~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~  226 (264)
                                   ....+++                             .-+|+++..|..+             +++++
T Consensus       103 ~~v~~~~k~eA~~~A~~lL~~VGL~~ka~~yP~qLSGGQqQRVAIARALaM~P~vmLFDEPT-------------SALDP  169 (240)
T COG1126         103 VKVKKLSKAEAREKALELLEKVGLADKADAYPAQLSGGQQQRVAIARALAMDPKVMLFDEPT-------------SALDP  169 (240)
T ss_pred             HHHcCCCHHHHHHHHHHHHHHcCchhhhhhCccccCcHHHHHHHHHHHHcCCCCEEeecCCc-------------ccCCH
Confidence                         1111100                             1234555555444             34444


Q ss_pred             HHHHHHHHHHHHHHHHHhccCcEEEEEcccchHh
Q 024705          227 AQSRIMTQALRKIHYSLCQSHTLIIFLNQVKVLL  260 (264)
Q Consensus       227 ~q~r~i~~~L~~l~~~l~~~g~tVi~i~h~~~~~  260 (264)
                      ..+.++...++.|    .+.|.|.+++||.....
T Consensus       170 Elv~EVL~vm~~L----A~eGmTMivVTHEM~FA  199 (240)
T COG1126         170 ELVGEVLDVMKDL----AEEGMTMIIVTHEMGFA  199 (240)
T ss_pred             HHHHHHHHHHHHH----HHcCCeEEEEechhHHH
Confidence            6666777777777    46799999999987543

>PRK04296 thymidine kinase; Provisional

Probab=99.22  E-value=1.4e-10  Score=95.95  Aligned_cols=113  Identities=16%  Similarity=0.240  Sum_probs=79.9

Q ss_pred             CcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEec--CCCCC-HHHHHHcCCCccceeEeCCCCHHHHHHHHHHHhhc
Q 024705          120 GRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDV--ENALD-PSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTKS  196 (264)
Q Consensus       120 G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~--e~~~~-~~~~~~~g~~~~~l~~~~~~~~ee~~~~i~~~~~~  196 (264)
                      |.+++++||+|+||||+++.++..+...|.+|+++..  +.... ..+..++|+......+   ...+++...+..  ..
T Consensus         2 g~i~litG~~GsGKTT~~l~~~~~~~~~g~~v~i~k~~~d~~~~~~~i~~~lg~~~~~~~~---~~~~~~~~~~~~--~~   76 (190)
T PRK04296          2 AKLEFIYGAMNSGKSTELLQRAYNYEERGMKVLVFKPAIDDRYGEGKVVSRIGLSREAIPV---SSDTDIFELIEE--EG   76 (190)
T ss_pred             cEEEEEECCCCCHHHHHHHHHHHHHHHcCCeEEEEeccccccccCCcEecCCCCcccceEe---CChHHHHHHHHh--hC
Confidence            7899999999999999999999999888999998843  33222 2355666765554322   345666666555  45


Q ss_pred             CCccEEEEcCccccccccccCCCcCCCCcHHHHHHHHHHHHHHHHHHhccCcEEEEEcccch
Q 024705          197 GSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVKV  258 (264)
Q Consensus       197 ~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r~i~~~L~~l~~~l~~~g~tVi~i~h~~~  258 (264)
                      .++++|+||+++.+..              .       .+.++.+.++..|++||++.+..+
T Consensus        77 ~~~dvviIDEaq~l~~--------------~-------~v~~l~~~l~~~g~~vi~tgl~~~  117 (190)
T PRK04296         77 EKIDCVLIDEAQFLDK--------------E-------QVVQLAEVLDDLGIPVICYGLDTD  117 (190)
T ss_pred             CCCCEEEEEccccCCH--------------H-------HHHHHHHHHHHcCCeEEEEecCcc
Confidence            6889999999965421              1       123344444788999999988744

>cd03230 ABC_DR_subfamily_A This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity

Probab=99.22  E-value=1.2e-10  Score=94.90  Aligned_cols=128  Identities=16%  Similarity=0.204  Sum_probs=83.2

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCC-HHHHHHcCCCccceeEeCCCCHHHHH-------
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALD-PSLAEAMGIDAENLLIAQPDSAENLL-------  187 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~-~~~~~~~g~~~~~l~~~~~~~~ee~~-------  187 (264)
                      -+++|+++.|.||||+|||||+..++....+..+.+.+...+.... ..+.+.+++.+++..+....++.+.+       
T Consensus        22 ~i~~Ge~~~i~G~nGsGKStLl~~l~G~~~~~~G~i~~~g~~~~~~~~~~~~~i~~~~q~~~~~~~~tv~~~~~LS~G~~  101 (173)
T cd03230          22 TVEKGEIYGLLGPNGAGKTTLIKIILGLLKPDSGEIKVLGKDIKKEPEEVKRRIGYLPEEPSLYENLTVRENLKLSGGMK  101 (173)
T ss_pred             EEcCCcEEEEECCCCCCHHHHHHHHhCCCCCCCeEEEECCEEcccchHhhhccEEEEecCCccccCCcHHHHhhcCHHHH
Confidence            3679999999999999999999988876655555554432221111 23344567777765555444444432       


Q ss_pred             ---HHHHHHhhcCCccEEEEcCccccccccccCCCcCCCCcHHHHHHHHHHHHHHHHHHhccCcEEEEEcccchHhhh
Q 024705          188 ---SVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVKVLLLK  262 (264)
Q Consensus       188 ---~~i~~~~~~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r~i~~~L~~l~~~l~~~g~tVi~i~h~~~~~~~  262 (264)
                         ...+.++  .+++++++|...+-..             ....+.+.+.++++.   ++ |.++|+++|....+..
T Consensus       102 qrv~laral~--~~p~illlDEPt~~LD-------------~~~~~~l~~~l~~~~---~~-g~tiii~th~~~~~~~  160 (173)
T cd03230         102 QRLALAQALL--HDPELLILDEPTSGLD-------------PESRREFWELLRELK---KE-GKTILLSSHILEEAER  160 (173)
T ss_pred             HHHHHHHHHH--cCCCEEEEeCCccCCC-------------HHHHHHHHHHHHHHH---HC-CCEEEEECCCHHHHHH
Confidence               2223332  5899999998876652             133444666666664   44 8999999999887654

In bacteria and archaea, these transporters usually include an ATP-binding protein and one or two integral membrane proteins. Eukaryote systems of the ABCA subfamily display ABC domains that are quite similar to this family. The ATP-binding domain shows the highest similarity between all members of the ABC transporter family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>TIGR01188 drrA daunorubicin resistance ABC transporter ATP-binding subunit

Probab=99.21  E-value=1.3e-10  Score=102.90  Aligned_cols=71  Identities=14%  Similarity=0.220  Sum_probs=46.8

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCH-HHHHHcCCCccceeEeCCCCHHHH
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP-SLAEAMGIDAENLLIAQPDSAENL  186 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~-~~~~~~g~~~~~l~~~~~~~~ee~  186 (264)
                      -+++|+++.|.||||+|||||+..++....+..|.+.+...+..... ...+.+|+.+++..++...++.+.
T Consensus        15 ~i~~Ge~~~l~G~NGaGKSTLl~~l~Gl~~p~~G~i~~~g~~~~~~~~~~~~~i~~~~q~~~~~~~~tv~e~   86 (302)
T TIGR01188        15 KVREGEVFGFLGPNGAGKTTTIRMLTTLLRPTSGTARVAGYDVVREPRKVRRSIGIVPQYASVDEDLTGREN   86 (302)
T ss_pred             EEcCCcEEEEECCCCCCHHHHHHHHhCCCCCCceEEEECCEEcccCHHHHHhhcEEecCCCCCCCCCcHHHH
Confidence            47899999999999999999998888766555666654433222222 334557777776554444444433

This model describes daunorubicin resistance ABC transporter, ATP binding subunit in bacteria and archaea. This model is restricted in its scope to preferentially recognize the ATP binding subunit associated with effux of the drug, daunorubicin. This transport system belong to the larger ATP-Binding Cassette (ABC) transporter superfamily. The characteristic feature of these transporter is the obligatory coupling of ATP hydrolysis to substrate translocation. The minimal configuration of bacterial ABC transport system: an ATPase or ATP binding subunit; An integral membrane protein; a hydrophilic polypetpide, which likely functions as substrate binding protein. In eukaryotes proteins of similar function include p-gyco proteins, multidrug resistance protein etc.

>cd03216 ABC_Carb_Monos_I This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos)

Probab=99.19  E-value=1.5e-10  Score=93.50  Aligned_cols=120  Identities=14%  Similarity=0.287  Sum_probs=76.8

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCC-CC-CH--HHHHHcCCCccceeEeCCCCHHH--HHHH
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVEN-AL-DP--SLAEAMGIDAENLLIAQPDSAEN--LLSV  189 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~-~~-~~--~~~~~~g~~~~~l~~~~~~~~ee--~~~~  189 (264)
                      -+++|+++.|.||||+|||||+..++....+..+.+. ++... .. ..  .+.+.+++.++       .+..+  .+..
T Consensus        22 ~i~~Ge~~~l~G~nGsGKSTLl~~i~G~~~~~~G~v~-~~g~~~~~~~~~~~~~~~i~~~~q-------LS~G~~qrl~l   93 (163)
T cd03216          22 SVRRGEVHALLGENGAGKSTLMKILSGLYKPDSGEIL-VDGKEVSFASPRDARRAGIAMVYQ-------LSVGERQMVEI   93 (163)
T ss_pred             EEeCCCEEEEECCCCCCHHHHHHHHhCCCCCCCeEEE-ECCEECCcCCHHHHHhcCeEEEEe-------cCHHHHHHHHH
Confidence            3789999999999999999999988877655566654 44322 11 11  12223444332       34333  2333


Q ss_pred             HHHHhhcCCccEEEEcCccccccccccCCCcCCCCcHHHHHHHHHHHHHHHHHHhccCcEEEEEcccchHhhh
Q 024705          190 VDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVKVLLLK  262 (264)
Q Consensus       190 i~~~~~~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r~i~~~L~~l~~~l~~~g~tVi~i~h~~~~~~~  262 (264)
                      .+.++  .+++++++|+...-..             ....+.+.+.++++.    +.+.|+|+++|....+..
T Consensus        94 aral~--~~p~illlDEP~~~LD-------------~~~~~~l~~~l~~~~----~~~~tiii~sh~~~~~~~  147 (163)
T cd03216          94 ARALA--RNARLLILDEPTAALT-------------PAEVERLFKVIRRLR----AQGVAVIFISHRLDEVFE  147 (163)
T ss_pred             HHHHh--cCCCEEEEECCCcCCC-------------HHHHHHHHHHHHHHH----HCCCEEEEEeCCHHHHHH
Confidence            44443  5899999998776552             134444556666653    448999999999887654

The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses (such as xylose, arabinose, and ribose), that cannot be broken down to simple sugars by hydrolysis. Pentoses include xylose, arabinose, and ribose. Important hexoses include glucose, galactose, and fructose. In members of the Carb_monos family, the single hydrophobic gene product forms a homodimer while the ABC protein represents a fusion of two nucleotide-binding domains. However, it is assumed that two copies of the ABC domains are present in the assembled transporter.

>PRK13536 nodulation factor exporter subunit NodI; Provisional

Probab=99.19  E-value=1.3e-10  Score=104.52  Aligned_cols=131  Identities=12%  Similarity=0.133  Sum_probs=79.6

Q ss_pred             CCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCC-HHHHHHcCCCccceeEeCCCCHHHHHHHHHHH--
Q 024705          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALD-PSLAEAMGIDAENLLIAQPDSAENLLSVVDTL--  193 (264)
Q Consensus       117 l~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~-~~~~~~~g~~~~~l~~~~~~~~ee~~~~i~~~--  193 (264)
                      +++|+++.|.||||+|||||+..++....+..|.+.+...+.... ....+.+|+.+++..++...++.+.+......  
T Consensus        64 i~~Gei~gLlGpNGaGKSTLl~~L~Gl~~p~~G~i~i~G~~~~~~~~~~~~~ig~v~q~~~~~~~~tv~e~l~~~~~~~~  143 (340)
T PRK13536         64 VASGECFGLLGPNGAGKSTIARMILGMTSPDAGKITVLGVPVPARARLARARIGVVPQFDNLDLEFTVRENLLVFGRYFG  143 (340)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHHcCCCCCceEEEECCEECCcchHHHhccEEEEeCCccCCCCCcHHHHHHHHHHHcC
Confidence            789999999999999999999988887666666655544332211 13344577776665544444444333221110  


Q ss_pred             -------------h-----------------------------hcCCccEEEEcCccccccccccCCCcCCCCcHHHHHH
Q 024705          194 -------------T-----------------------------KSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRI  231 (264)
Q Consensus       194 -------------~-----------------------------~~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r~  231 (264)
                                   .                             -..+|+++++|..+.-+             +...++.
T Consensus       144 ~~~~~~~~~~~~ll~~~~L~~~~~~~~~~LS~G~kqrv~lA~aL~~~P~lLiLDEPt~gL-------------D~~~r~~  210 (340)
T PRK13536        144 MSTREIEAVIPSLLEFARLESKADARVSDLSGGMKRRLTLARALINDPQLLILDEPTTGL-------------DPHARHL  210 (340)
T ss_pred             CCHHHHHHHHHHHHHHcCCchhhCCChhhCCHHHHHHHHHHHHHhcCCCEEEEECCCCCC-------------CHHHHHH
Confidence                         0                             01345566666544333             1233344


Q ss_pred             HHHHHHHHHHHHhccCcEEEEEcccchHhhhcC
Q 024705          232 MTQALRKIHYSLCQSHTLIIFLNQVKVLLLKHF  264 (264)
Q Consensus       232 i~~~L~~l~~~l~~~g~tVi~i~h~~~~~~~~~  264 (264)
                      +.+.++++    ++.|.|||+++|..+.++..|
T Consensus       211 l~~~l~~l----~~~g~tilisSH~l~e~~~~~  239 (340)
T PRK13536        211 IWERLRSL----LARGKTILLTTHFMEEAERLC  239 (340)
T ss_pred             HHHHHHHH----HhCCCEEEEECCCHHHHHHhC
Confidence            55555555    345999999999999987755

>COG1118 CysA ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]

Probab=99.19  E-value=3.5e-11  Score=104.02  Aligned_cols=145  Identities=14%  Similarity=0.141  Sum_probs=81.5

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEec---CCCCCHHHHHHcCCCccceeEeCCCCHHHHHHHHHH
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDV---ENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDT  192 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~---e~~~~~~~~~~~g~~~~~l~~~~~~~~ee~~~~i~~  192 (264)
                      -++.|+++.+.|||||||||++..|+....+..+++.+-+.   +.+.-..+.+++|+..|+...+...++.+.+..-..
T Consensus        24 ~i~~Ge~vaLlGpSGaGKsTlLRiIAGLe~p~~G~I~~~~~~l~D~~~~~~~~R~VGfvFQ~YALF~HmtVa~NIAFGl~  103 (345)
T COG1118          24 DIKSGELVALLGPSGAGKSTLLRIIAGLETPDAGRIRLNGRVLFDVSNLAVRDRKVGFVFQHYALFPHMTVADNIAFGLK  103 (345)
T ss_pred             eecCCcEEEEECCCCCcHHHHHHHHhCcCCCCCceEEECCEeccchhccchhhcceeEEEechhhcccchHHhhhhhccc
Confidence            47899999999999999999888888776666665544332   222223567788988886655554443332221100


Q ss_pred             Hhhc------------CCccEEEEcCcccccc---------------------ccccCCCcCCCCcHHHHHHHHHHHHHH
Q 024705          193 LTKS------------GSIDVIVVDSVAALIP---------------------KCEIGVPINGMYSDAQSRIMTQALRKI  239 (264)
Q Consensus       193 ~~~~------------~~~~~vvIDsl~~~~~---------------------~~~~~~~~~~~~~~~q~r~i~~~L~~l  239 (264)
                      ..+.            .-.+++-++.+..-+|                     .--+-++|.+.++..-.+++.+.|+++
T Consensus       104 ~~~~~p~~~~~r~rv~elL~lvqL~~la~ryP~QLSGGQrQRVALARALA~eP~vLLLDEPf~ALDa~vr~~lr~wLr~~  183 (345)
T COG1118         104 VRKERPSEAEIRARVEELLRLVQLEGLADRYPAQLSGGQRQRVALARALAVEPKVLLLDEPFGALDAKVRKELRRWLRKL  183 (345)
T ss_pred             ccccCCChhhHHHHHHHHHHHhcccchhhcCchhcChHHHHHHHHHHHhhcCCCeEeecCCchhhhHHHHHHHHHHHHHH
Confidence            0000            0001111222222221                     000111233333334444566677777


Q ss_pred             HHHHhccCcEEEEEcccchHhhhc
Q 024705          240 HYSLCQSHTLIIFLNQVKVLLLKH  263 (264)
Q Consensus       240 ~~~l~~~g~tVi~i~h~~~~~~~~  263 (264)
                      .   .+.|+|++++||+-.+..+.
T Consensus       184 ~---~~~~~ttvfVTHD~eea~~l  204 (345)
T COG1118         184 H---DRLGVTTVFVTHDQEEALEL  204 (345)
T ss_pred             H---HhhCceEEEEeCCHHHHHhh
Confidence            6   67799999999998876553

>cd03259 ABC_Carb_Solutes_like ABC Carbohydrate and Solute Transporters-like subgroup

Probab=99.19  E-value=1.4e-10  Score=97.45  Aligned_cols=38  Identities=21%  Similarity=0.254  Sum_probs=30.8

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEE
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAY  153 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~  153 (264)
                      -+++|+++.|.||||+|||||+..++....+..+.+.|
T Consensus        22 ~i~~Ge~~~i~G~nGsGKSTLl~~l~G~~~p~~G~i~~   59 (213)
T cd03259          22 TVEPGEFLALLGPSGCGKTTLLRLIAGLERPDSGEILI   59 (213)
T ss_pred             EEcCCcEEEEECCCCCCHHHHHHHHhCCCCCCCeEEEE
Confidence            47899999999999999999998888766555555543

This family is comprised of proteins involved in the transport of apparently unrelated solutes and proteins specific for di- and oligosaccharides and polyols. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides and more complex organic molecules. The nucleotide-binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>COG1127 Ttg2A ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]

Probab=99.19  E-value=6.4e-11  Score=99.25  Aligned_cols=131  Identities=14%  Similarity=0.166  Sum_probs=85.2

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCC-H----HHHHHcCCCccceeEeCCCCHHHHH---
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALD-P----SLAEAMGIDAENLLIAQPDSAENLL---  187 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~-~----~~~~~~g~~~~~l~~~~~~~~ee~~---  187 (264)
                      -+++|+++.|.||+|+||||++..++....+..+.+.++..+...- .    ...+++|+..|.=.++...++.|++   
T Consensus        30 ~V~~Gei~~iiGgSGsGKStlLr~I~Gll~P~~GeI~i~G~~i~~ls~~~~~~ir~r~GvlFQ~gALFssltV~eNVafp  109 (263)
T COG1127          30 DVPRGEILAILGGSGSGKSTLLRLILGLLRPDKGEILIDGEDIPQLSEEELYEIRKRMGVLFQQGALFSSLTVFENVAFP  109 (263)
T ss_pred             eecCCcEEEEECCCCcCHHHHHHHHhccCCCCCCeEEEcCcchhccCHHHHHHHHhheeEEeeccccccccchhHhhhee
Confidence            4889999999999999999999999988887777776665543321 1    3466788877643333322221111   


Q ss_pred             -------------H--------------------------------HHHHHhhcCCccEEEEcCccccccccccCCCcCC
Q 024705          188 -------------S--------------------------------VVDTLTKSGSIDVIVVDSVAALIPKCEIGVPING  222 (264)
Q Consensus       188 -------------~--------------------------------~i~~~~~~~~~~~vvIDsl~~~~~~~~~~~~~~~  222 (264)
                                   +                                ..+.+  .-+|++++.|..++-.           
T Consensus       110 lre~~~lp~~~i~~lv~~KL~~VGL~~~~~~~~PsELSGGM~KRvaLARAi--aldPell~~DEPtsGL-----------  176 (263)
T COG1127         110 LREHTKLPESLIRELVLMKLELVGLRGAAADLYPSELSGGMRKRVALARAI--ALDPELLFLDEPTSGL-----------  176 (263)
T ss_pred             hHhhccCCHHHHHHHHHHHHHhcCCChhhhhhCchhhcchHHHHHHHHHHH--hcCCCEEEecCCCCCC-----------
Confidence                         0                                01111  1356777777655433           


Q ss_pred             CCcHHHHHHHHHHHHHHHHHHhccCcEEEEEcccchHhhhcC
Q 024705          223 MYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVKVLLLKHF  264 (264)
Q Consensus       223 ~~~~~q~r~i~~~L~~l~~~l~~~g~tVi~i~h~~~~~~~~~  264 (264)
                        +......+.+.++++.   +..|.|++++||....+.+.|
T Consensus       177 --DPI~a~~~~~LI~~L~---~~lg~T~i~VTHDl~s~~~i~  213 (263)
T COG1127         177 --DPISAGVIDELIRELN---DALGLTVIMVTHDLDSLLTIA  213 (263)
T ss_pred             --CcchHHHHHHHHHHHH---HhhCCEEEEEECChHHHHhhh
Confidence              2233445667777776   668999999999998876543

>COG0410 LivF ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]

Probab=99.17  E-value=6.4e-11  Score=98.74  Aligned_cols=144  Identities=18%  Similarity=0.193  Sum_probs=91.9

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCH--HHH-HHcCCCccceeEeCCCCHHHHHHHHHH
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP--SLA-EAMGIDAENLLIAQPDSAENLLSVVDT  192 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~--~~~-~~~g~~~~~l~~~~~~~~ee~~~~i~~  192 (264)
                      -+++|+++.+.|+||+||||++..++.......+.+.|-..+.+..+  .++ ..+++.++.-.++...+++|++..-..
T Consensus        25 ~v~~Geiv~llG~NGaGKTTlLkti~Gl~~~~~G~I~~~G~dit~~p~~~r~r~Gi~~VPegR~iF~~LTVeENL~~g~~  104 (237)
T COG0410          25 EVERGEIVALLGRNGAGKTTLLKTIMGLVRPRSGRIIFDGEDITGLPPHERARLGIAYVPEGRRIFPRLTVEENLLLGAY  104 (237)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhCCCCCCCeeEEECCeecCCCCHHHHHhCCeEeCcccccchhhCcHHHHHhhhhh
Confidence            36799999999999999999999999877766777777655554333  333 346678888888888899888876443


Q ss_pred             HhhcCCccEEEEcCcccccccc-ccCCCcCCCCcHHHHHH--------------------------HHHHHHHHHHHH-h
Q 024705          193 LTKSGSIDVIVVDSVAALIPKC-EIGVPINGMYSDAQSRI--------------------------MTQALRKIHYSL-C  244 (264)
Q Consensus       193 ~~~~~~~~~vvIDsl~~~~~~~-~~~~~~~~~~~~~q~r~--------------------------i~~~L~~l~~~l-~  244 (264)
                      .........-.+|.+-.++|+. +..+.....++|.+++.                          +.+.+.+..+.+ +
T Consensus       105 ~~~~~~~~~~~~e~v~~lFP~Lker~~~~aG~LSGGEQQMLAiaRALm~~PklLLLDEPs~GLaP~iv~~I~~~i~~l~~  184 (237)
T COG0410         105 ARRDKEAQERDLEEVYELFPRLKERRNQRAGTLSGGEQQMLAIARALMSRPKLLLLDEPSEGLAPKIVEEIFEAIKELRK  184 (237)
T ss_pred             cccccccccccHHHHHHHChhHHHHhcCcccCCChHHHHHHHHHHHHhcCCCEEEecCCccCcCHHHHHHHHHHHHHHHH
Confidence            3222122222267777777642 33344444455444442                          112222222233 4


Q ss_pred             ccCcEEEEEcccchH
Q 024705          245 QSHTLIIFLNQVKVL  259 (264)
Q Consensus       245 ~~g~tVi~i~h~~~~  259 (264)
                      +.|+||+++-|....
T Consensus       185 ~~g~tIlLVEQn~~~  199 (237)
T COG0410         185 EGGMTILLVEQNARF  199 (237)
T ss_pred             cCCcEEEEEeccHHH
Confidence            668999999997654

>cd03301 ABC_MalK_N The N-terminal ATPase domain of the maltose transporter, MalK

Probab=99.17  E-value=1.6e-10  Score=97.06  Aligned_cols=38  Identities=21%  Similarity=0.271  Sum_probs=31.1

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEE
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAY  153 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~  153 (264)
                      -+++|+++.|.||||+|||||+..++....+.++.+.|
T Consensus        22 ~i~~Ge~~~l~G~nGsGKSTLl~~l~G~~~~~~G~v~~   59 (213)
T cd03301          22 DIADGEFVVLLGPSGCGKTTTLRMIAGLEEPTSGRIYI   59 (213)
T ss_pred             EEcCCcEEEEECCCCCCHHHHHHHHhCCCCCCceEEEE
Confidence            37899999999999999999998888866555555544

ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two transmembrane-spanning domains (TMDs) or subunits and two nucleotide binding domains (NBDs) or subunits that couple transport to the hydrolysis of ATP. In the maltose transport system, the periplasmic maltose binding protein (MBP) stimulates the ATPase activity of the membrane-associated transporter, which consists of two transmembrane subunits, MalF and MalG, and two copies of the ATP binding subunit, MalK, and becomes tightly bound to the transporter in the catalytic transition state, ensuring that maltose is passed to the transporter as ATP is hydrolyzed.

>cd03261 ABC_Org_Solvent_Resistant ABC (ATP-binding cassette) transport system involved in resistant to organic solvents; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules

Probab=99.16  E-value=3.1e-10  Score=96.86  Aligned_cols=68  Identities=19%  Similarity=0.178  Sum_probs=42.6

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCC-C----HHHHHHcCCCccceeEeCCCCH
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENAL-D----PSLAEAMGIDAENLLIAQPDSA  183 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~-~----~~~~~~~g~~~~~l~~~~~~~~  183 (264)
                      -+++|+++.|.||||+|||||+..++....+..+.+.+...+... .    ..+.+.+++.+++..++...++
T Consensus        22 ~i~~Ge~~~l~G~nGsGKSTLl~~l~G~~~p~~G~i~~~g~~~~~~~~~~~~~~~~~i~~v~q~~~~~~~~tv   94 (235)
T cd03261          22 DVRRGEILAIIGPSGSGKSTLLRLIVGLLRPDSGEVLIDGEDISGLSEAELYRLRRRMGMLFQSGALFDSLTV   94 (235)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhCCCCCCceEEEECCEEccccChhhHHHHhcceEEEccCcccCCCCcH
Confidence            378999999999999999999998887665555555443322111 1    1223446666665444333333

The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>cd03265 ABC_DrrA DrrA is the ATP-binding protein component of a bacterial exporter complex that confers resistance to the antibiotics daunorubicin and doxorubicin

Probab=99.16  E-value=4e-10  Score=95.17  Aligned_cols=62  Identities=18%  Similarity=0.273  Sum_probs=39.6

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCC-HHHHHHcCCCccceeE
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALD-PSLAEAMGIDAENLLI  177 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~-~~~~~~~g~~~~~l~~  177 (264)
                      -+.+|+++.|.||||+|||||+..++....+..+.+.+...+.... ....+.+++.+++..+
T Consensus        22 ~i~~Ge~~~i~G~nGsGKSTLl~~i~G~~~~~~G~i~~~g~~~~~~~~~~~~~i~~~~q~~~~   84 (220)
T cd03265          22 RVRRGEIFGLLGPNGAGKTTTIKMLTTLLKPTSGRATVAGHDVVREPREVRRRIGIVFQDLSV   84 (220)
T ss_pred             EECCCCEEEEECCCCCCHHHHHHHHhCCCCCCceEEEECCEecCcChHHHhhcEEEecCCccc
Confidence            4779999999999999999999988876555555554432221111 1233446665555433

In addition to DrrA, the complex includes an integral membrane protein called DrrB. DrrA belongs to the ABC family of transporters and shares sequence and functional similarities with a protein found in cancer cells called P-glycoprotein. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region in addition to the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>cd03222 ABC_RNaseL_inhibitor The ABC ATPase RNase L inhibitor (RLI) is a key enzyme in ribosomal biogenesis, formation of translation preinitiation complexes, and assembly of HIV capsids

Probab=99.16  E-value=2.9e-10  Score=92.99  Aligned_cols=116  Identities=14%  Similarity=0.148  Sum_probs=74.8

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCHHHHHHcCCCccceeEeCCCCHH--HHHHHHHHH
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAE--NLLSVVDTL  193 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~~~~~~~g~~~~~l~~~~~~~~e--e~~~~i~~~  193 (264)
                      -+++|+++.|.||||+|||||+..++....+.++.+.+-..          .+++.++...    .+.-  +.+...+.+
T Consensus        21 ~i~~Ge~~~l~G~nGsGKSTLl~~l~Gl~~p~~G~i~~~g~----------~i~~~~q~~~----LSgGq~qrv~laral   86 (177)
T cd03222          21 VVKEGEVIGIVGPNGTGKTTAVKILAGQLIPNGDNDEWDGI----------TPVYKPQYID----LSGGELQRVAIAAAL   86 (177)
T ss_pred             EECCCCEEEEECCCCChHHHHHHHHHcCCCCCCcEEEECCE----------EEEEEcccCC----CCHHHHHHHHHHHHH
Confidence            37899999999999999999998888766665666554221          1233232211    3332  233344444


Q ss_pred             hhcCCccEEEEcCccccccccccCCCcCCCCcHHHHHHHHHHHHHHHHHHhccCcEEEEEcccchHhhhc
Q 024705          194 TKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVKVLLLKH  263 (264)
Q Consensus       194 ~~~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r~i~~~L~~l~~~l~~~g~tVi~i~h~~~~~~~~  263 (264)
                      +  .+++++++|+...-...             ...+.+...+.++.   ++.+.+||+++|....+...
T Consensus        87 ~--~~p~lllLDEPts~LD~-------------~~~~~l~~~l~~~~---~~~~~tiiivsH~~~~~~~~  138 (177)
T cd03222          87 L--RNATFYLFDEPSAYLDI-------------EQRLNAARAIRRLS---EEGKKTALVVEHDLAVLDYL  138 (177)
T ss_pred             h--cCCCEEEEECCcccCCH-------------HHHHHHHHHHHHHH---HcCCCEEEEEECCHHHHHHh
Confidence            3  47899999987765521             33344555666554   44458999999998877643

RLI's are not transport proteins, and thus cluster with a group of soluble proteins that lack the transmembrane components commonly found in other members of the family. Structurally, RLI's have an N-terminal Fe-S domain and two nucleotide-binding domains, which are arranged to form two composite active sites in their interface cleft. RLI is one of the most conserved enzymes between archaea and eukaryotes with a sequence identity more than 48%. The high degree of evolutionary conservation suggests that RLI performs a central role in archaeal and eukaryotic physiology.

>cd03298 ABC_ThiQ_thiamine_transporter ABC-type thiamine tranport system; part of the binding-protein-dependent transport system tbpA-thiPQ for thiamine and TPP

Probab=99.15  E-value=2.7e-10  Score=95.56  Aligned_cols=37  Identities=27%  Similarity=0.326  Sum_probs=30.1

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEE
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCA  152 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~  152 (264)
                      -+.+|+++.|.||||+|||||+..++....+..+.+.
T Consensus        20 ~i~~Ge~~~l~G~nGsGKSTLl~~l~gl~~~~~G~i~   56 (211)
T cd03298          20 TFAQGEITAIVGPSGSGKSTLLNLIAGFETPQSGRVL   56 (211)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhCCCCCCCceEE
Confidence            4789999999999999999999888776655555543

Probably responsible for the translocation of thiamine across the membrane. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PRK11650 ugpC glycerol-3-phosphate transporter ATP-binding subunit; Provisional

Probab=99.15  E-value=2.1e-10  Score=103.83  Aligned_cols=71  Identities=14%  Similarity=0.149  Sum_probs=46.6

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCC-CCHHHHHHcCCCccceeEeCCCCHHHHH
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENA-LDPSLAEAMGIDAENLLIAQPDSAENLL  187 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~-~~~~~~~~~g~~~~~l~~~~~~~~ee~~  187 (264)
                      -+++|+++.|.||||||||||+..++....+..+.+ +++.+.. ......+.+|+.+|+..++...++.+.+
T Consensus        26 ~i~~Ge~~~llG~sGsGKSTLLr~iaGl~~p~~G~I-~~~g~~i~~~~~~~r~ig~v~Q~~~lfp~~tv~eNi   97 (356)
T PRK11650         26 DVADGEFIVLVGPSGCGKSTLLRMVAGLERITSGEI-WIGGRVVNELEPADRDIAMVFQNYALYPHMSVRENM   97 (356)
T ss_pred             EEcCCCEEEEECCCCCcHHHHHHHHHCCCCCCceEE-EECCEECCCCCHHHCCEEEEeCCccccCCCCHHHHH
Confidence            377999999999999999998888887665555554 4443322 1112235577777766655554544433

>cd03246 ABCC_Protease_Secretion This family represents the ABC component of the protease secretion system PrtD, a 60-kDa integral membrane protein sharing 37% identity with HlyB, the ABC component of the alpha-hemolysin secretion pathway, in the C-terminal domain

Probab=99.15  E-value=4.9e-10  Score=91.24  Aligned_cols=125  Identities=20%  Similarity=0.252  Sum_probs=81.0

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCC--C-HHHHHHcCCCccceeEeCCCCHHHH------
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENAL--D-PSLAEAMGIDAENLLIAQPDSAENL------  186 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~--~-~~~~~~~g~~~~~l~~~~~~~~ee~------  186 (264)
                      -+++|+++.|.||||+|||||+..++....+..+.+.+ +.+...  . ..+.+.+++.+++..++.. ++.+.      
T Consensus        24 ~i~~Ge~~~i~G~nGsGKStLl~~l~G~~~~~~G~i~~-~g~~~~~~~~~~~~~~i~~~~q~~~~~~~-tv~~~lLS~G~  101 (173)
T cd03246          24 SIEPGESLAIIGPSGSGKSTLARLILGLLRPTSGRVRL-DGADISQWDPNELGDHVGYLPQDDELFSG-SIAENILSGGQ  101 (173)
T ss_pred             EECCCCEEEEECCCCCCHHHHHHHHHhccCCCCCeEEE-CCEEcccCCHHHHHhheEEECCCCccccC-cHHHHCcCHHH
Confidence            36799999999999999999999888876655665544 332211  1 1334557777776554432 44432      


Q ss_pred             ---HHHHHHHhhcCCccEEEEcCccccccccccCCCcCCCCcHHHHHHHHHHHHHHHHHHhccCcEEEEEcccchHhh
Q 024705          187 ---LSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVKVLLL  261 (264)
Q Consensus       187 ---~~~i~~~~~~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r~i~~~L~~l~~~l~~~g~tVi~i~h~~~~~~  261 (264)
                         +...+.++  .+++++++|....-...             ...+.+.+.++++    ++.|.++|+++|..+.++
T Consensus       102 ~qrv~la~al~--~~p~~lllDEPt~~LD~-------------~~~~~l~~~l~~~----~~~~~tii~~sh~~~~~~  160 (173)
T cd03246         102 RQRLGLARALY--GNPRILVLDEPNSHLDV-------------EGERALNQAIAAL----KAAGATRIVIAHRPETLA  160 (173)
T ss_pred             HHHHHHHHHHh--cCCCEEEEECCccccCH-------------HHHHHHHHHHHHH----HhCCCEEEEEeCCHHHHH
Confidence               22233333  58899999987766521             3334455566655    345899999999887653

They export degradative enzymes by using a type I protein secretion system and lack an N-terminal signal peptide, but contain a C-terminal secretion signal. The Type I secretion apparatus is made up of three components, an ABC transporter, a membrane fusion protein (MFP), and an outer membrane protein (OMP). For the HlyA transporter complex, HlyB (ABC transporter) and HlyD (MFP) reside in the inner membrane of E. coli. The OMP component is TolC, which is thought to interact with the MFP to form a continuous channel across the periplasm from the cytoplasm to the exterior. HlyB belongs to the family of ABC transporters, which are ubiquitous, ATP-dependent transmembrane pumps or channels. The spectrum of transport substra

>COG1135 AbcC ABC-type metal ion transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=99.15  E-value=4.5e-11  Score=103.53  Aligned_cols=142  Identities=15%  Similarity=0.186  Sum_probs=91.1

Q ss_pred             cHHHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCC---CH--HHHHHcCCCccceeEeC
Q 024705          105 SLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENAL---DP--SLAEAMGIDAENLLIAQ  179 (264)
Q Consensus       105 ~~~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~---~~--~~~~~~g~~~~~l~~~~  179 (264)
                      +..||..-=  -+++|+++.|.|++|+|||||.+.+-..-.+..+++.+...+-..   ..  ...+.+|+-+|++.+..
T Consensus        19 ~~al~~vsL--~I~~GeI~GIIG~SGAGKSTLiR~iN~Le~PtsG~v~v~G~di~~l~~~~Lr~~R~~IGMIFQhFnLLs   96 (339)
T COG1135          19 VTALDDVSL--EIPKGEIFGIIGYSGAGKSTLLRLINLLERPTSGSVFVDGQDLTALSEAELRQLRQKIGMIFQHFNLLS   96 (339)
T ss_pred             eeeeccceE--EEcCCcEEEEEcCCCCcHHHHHHHHhccCCCCCceEEEcCEecccCChHHHHHHHhhccEEeccccccc
Confidence            455665532  589999999999999999997776544434455666554433221   11  34667899988877665


Q ss_pred             CCCHHHHH---------------HHHHHHh-----------------------------hcCCccEEEEcCccccccccc
Q 024705          180 PDSAENLL---------------SVVDTLT-----------------------------KSGSIDVIVVDSVAALIPKCE  215 (264)
Q Consensus       180 ~~~~ee~~---------------~~i~~~~-----------------------------~~~~~~~vvIDsl~~~~~~~~  215 (264)
                      ..++.+.+               ..+..++                             -..+|+++..|..++-.    
T Consensus        97 srTV~~NvA~PLeiag~~k~ei~~RV~elLelVgL~dk~~~yP~qLSGGQKQRVaIARALa~~P~iLL~DEaTSAL----  172 (339)
T COG1135          97 SRTVFENVAFPLELAGVPKAEIKQRVAELLELVGLSDKADRYPAQLSGGQKQRVAIARALANNPKILLCDEATSAL----  172 (339)
T ss_pred             cchHHhhhhhhHhhcCCCHHHHHHHHHHHHHHcCChhhhccCchhcCcchhhHHHHHHHHhcCCCEEEecCccccC----
Confidence            44433222               1111110                             01356677777665544    


Q ss_pred             cCCCcCCCCcHHHHHHHHHHHHHHHHHHhccCcEEEEEcccchHhhhcC
Q 024705          216 IGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVKVLLLKHF  264 (264)
Q Consensus       216 ~~~~~~~~~~~~q~r~i~~~L~~l~~~l~~~g~tVi~i~h~~~~~~~~~  264 (264)
                               ++.-.+.+...|+++.   ++.|.||++|||.++-+.+.|
T Consensus       173 ---------DP~TT~sIL~LL~~In---~~lglTIvlITHEm~Vvk~ic  209 (339)
T COG1135         173 ---------DPETTQSILELLKDIN---RELGLTIVLITHEMEVVKRIC  209 (339)
T ss_pred             ---------ChHHHHHHHHHHHHHH---HHcCCEEEEEechHHHHHHHh
Confidence                     2344455777888887   889999999999999888766

>TIGR03265 PhnT2 putative 2-aminoethylphosphonate ABC transporter, ATP-binding protein

Probab=99.15  E-value=2.6e-10  Score=103.13  Aligned_cols=71  Identities=18%  Similarity=0.212  Sum_probs=47.8

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCC-HHHHHHcCCCccceeEeCCCCHHHHH
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALD-PSLAEAMGIDAENLLIAQPDSAENLL  187 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~-~~~~~~~g~~~~~l~~~~~~~~ee~~  187 (264)
                      -+++|+++.|.||||||||||+..++....+..+.+. ++.+.... ....+.+|+.+|+..+++..++.+.+
T Consensus        26 ~i~~Ge~~~l~GpsGsGKSTLLr~iaGl~~p~~G~I~-i~g~~~~~~~~~~r~ig~v~Q~~~lfp~~tv~eNi   97 (353)
T TIGR03265        26 SVKKGEFVCLLGPSGCGKTTLLRIIAGLERQTAGTIY-QGGRDITRLPPQKRDYGIVFQSYALFPNLTVADNI   97 (353)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHHCCCCCCceEEE-ECCEECCCCCHHHCCEEEEeCCcccCCCCcHHHHH
Confidence            3678999999999999999998888886655555554 44332211 12344577777776666555555444

This ABC transporter ATP-binding protein is found in a number of genomes in operon-like contexts strongly suggesting a substrate specificity for 2-aminoethylphosphonate (2-AEP). The characterized PhnSTUV system is absent in the genomes in which this system is found. These genomes encode systems for the catabolism of 2-AEP, making the need for a 2-AEP-specific transporter likely.

>COG3845 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]

Probab=99.14  E-value=2.7e-10  Score=104.09  Aligned_cols=139  Identities=17%  Similarity=0.269  Sum_probs=89.8

Q ss_pred             CcHHHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCC-H--HHHHHcCCCccceeEeCC
Q 024705          104 GSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALD-P--SLAEAMGIDAENLLIAQP  180 (264)
Q Consensus       104 G~~~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~-~--~~~~~~g~~~~~l~~~~~  180 (264)
                      |+...|..-=  .+++|+++.|.|+||+|||||+..+.....+..+.+.+-..+-... +  ..+..+|+..|.+.+++.
T Consensus        16 ~~~And~V~l--~v~~GeIHaLLGENGAGKSTLm~iL~G~~~P~~GeI~v~G~~v~~~sP~dA~~~GIGMVhQHF~Lv~~   93 (501)
T COG3845          16 GVVANDDVSL--SVKKGEIHALLGENGAGKSTLMKILFGLYQPDSGEIRVDGKEVRIKSPRDAIRLGIGMVHQHFMLVPT   93 (501)
T ss_pred             CEEecCceee--eecCCcEEEEeccCCCCHHHHHHHHhCcccCCcceEEECCEEeccCCHHHHHHcCCcEEeeccccccc
Confidence            6666776643  6899999999999999999988888777766655544333332222 2  233334555554433332


Q ss_pred             CCH-------------------------------------------------HHHHHHHHHHhhcCCccEEEEcCccccc
Q 024705          181 DSA-------------------------------------------------ENLLSVVDTLTKSGSIDVIVVDSVAALI  211 (264)
Q Consensus       181 ~~~-------------------------------------------------ee~~~~i~~~~~~~~~~~vvIDsl~~~~  211 (264)
                      .++                                                 .+-+++++.+.  .+++++++|..++.+
T Consensus        94 lTV~ENiiLg~e~~~~~~~~~~~~~~~i~~l~~~yGl~vdp~~~V~dLsVG~qQRVEIlKaLy--r~a~iLILDEPTaVL  171 (501)
T COG3845          94 LTVAENIILGLEPSKGGLIDRRQARARIKELSERYGLPVDPDAKVADLSVGEQQRVEILKALY--RGARLLILDEPTAVL  171 (501)
T ss_pred             cchhhhhhhcCccccccccCHHHHHHHHHHHHHHhCCCCCccceeecCCcchhHHHHHHHHHh--cCCCEEEEcCCcccC
Confidence            221                                                 22334444443  578999999998888


Q ss_pred             cccccCCCcCCCCcHHHHHHHHHHHHHHHHHHhccCcEEEEEcccchHhhhc
Q 024705          212 PKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVKVLLLKH  263 (264)
Q Consensus       212 ~~~~~~~~~~~~~~~~q~r~i~~~L~~l~~~l~~~g~tVi~i~h~~~~~~~~  263 (264)
                      +.             .....+...++.+    ++.|++||+|||-.+++-..
T Consensus       172 TP-------------~E~~~lf~~l~~l----~~~G~tIi~ITHKL~Ev~~i  206 (501)
T COG3845         172 TP-------------QEADELFEILRRL----AAEGKTIIFITHKLKEVMAI  206 (501)
T ss_pred             CH-------------HHHHHHHHHHHHH----HHCCCEEEEEeccHHHHHHh
Confidence            53             4445455555555    78899999999988776543

>cd03266 ABC_NatA_sodium_exporter NatA is the ATPase component of a bacterial ABC-type Na+ transport system called NatAB, which catalyzes ATP-dependent electrogenic Na+ extrusion without mechanically coupled proton or K+ uptake

Probab=99.14  E-value=5e-10  Score=94.36  Aligned_cols=64  Identities=13%  Similarity=0.198  Sum_probs=42.1

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCC-HHHHHHcCCCccceeEeC
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALD-PSLAEAMGIDAENLLIAQ  179 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~-~~~~~~~g~~~~~l~~~~  179 (264)
                      -+++|+++.|.|+||+|||||+..++....+..+.+.+.+.+.... ..+.+.+++.+++..++.
T Consensus        27 ~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~~~~G~i~~~g~~~~~~~~~~~~~i~~~~q~~~~~~   91 (218)
T cd03266          27 TVKPGEVTGLLGPNGAGKTTTLRMLAGLLEPDAGFATVDGFDVVKEPAEARRRLGFVSDSTGLYD   91 (218)
T ss_pred             EEcCCcEEEEECCCCCCHHHHHHHHhCCcCCCCceEEECCEEcccCHHHHHhhEEEecCCcccCc
Confidence            4779999999999999999999888876655566655433222111 123445666666544433

NatB possess six putative membrane spanning regions at its C-terminus. In B. subtilus, NatAB is inducible by agents such as ethanol and protonophores, which lower the protonmotive force across the membrane. The closest sequence similarity to NatA is exhibited by DrrA of the two-component daunomycin- and doxorubicin-efflux system. Hence, the functional NatAB is presumably assembled with two copies of a single ATP-binding protein and a single intergral membrane protein.

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

Probab=99.14  E-value=7.7e-11  Score=104.69  Aligned_cols=72  Identities=14%  Similarity=0.130  Sum_probs=53.0

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCHHHHHHcCCCccceeEeCCCCHHHHH
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLL  187 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~~~~~~~g~~~~~l~~~~~~~~ee~~  187 (264)
                      -++.|+++.|.|||||||||++..+|.-....+|.+.+-+.+.+.-+...+.+++.+|+..+++..++.+.+
T Consensus        25 ~i~~Gef~vllGPSGcGKSTlLr~IAGLe~~~~G~I~i~g~~vt~l~P~~R~iamVFQ~yALyPhmtV~~Ni   96 (338)
T COG3839          25 DIEDGEFVVLLGPSGCGKSTLLRMIAGLEEPTSGEILIDGRDVTDLPPEKRGIAMVFQNYALYPHMTVYENI   96 (338)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhCCCCCCCceEEECCEECCCCChhHCCEEEEeCCccccCCCcHHHHh
Confidence            377999999999999999998888887666666655544444433345567788888888888877665544

>cd03228 ABCC_MRP_Like The MRP (Mutidrug Resistance Protein)-like transporters are involved in drug, peptide, and lipid export

Probab=99.14  E-value=4.3e-10  Score=91.39  Aligned_cols=125  Identities=16%  Similarity=0.266  Sum_probs=79.7

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCC--C-HHHHHHcCCCccceeEeCCCCHHHH------
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENAL--D-PSLAEAMGIDAENLLIAQPDSAENL------  186 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~--~-~~~~~~~g~~~~~l~~~~~~~~ee~------  186 (264)
                      -+++|+++.|.||||+|||||+..++....+..+.+. ++.+...  . ..+.+.+++.+++..+.+ .++.+.      
T Consensus        24 ~i~~G~~~~l~G~nGsGKstLl~~i~G~~~~~~G~i~-~~g~~~~~~~~~~~~~~i~~~~~~~~~~~-~t~~e~lLS~G~  101 (171)
T cd03228          24 TIKPGEKVAIVGPSGSGKSTLLKLLLRLYDPTSGEIL-IDGVDLRDLDLESLRKNIAYVPQDPFLFS-GTIRENILSGGQ  101 (171)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHHcCCCCCCCEEE-ECCEEhhhcCHHHHHhhEEEEcCCchhcc-chHHHHhhCHHH
Confidence            3789999999999999999999988887665566654 4433211  1 133455777666654443 344332      


Q ss_pred             ---HHHHHHHhhcCCccEEEEcCccccccccccCCCcCCCCcHHHHHHHHHHHHHHHHHHhccCcEEEEEcccchHhhh
Q 024705          187 ---LSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVKVLLLK  262 (264)
Q Consensus       187 ---~~~i~~~~~~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r~i~~~L~~l~~~l~~~g~tVi~i~h~~~~~~~  262 (264)
                         +...+.++  .+++++++|...+-...             .....+.+.++++    ++ +.++|+++|..+.++.
T Consensus       102 ~~rl~la~al~--~~p~llllDEP~~gLD~-------------~~~~~l~~~l~~~----~~-~~tii~~sh~~~~~~~  160 (171)
T cd03228         102 RQRIAIARALL--RDPPILILDEATSALDP-------------ETEALILEALRAL----AK-GKTVIVIAHRLSTIRD  160 (171)
T ss_pred             HHHHHHHHHHh--cCCCEEEEECCCcCCCH-------------HHHHHHHHHHHHh----cC-CCEEEEEecCHHHHHh
Confidence               22233332  58899999987765521             2233344555544    33 6999999999887754

They belong to the subfamily C of the ATP-binding cassette (ABC) superfamily of transport proteins. The ABCC subfamily contains transporters with a diverse functional spectrum that includes ion transport, cell surface receptor, and toxin secretion activities. The MRP-like family, simlar to all ABC proteins, have a common four-domain core structure constituted by two membrane-spanning domains, each composed of six transmembrane (TM) helices, and two nucleotide-binding domains (NBD). ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>cd03255 ABC_MJ0796_Lo1CDE_FtsE This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE)

Probab=99.14  E-value=3.7e-10  Score=95.16  Aligned_cols=38  Identities=29%  Similarity=0.313  Sum_probs=31.5

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEE
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAY  153 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~  153 (264)
                      -+++|+++.|.||||+|||||+..++....+..+.+.|
T Consensus        26 ~i~~G~~~~l~G~nGsGKSTLl~~i~Gl~~~~~G~i~~   63 (218)
T cd03255          26 SIEKGEFVAIVGPSGSGKSTLLNILGGLDRPTSGEVRV   63 (218)
T ss_pred             EEcCCCEEEEEcCCCCCHHHHHHHHhCCcCCCceeEEE
Confidence            47899999999999999999999988776555665544

They are clustered together phylogenetically. MacAB is an exporter that confers resistance to macrolides, while the LolCDE system is not a transporter at all. An FtsE null mutants showed filamentous growth and appeared viable on high salt medium only, indicating a role for FtsE in cell division and/or salt transport. The LolCDE complex catalyses the release of lipoproteins from the cytoplasmic membrane prior to their targeting to the outer membrane.

>cd03258 ABC_MetN_methionine_transporter MetN (also known as YusC) is an ABC-type transporter encoded by metN of the metNPQ operon in Bacillus subtilis that is involved in methionine transport

Probab=99.13  E-value=6e-10  Score=94.89  Aligned_cols=64  Identities=22%  Similarity=0.312  Sum_probs=41.8

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCC-C-H---HHHHHcCCCccceeEeC
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENAL-D-P---SLAEAMGIDAENLLIAQ  179 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~-~-~---~~~~~~g~~~~~l~~~~  179 (264)
                      -+++|+++.|.||||||||||+..++....+..+.+.+...+... . .   ...+.+++.+++..++.
T Consensus        27 ~i~~Ge~~~l~G~nGsGKSTLl~~l~G~~~~~~G~i~~~g~~~~~~~~~~~~~~~~~i~~~~q~~~~~~   95 (233)
T cd03258          27 SVPKGEIFGIIGRSGAGKSTLIRCINGLERPTSGSVLVDGTDLTLLSGKELRKARRRIGMIFQHFNLLS   95 (233)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhCCCCCCCceEEECCEEcccCCHHHHHHHHhheEEEccCcccCC
Confidence            478999999999999999999998887766556665443322111 1 1   12345666666544443

Other members of this system include the MetP permease and the MetQ substrate binding protein. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>cd03215 ABC_Carb_Monos_II This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos)

Probab=99.13  E-value=4.8e-10  Score=92.04  Aligned_cols=129  Identities=14%  Similarity=0.131  Sum_probs=81.9

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCC-C-H-HHHHHcCCCccce---eEeCCCCHHHHHHH
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENAL-D-P-SLAEAMGIDAENL---LIAQPDSAENLLSV  189 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~-~-~-~~~~~~g~~~~~l---~~~~~~~~ee~~~~  189 (264)
                      -+++|+++.|.||||+|||||+..++....+..+.+.+...+... . . .+.+.+++.+++.   .+....++.+.+..
T Consensus        22 ~i~~G~~~~i~G~nGsGKSTLl~~l~G~~~~~~G~i~~~g~~~~~~~~~~~~~~~i~~~~q~~~~~~~~~~~t~~e~l~~  101 (182)
T cd03215          22 EVRAGEIVGIAGLVGNGQTELAEALFGLRPPASGEITLDGKPVTRRSPRDAIRAGIAYVPEDRKREGLVLDLSVAENIAL  101 (182)
T ss_pred             EEcCCcEEEEECCCCCCHHHHHHHHhCCCCCCCceEEECCEECCccCHHHHHhCCeEEecCCcccCcccCCCcHHHHHHH
Confidence            478999999999999999999988888766556665443322211 1 1 2334567766653   23334455544322


Q ss_pred             --------------HHHHhhcCCccEEEEcCccccccccccCCCcCCCCcHHHHHHHHHHHHHHHHHHhccCcEEEEEcc
Q 024705          190 --------------VDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQ  255 (264)
Q Consensus       190 --------------i~~~~~~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r~i~~~L~~l~~~l~~~g~tVi~i~h  255 (264)
                                    .+.+  -.+++++++|...+-..             ....+.+.+.++++.    +.+.++|+++|
T Consensus       102 ~~~LS~G~~qrl~la~al--~~~p~llllDEP~~~LD-------------~~~~~~l~~~l~~~~----~~~~tiii~sh  162 (182)
T cd03215         102 SSLLSGGNQQKVVLARWL--ARDPRVLILDEPTRGVD-------------VGAKAEIYRLIRELA----DAGKAVLLISS  162 (182)
T ss_pred             HhhcCHHHHHHHHHHHHH--ccCCCEEEECCCCcCCC-------------HHHHHHHHHHHHHHH----HCCCEEEEEeC
Confidence                          1222  25889999998776552             133444556666553    34899999999


Q ss_pred             cchHhhhc
Q 024705          256 VKVLLLKH  263 (264)
Q Consensus       256 ~~~~~~~~  263 (264)
                      ..+.+.+.
T Consensus       163 ~~~~~~~~  170 (182)
T cd03215         163 ELDELLGL  170 (182)
T ss_pred             CHHHHHHh
Confidence            98877653

The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses (such as xylose, arabinose, and ribose), that cannot be broken down to simple sugars by hydrolysis. In members of Carb_Monos family the single hydrophobic gene product forms a homodimer, while the ABC protein represents a fusion of two nucleotide-binding domains. However, it is assumed that two copies of the ABC domains are present in the assembled transporter.

>cd03256 ABC_PhnC_transporter ABC-type phosphate/phosphonate transport system

Probab=99.13  E-value=5e-10  Score=95.79  Aligned_cols=38  Identities=21%  Similarity=0.300  Sum_probs=31.1

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEE
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAY  153 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~  153 (264)
                      -+++|+++.|.||||||||||+..++....+..+.+.+
T Consensus        23 ~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~~~~G~i~~   60 (241)
T cd03256          23 SINPGEFVALIGPSGAGKSTLLRCLNGLVEPTSGSVLI   60 (241)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhCCcCCCCceEEE
Confidence            47899999999999999999999888766555555544

Phosphonates are a class of organophosphorus compounds characterized by a chemically stable carbon-to-phosphorus (C-P) bond. Phosphonates are widespread among naturally occurring compounds in all kingdoms of wildlife, but only procaryotic microorganisms are able to cleave this bond. Certain bacteria such as E. coli can use alkylphosphonates as a phosphorus source. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>TIGR01288 nodI ATP-binding ABC transporter family nodulation protein NodI

Probab=99.13  E-value=4.4e-10  Score=99.67  Aligned_cols=70  Identities=14%  Similarity=0.141  Sum_probs=44.6

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCC-HHHHHHcCCCccceeEeCCCCHHH
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALD-PSLAEAMGIDAENLLIAQPDSAEN  185 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~-~~~~~~~g~~~~~l~~~~~~~~ee  185 (264)
                      -+++|+++.|.||||+|||||+..++....+..|.+.+...+.... ....+.+|+.+++..++...++.+
T Consensus        26 ~i~~Ge~~~l~G~NGaGKSTLl~~l~Gl~~p~~G~i~~~g~~~~~~~~~~~~~i~~v~q~~~~~~~~tv~e   96 (303)
T TIGR01288        26 TIARGECFGLLGPNGAGKSTIARMLLGMISPDRGKITVLGEPVPSRARLARVAIGVVPQFDNLDPEFTVRE   96 (303)
T ss_pred             EEcCCcEEEEECCCCCCHHHHHHHHhCCCCCCceEEEECCEECcccHHHHhhcEEEEeccccCCcCCcHHH
Confidence            4789999999999999999999888876655556555433222111 123445676666544443334433

This model does not recognize the highly divergent NodI from Azorhizobium caulinodans.

>PRK11000 maltose/maltodextrin transporter ATP-binding protein; Provisional

Probab=99.12  E-value=3.3e-10  Score=103.04  Aligned_cols=70  Identities=16%  Similarity=0.137  Sum_probs=43.2

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCHHHHHHcCCCccceeEeCCCCHHH
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAEN  185 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~~~~~~~g~~~~~l~~~~~~~~ee  185 (264)
                      -+++|+++.|.||||||||||+..++....+..+.+.|...+........+.+|+.+++..++...++.+
T Consensus        25 ~i~~Ge~~~l~G~nGsGKSTLL~~iaGl~~p~~G~I~~~g~~i~~~~~~~~~i~~v~Q~~~l~~~~tv~e   94 (369)
T PRK11000         25 DIHEGEFVVFVGPSGCGKSTLLRMIAGLEDITSGDLFIGEKRMNDVPPAERGVGMVFQSYALYPHLSVAE   94 (369)
T ss_pred             EEcCCCEEEEECCCCCcHHHHHHHHhCCCCCCceEEEECCEECCCCCHhHCCEEEEeCCcccCCCCCHHH
Confidence            3779999999999999999999888876555555554432222111112234666666554444444433

>PRK11432 fbpC ferric transporter ATP-binding subunit; Provisional

Probab=99.12  E-value=3.9e-10  Score=101.81  Aligned_cols=71  Identities=17%  Similarity=0.201  Sum_probs=46.4

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCC-CHHHHHHcCCCccceeEeCCCCHHHHH
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENAL-DPSLAEAMGIDAENLLIAQPDSAENLL  187 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~-~~~~~~~~g~~~~~l~~~~~~~~ee~~  187 (264)
                      -+++|+++.|.||||||||||+..++....+..+.+ +++..... .....+.+|+.+++..+++..++.+.+
T Consensus        28 ~i~~Ge~~~llGpsGsGKSTLLr~IaGl~~p~~G~I-~~~g~~i~~~~~~~r~ig~vfQ~~~lfp~~tv~eNi   99 (351)
T PRK11432         28 TIKQGTMVTLLGPSGCGKTTVLRLVAGLEKPTEGQI-FIDGEDVTHRSIQQRDICMVFQSYALFPHMSLGENV   99 (351)
T ss_pred             EEcCCCEEEEECCCCCcHHHHHHHHHCCCCCCceEE-EECCEECCCCCHHHCCEEEEeCCcccCCCCCHHHHH
Confidence            477999999999999999999888887665555554 44433221 122334577777766555554544433

>cd03293 ABC_NrtD_SsuB_transporters NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively

Probab=99.11  E-value=3.8e-10  Score=95.33  Aligned_cols=37  Identities=22%  Similarity=0.324  Sum_probs=29.9

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEE
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCA  152 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~  152 (264)
                      -+++|+++.|.||||+|||||+..++....+..+.+.
T Consensus        26 ~i~~G~~~~i~G~nGsGKSTLl~~l~Gl~~~~~G~i~   62 (220)
T cd03293          26 SVEEGEFVALVGPSGCGKSTLLRIIAGLERPTSGEVL   62 (220)
T ss_pred             EEeCCcEEEEECCCCCCHHHHHHHHhCCCCCCceEEE
Confidence            4779999999999999999999888876554455443

ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>TIGR03258 PhnT 2-aminoethylphosphonate ABC transport system, ATP-binding component PhnT

Probab=99.11  E-value=4.5e-10  Score=101.81  Aligned_cols=71  Identities=17%  Similarity=0.260  Sum_probs=47.0

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcC--CeEEEEecCCCC-CHHHHHHcCCCccceeEeCCCCHHHHH
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLG--GYCAYLDVENAL-DPSLAEAMGIDAENLLIAQPDSAENLL  187 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g--~~v~~~~~e~~~-~~~~~~~~g~~~~~l~~~~~~~~ee~~  187 (264)
                      -+++|+++.|.||||||||||+..++....+..  +.+ +++.+... .....+.+|+.+++..++...++.+.+
T Consensus        27 ~i~~Ge~~~llGpsGsGKSTLLr~iaGl~~p~~~~G~i-~~~g~~~~~~~~~~r~ig~vfQ~~~l~p~~tv~enl  100 (362)
T TIGR03258        27 EIEAGELLALIGKSGCGKTTLLRAIAGFVKAAGLTGRI-AIADRDLTHAPPHKRGLALLFQNYALFPHLKVEDNV  100 (362)
T ss_pred             EECCCCEEEEECCCCCCHHHHHHHHhCCCCCCCCCEEE-EECCEECCCCCHHHCCEEEEECCcccCCCCcHHHHH
Confidence            377999999999999999998888887655444  554 44433221 122345577777776666555555444

This ATP-binding component of an ABC transport system is found in Salmonella and Burkholderia lineages in the vicinity of enzymes for the breakdown of 2-aminoethylphosphonate.

>TIGR02315 ABC_phnC phosphonate ABC transporter, ATP-binding protein

Probab=99.11  E-value=7.3e-10  Score=94.93  Aligned_cols=38  Identities=24%  Similarity=0.344  Sum_probs=30.9

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEE
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAY  153 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~  153 (264)
                      -+++|+++.|.||||||||||+..++....+..+.+.+
T Consensus        24 ~i~~Ge~~~l~G~nGsGKSTLl~~l~Gl~~~~~G~i~~   61 (243)
T TIGR02315        24 NINPGEFVAIIGPSGAGKSTLLRCINRLVEPSSGSILL   61 (243)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhCCcCCCccEEEE
Confidence            37899999999999999999998888765555565544

Phosphonates are a class of phosphorus-containing organic compound with a stable direct C-P bond rather than a C-O-P linkage. A number of bacterial species have operons, typically about 14 genes in size, with genes for ATP-dependent transport of phosphonates, degradation, and regulation of the expression of the system. Members of this protein family are the ATP-binding cassette component of tripartite ABC transporters of phosphonates.

>PRK09452 potA putrescine/spermidine ABC transporter ATPase protein; Reviewed

Probab=99.11  E-value=4.7e-10  Score=102.10  Aligned_cols=69  Identities=14%  Similarity=0.149  Sum_probs=44.9

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCC-CHHHHHHcCCCccceeEeCCCCHHH
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENAL-DPSLAEAMGIDAENLLIAQPDSAEN  185 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~-~~~~~~~~g~~~~~l~~~~~~~~ee  185 (264)
                      -+++|+++.|.||||||||||+..++....+..+.+ +++.+... .....+.+|+.+++..++...++.+
T Consensus        36 ~i~~Ge~~~LlGpsGsGKSTLLr~IaGl~~p~~G~I-~~~g~~i~~~~~~~r~ig~vfQ~~~lfp~ltv~e  105 (375)
T PRK09452         36 TINNGEFLTLLGPSGCGKTTVLRLIAGFETPDSGRI-MLDGQDITHVPAENRHVNTVFQSYALFPHMTVFE  105 (375)
T ss_pred             EEeCCCEEEEECCCCCcHHHHHHHHhCCCCCCceEE-EECCEECCCCCHHHCCEEEEecCcccCCCCCHHH
Confidence            477999999999999999999988887665555554 44433221 1123345677766655554444443

>TIGR01277 thiQ thiamine ABC transporter, ATP-binding protein

Probab=99.11  E-value=5.5e-10  Score=93.90  Aligned_cols=38  Identities=26%  Similarity=0.346  Sum_probs=31.4

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEE
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAY  153 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~  153 (264)
                      -+.+|+++.|.||||+|||||+..++....+..+.+.+
T Consensus        20 ~i~~Ge~~~i~G~nGsGKSTLl~~l~G~~~~~~G~i~~   57 (213)
T TIGR01277        20 NVADGEIVAIMGPSGAGKSTLLNLIAGFIEPASGSIKV   57 (213)
T ss_pred             EEeCCcEEEEECCCCCCHHHHHHHHhcCCCCCCcEEEE
Confidence            37799999999999999999999998876655555543

This model describes the energy-transducing ATPase subunit ThiQ of the ThiBPQ thiamine (and thiamine pyrophosphate) ABC transporter in several Proteobacteria. This protein is found so far only in Proteobacteria, and is found in complete genomes only if the ThiB and ThiP subunits are also found.

>cd03268 ABC_BcrA_bacitracin_resist The BcrA subfamily represents ABC transporters involved in peptide antibiotic resistance

Probab=99.11  E-value=9.6e-10  Score=92.04  Aligned_cols=127  Identities=15%  Similarity=0.153  Sum_probs=72.9

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCC-HHHHHHcCCCccceeEeCCCCHHHHHHH-----
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALD-PSLAEAMGIDAENLLIAQPDSAENLLSV-----  189 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~-~~~~~~~g~~~~~l~~~~~~~~ee~~~~-----  189 (264)
                      -+++|+++.|.||||+|||||+..++....+..+.+. ++.+.... ..+.+.+++.+++..+....++.+.+..     
T Consensus        22 ~i~~G~~~~i~G~nGsGKSTLl~~l~Gl~~~~~G~i~-~~g~~~~~~~~~~~~i~~~~q~~~~~~~~tv~e~l~~~~~~~  100 (208)
T cd03268          22 HVKKGEIYGFLGPNGAGKTTTMKIILGLIKPDSGEIT-FDGKSYQKNIEALRRIGALIEAPGFYPNLTARENLRLLARLL  100 (208)
T ss_pred             EEcCCcEEEEECCCCCCHHHHHHHHhCCcCCCceEEE-ECCCcccchHHHHhhEEEecCCCccCccCcHHHHHHHHHHhc
Confidence            3679999999999999999999888876655555554 43322111 1223345655554333322222222111     


Q ss_pred             -------------------------------------HHHHhhcCCccEEEEcCccccccccccCCCcCCCCcHHHHHHH
Q 024705          190 -------------------------------------VDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIM  232 (264)
Q Consensus       190 -------------------------------------i~~~~~~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r~i  232 (264)
                                                           ++.+  ..+++++++|...+-..             ....+.+
T Consensus       101 ~~~~~~~~~~l~~~~l~~~~~~~~~~LS~G~~qrv~la~al--~~~p~llllDEPt~~LD-------------~~~~~~l  165 (208)
T cd03268         101 GIRKKRIDEVLDVVGLKDSAKKKVKGFSLGMKQRLGIALAL--LGNPDLLILDEPTNGLD-------------PDGIKEL  165 (208)
T ss_pred             CCcHHHHHHHHHHcCCHHHHhhhHhhCCHHHHHHHHHHHHH--hcCCCEEEECCCcccCC-------------HHHHHHH
Confidence                                                 0111  13566777776554441             1333334


Q ss_pred             HHHHHHHHHHHhccCcEEEEEcccchHhhh
Q 024705          233 TQALRKIHYSLCQSHTLIIFLNQVKVLLLK  262 (264)
Q Consensus       233 ~~~L~~l~~~l~~~g~tVi~i~h~~~~~~~  262 (264)
                      .+.++++.    +.|.++|+++|....+..
T Consensus       166 ~~~l~~~~----~~~~tii~~tH~~~~~~~  191 (208)
T cd03268         166 RELILSLR----DQGITVLISSHLLSEIQK  191 (208)
T ss_pred             HHHHHHHH----HCCCEEEEEcCCHHHHHH
Confidence            45555553    368999999999887654

Bacitracin is a dodecapeptide antibiotic produced by B. licheniformis and B. subtilis. The synthesis of bacitracin is non-ribosomally catalyzed by a multienzyme complex BcrABC. Bacitracin has potent antibiotic activity against gram-positive bacteria. The inhibition of peptidoglycan biosynthesis is the best characterized bacterial effect of bacitracin. The bacitracin resistance of B. licheniformis is mediated by the ABC transporter Bcr which is composed of two identical BcrA ATP-binding subunits and one each of the integral membrane proteins, BcrB and BcrC. B. subtilis cells carrying bcr genes on high-copy number plasmids develop collateral detergent sensitivity, a similar phenomenon in human cells with overexpressed multi-drug resistance P-glycoprotein.

>TIGR00960 3a0501s02 Type II (General) Secretory Pathway (IISP) Family protein

Probab=99.10  E-value=6.6e-10  Score=93.58  Aligned_cols=67  Identities=15%  Similarity=0.239  Sum_probs=42.8

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCC--CH----HHHHHcCCCccceeEeCCCCH
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENAL--DP----SLAEAMGIDAENLLIAQPDSA  183 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~--~~----~~~~~~g~~~~~l~~~~~~~~  183 (264)
                      -+++|+++.|.||||||||||+..++....+..+.+. ++.....  ..    .+.+.+++.+++..++...++
T Consensus        25 ~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~~~~G~i~-~~g~~~~~~~~~~~~~~~~~i~~~~q~~~~~~~~tv   97 (216)
T TIGR00960        25 HITKGEMVFLVGHSGAGKSTFLKLILGIEKPTRGKIR-FNGQDLTRLRGREIPFLRRHIGMVFQDHRLLSDRTV   97 (216)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhCCCCCCceEEE-ECCEehhhcChhHHHHHHHhceEEecCccccccccH
Confidence            4789999999999999999999888876555555554 4332211  11    133456766665544433333

>COG4604 CeuD ABC-type enterochelin transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=99.10  E-value=3.1e-11  Score=98.34  Aligned_cols=57  Identities=28%  Similarity=0.314  Sum_probs=37.6

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEec-CCC--CCHHHHHHcCCCcc
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDV-ENA--LDPSLAEAMGIDAE  173 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~-e~~--~~~~~~~~~g~~~~  173 (264)
                      -+++|.++.|.||||+|||||+..++... +...+.++++. +..  .....++.+.+..|
T Consensus        23 ~i~~g~iTs~IGPNGAGKSTLLS~~sRL~-~~d~G~i~i~g~~~~~~~s~~LAk~lSILkQ   82 (252)
T COG4604          23 DIPKGGITSIIGPNGAGKSTLLSMMSRLL-KKDSGEITIDGLELTSTPSKELAKKLSILKQ   82 (252)
T ss_pred             eecCCceeEEECCCCccHHHHHHHHHHhc-cccCceEEEeeeecccCChHHHHHHHHHHHh
Confidence            48899999999999999999665555544 44444555554 332  33356666655444

>cd03296 ABC_CysA_sulfate_importer Part of the ABC transporter complex cysAWTP involved in sulfate import

Probab=99.10  E-value=5.1e-10  Score=95.79  Aligned_cols=38  Identities=29%  Similarity=0.456  Sum_probs=30.8

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEE
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAY  153 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~  153 (264)
                      -+++|+++.|.||||+|||||+..++....+..+.+.|
T Consensus        24 ~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~~~~G~i~~   61 (239)
T cd03296          24 DIPSGELVALLGPSGSGKTTLLRLIAGLERPDSGTILF   61 (239)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhCCCCCCceEEEE
Confidence            47799999999999999999999988766555555443

Responsible for energy coupling to the transport system. The complex is composed of two ATP-binding proteins (cysA), two transmembrane proteins (cysT and cysW), and a solute-binding protein (cysP). ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>TIGR02314 ABC_MetN D-methionine ABC transporter, ATP-binding protein

Probab=99.10  E-value=6e-10  Score=100.22  Aligned_cols=70  Identities=16%  Similarity=0.195  Sum_probs=45.6

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCC-C-HH---HHHHcCCCccceeEeCCCCHHH
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENAL-D-PS---LAEAMGIDAENLLIAQPDSAEN  185 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~-~-~~---~~~~~g~~~~~l~~~~~~~~ee  185 (264)
                      -+++|+++.|.||||||||||+..++....+..+.+.+-..+... . ..   ..+.+|+.+++..+....++.+
T Consensus        27 ~i~~Gei~gIiG~sGaGKSTLlr~I~gl~~p~~G~I~i~G~~i~~~~~~~l~~~r~~Ig~v~Q~~~l~~~~tv~e  101 (343)
T TIGR02314        27 HVPAGQIYGVIGASGAGKSTLIRCVNLLERPTSGSVIVDGQDLTTLSNSELTKARRQIGMIFQHFNLLSSRTVFG  101 (343)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhcCCCCCceEEEECCEECCcCCHHHHHHHhcCEEEEECCccccccCcHHH
Confidence            378999999999999999999888887665555555443322211 1 11   2345787777665554444443

Members of this family are the ATP-binding protein of the D-methionine ABC transporter complex. Known members belong to the Proteobacteria.

>PRK11153 metN DL-methionine transporter ATP-binding subunit; Provisional

Probab=99.10  E-value=5.5e-10  Score=100.67  Aligned_cols=133  Identities=14%  Similarity=0.196  Sum_probs=77.1

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCC-C-H---HHHHHcCCCccceeEeCCCCHHHHHHHH
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENAL-D-P---SLAEAMGIDAENLLIAQPDSAENLLSVV  190 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~-~-~---~~~~~~g~~~~~l~~~~~~~~ee~~~~i  190 (264)
                      -+++|+++.|.||||||||||+..++....+..+.+.|...+... . .   ...+.+|+.+++..++...++.+.+...
T Consensus        27 ~i~~Gei~~iiG~nGsGKSTLlk~L~Gl~~p~~G~I~~~g~~i~~~~~~~~~~~~~~ig~v~q~~~l~~~~tv~eni~~~  106 (343)
T PRK11153         27 HIPAGEIFGVIGASGAGKSTLIRCINLLERPTSGRVLVDGQDLTALSEKELRKARRQIGMIFQHFNLLSSRTVFDNVALP  106 (343)
T ss_pred             EEcCCCEEEEECCCCCcHHHHHHHHhCCCCCCceEEEECCEECCcCCHHHHHHHhcCEEEEeCCCccCCCCcHHHHHHHH
Confidence            478999999999999999999988887665556655543332211 1 1   1234567666654443333333222111


Q ss_pred             H---------------HHh-----------------------------hcCCccEEEEcCccccccccccCCCcCCCCcH
Q 024705          191 D---------------TLT-----------------------------KSGSIDVIVVDSVAALIPKCEIGVPINGMYSD  226 (264)
Q Consensus       191 ~---------------~~~-----------------------------~~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~  226 (264)
                      .               .++                             -..+|+++++|..++-.             +.
T Consensus       107 ~~~~~~~~~~~~~~~~~~l~~~gL~~~~~~~~~~LSgGq~qRv~lAraL~~~p~iLlLDEPts~L-------------D~  173 (343)
T PRK11153        107 LELAGTPKAEIKARVTELLELVGLSDKADRYPAQLSGGQKQRVAIARALASNPKVLLCDEATSAL-------------DP  173 (343)
T ss_pred             HHHcCCCHHHHHHHHHHHHHHcCCchhhhCChhhCCHHHHHHHHHHHHHHcCCCEEEEeCCcccC-------------CH
Confidence            0               000                             01345566666544333             22


Q ss_pred             HHHHHHHHHHHHHHHHHhccCcEEEEEcccchHhhhcC
Q 024705          227 AQSRIMTQALRKIHYSLCQSHTLIIFLNQVKVLLLKHF  264 (264)
Q Consensus       227 ~q~r~i~~~L~~l~~~l~~~g~tVi~i~h~~~~~~~~~  264 (264)
                      ...+.+.+.|+++.   ++.|+|||+++|..+.+...|
T Consensus       174 ~~~~~l~~~L~~l~---~~~g~tiilvtH~~~~i~~~~  208 (343)
T PRK11153        174 ATTRSILELLKDIN---RELGLTIVLITHEMDVVKRIC  208 (343)
T ss_pred             HHHHHHHHHHHHHH---HhcCCEEEEEeCCHHHHHHhC
Confidence            33344555666554   566999999999998876543

>cd03225 ABC_cobalt_CbiO_domain1 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota

Probab=99.10  E-value=9.5e-10  Score=92.21  Aligned_cols=59  Identities=24%  Similarity=0.191  Sum_probs=39.2

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCC--CHHHHHHcCCCccc
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENAL--DPSLAEAMGIDAEN  174 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~--~~~~~~~~g~~~~~  174 (264)
                      -+++|+++.|.||||+|||||+..++....+..+.+.|...+...  ...+.+.+++.+++
T Consensus        23 ~i~~G~~~~l~G~nGsGKSTLl~~l~G~~~~~~G~i~~~g~~~~~~~~~~~~~~i~~~~q~   83 (211)
T cd03225          23 TIKKGEFVLIVGPNGSGKSTLLRLLNGLLGPTSGEVLVDGKDLTKLSLKELRRKVGLVFQN   83 (211)
T ss_pred             EEcCCcEEEEECCCCCCHHHHHHHHhcCCCCCCceEEECCEEcccCCHHHHHhhceEEecC
Confidence            377999999999999999999988887665555655443322111  11234456665554

The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC transport system of the CbiMNQO family is involved in cobalt transport in association with the cobalamin (vitamin B12) biosynthetic pathways. Most of cobalt (Cbi) transport systems possess a separate CbiN component, the cobalt-binding periplasmic protein, and they are encoded by the conserved gene cluster cbiMNQO. Both the CbiM and CbiQ proteins are integral cytoplasmic membrane proteins, and the CbiO protein has the linker peptide and the Walker A and B motifs commonly found in the ATPase components of the ABC-type transport systems.

>PRK10771 thiQ thiamine transporter ATP-binding subunit; Provisional

Probab=99.09  E-value=8.3e-10  Score=94.04  Aligned_cols=38  Identities=24%  Similarity=0.288  Sum_probs=31.4

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEE
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAY  153 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~  153 (264)
                      -+.+|++++|.||||+|||||+..++....+..+.+.|
T Consensus        21 ~i~~Ge~~~l~G~nGsGKSTLl~~l~Gl~~~~~G~i~~   58 (232)
T PRK10771         21 TVERGERVAILGPSGAGKSTLLNLIAGFLTPASGSLTL   58 (232)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhCCCCCCCceEEE
Confidence            47899999999999999999999888776655665544

>PRK11607 potG putrescine transporter ATP-binding subunit; Provisional

Probab=99.09  E-value=6.1e-10  Score=101.47  Aligned_cols=72  Identities=19%  Similarity=0.229  Sum_probs=48.3

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCC-CHHHHHHcCCCccceeEeCCCCHHHHHH
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENAL-DPSLAEAMGIDAENLLIAQPDSAENLLS  188 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~-~~~~~~~~g~~~~~l~~~~~~~~ee~~~  188 (264)
                      -+++|+++.|.||||||||||+..++.......+.+ +++.+... .....+.+|+.+++..++...++.+.+.
T Consensus        41 ~i~~Ge~~~llGpsGsGKSTLLr~IaGl~~p~~G~I-~i~g~~i~~~~~~~r~ig~vfQ~~~lfp~ltv~eNi~  113 (377)
T PRK11607         41 TIYKGEIFALLGASGCGKSTLLRMLAGFEQPTAGQI-MLDGVDLSHVPPYQRPINMMFQSYALFPHMTVEQNIA  113 (377)
T ss_pred             EEcCCCEEEEECCCCCcHHHHHHHHhCCCCCCceEE-EECCEECCCCCHHHCCEEEEeCCCccCCCCCHHHHHH
Confidence            377999999999999999999888887655545544 45543321 1233456788777766666555555443

>cd03213 ABCG_EPDR ABCG transporters are involved in eye pigment (EP) precursor transport, regulation of lipid-trafficking mechanisms, and pleiotropic drug resistance (DR)

Probab=99.09  E-value=9.2e-10  Score=91.32  Aligned_cols=126  Identities=13%  Similarity=0.168  Sum_probs=79.8

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHH--hhcCCeEEEEecCCCCCHHHHHHcCCCccceeEeCCCCHHHHHHH----
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEA--QKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSV----  189 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~--~~~g~~v~~~~~e~~~~~~~~~~~g~~~~~l~~~~~~~~ee~~~~----  189 (264)
                      -+++|+++.|.||||+|||||+..++...  .+..+.+.| +.+........+.+++.+++..+....++.+.+..    
T Consensus        31 ~i~~Ge~~~l~G~nGsGKStLl~~i~Gl~~~~~~~G~i~~-~g~~~~~~~~~~~i~~~~q~~~~~~~~t~~~~i~~~~~~  109 (194)
T cd03213          31 KAKPGELTAIMGPSGAGKSTLLNALAGRRTGLGVSGEVLI-NGRPLDKRSFRKIIGYVPQDDILHPTLTVRETLMFAAKL  109 (194)
T ss_pred             EEcCCcEEEEECCCCCCHHHHHHHHhCCCCCCCCceEEEE-CCEeCchHhhhheEEEccCcccCCCCCcHHHHHHHHHHh
Confidence            47899999999999999999998888766  555555544 33322111233456776666554444454443321    


Q ss_pred             -------------HHHHhhcCCccEEEEcCccccccccccCCCcCCCCcHHHHHHHHHHHHHHHHHHhccCcEEEEEccc
Q 024705          190 -------------VDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQV  256 (264)
Q Consensus       190 -------------i~~~~~~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r~i~~~L~~l~~~l~~~g~tVi~i~h~  256 (264)
                                   .+.++  .+++++++|....-..             ....+.+.+.++++    ++.+.|+|+++|.
T Consensus       110 ~~LS~G~~qrv~laral~--~~p~illlDEP~~~LD-------------~~~~~~l~~~l~~~----~~~~~tiii~sh~  170 (194)
T cd03213         110 RGLSGGERKRVSIALELV--SNPSLLFLDEPTSGLD-------------SSSALQVMSLLRRL----ADTGRTIICSIHQ  170 (194)
T ss_pred             ccCCHHHHHHHHHHHHHH--cCCCEEEEeCCCcCCC-------------HHHHHHHHHHHHHH----HhCCCEEEEEecC
Confidence                         12222  5789999998776552             13334455556555    3348999999998


Q ss_pred             ch-Hhh
Q 024705          257 KV-LLL  261 (264)
Q Consensus       257 ~~-~~~  261 (264)
                      .. .+.
T Consensus       171 ~~~~~~  176 (194)
T cd03213         171 PSSEIF  176 (194)
T ss_pred             chHHHH
Confidence            75 444

DR is a well-described phenomenon occurring in fungi and shares several similarities with processes in bacteria and higher eukaryotes. Compared to other members of the ABC transporter subfamilies, the ABCG transporter family is composed of proteins that have an ATP-binding cassette domain at the N-terminus and a TM (transmembrane) domain at the C-terminus.

>TIGR03410 urea_trans_UrtE urea ABC transporter, ATP-binding protein UrtE

Probab=99.08  E-value=1.2e-09  Score=92.88  Aligned_cols=63  Identities=21%  Similarity=0.235  Sum_probs=41.5

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCC-CH--HHHHHcCCCccceeEe
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENAL-DP--SLAEAMGIDAENLLIA  178 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~-~~--~~~~~~g~~~~~l~~~  178 (264)
                      -+++|+++.|.||||||||||+..++....+..+.+.+...+... ..  ...+.+++.+++..++
T Consensus        22 ~i~~Ge~~~l~G~nGsGKSTLl~~l~G~~~~~~G~i~~~g~~~~~~~~~~~~~~~i~~~~q~~~~~   87 (230)
T TIGR03410        22 EVPKGEVTCVLGRNGVGKTTLLKTLMGLLPVKSGSIRLDGEDITKLPPHERARAGIAYVPQGREIF   87 (230)
T ss_pred             EECCCCEEEEECCCCCCHHHHHHHHhCCCCCCCCEEEECCEECCCCCHHHHHHhCeEEeccCCccc
Confidence            478999999999999999999998887766666665543322111 11  1234466666654433

Members of this protein family are ABC transporter ATP-binding subunits associated with urea transport and metabolism. This protein is found in a conserved five-gene transport operon typically found adjacent to urease genes. It was shown in Cyanobacteria that disruption leads to the loss of high-affinity urea transport activity.

>TIGR03522 GldA_ABC_ATP gliding motility-associated ABC transporter ATP-binding subunit GldA

Probab=99.08  E-value=8.7e-10  Score=97.66  Aligned_cols=72  Identities=19%  Similarity=0.193  Sum_probs=47.2

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCH-HHHHHcCCCccceeEeCCCCHHHHH
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP-SLAEAMGIDAENLLIAQPDSAENLL  187 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~-~~~~~~g~~~~~l~~~~~~~~ee~~  187 (264)
                      -+++|++++|.||||+|||||+..++....+..|.+.+...+..... ...+.+|+.+++..++...++.+.+
T Consensus        24 ~i~~Gei~~l~G~NGaGKTTLl~~l~Gl~~~~~G~i~i~g~~~~~~~~~~~~~ig~~~q~~~l~~~~tv~e~l   96 (301)
T TIGR03522        24 EAQKGRIVGFLGPNGAGKSTTMKIITGYLPPDSGSVQVCGEDVLQNPKEVQRNIGYLPEHNPLYLDMYVREYL   96 (301)
T ss_pred             EEeCCeEEEEECCCCCCHHHHHHHHhCCCCCCceEEEECCEEcccChHHHHhceEEecCCCCCCCCCcHHHHH
Confidence            47899999999999999999998888765555665544332221111 3345577777765555444554444

Members of this protein family are exclusive to the Bacteroidetes phylum (previously Cytophaga-Flavobacteria-Bacteroides). GldA is an ABC transporter ATP-binding protein (pfam00005) linked to a type of rapid surface gliding motility found in certain Bacteroidetes, such as Flavobacterium johnsoniae and Cytophaga hutchinsonii. Knockouts of GldA abolish the gliding phenotype. Gliding motility appears closely linked to chitin utilization in the model species Flavobacterium johnsoniae. Bacteroidetes with members of this protein family appear to have all of the genes associated with gliding motility.

>PRK11144 modC molybdate transporter ATP-binding protein; Provisional

Probab=99.08  E-value=7e-10  Score=100.34  Aligned_cols=131  Identities=17%  Similarity=0.222  Sum_probs=75.7

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCC-------CHHHHHHcCCCccceeEeCCCCHHHHHH
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENAL-------DPSLAEAMGIDAENLLIAQPDSAENLLS  188 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~-------~~~~~~~~g~~~~~l~~~~~~~~ee~~~  188 (264)
                      -+++|+++.|.||||||||||+..++....+..+.+. ++.+...       .....+.+|+.+++..++...++.+.+.
T Consensus        20 ~i~~Ge~~~l~G~nGsGKSTLl~~iaGl~~p~~G~I~-~~g~~~~~~~~~~~~~~~~~~i~~v~q~~~l~~~~tv~enl~   98 (352)
T PRK11144         20 TLPAQGITAIFGRSGAGKTSLINAISGLTRPQKGRIV-LNGRVLFDAEKGICLPPEKRRIGYVFQDARLFPHYKVRGNLR   98 (352)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhCCCCCCceEEE-ECCEEccccccccccchhhCCEEEEcCCcccCCCCcHHHHHH
Confidence            3679999999999999999999888876555555554 4332211       1122345666666654444444433221


Q ss_pred             H---------HHHHh-----------------------------hcCCccEEEEcCccccccccccCCCcCCCCcHHHHH
Q 024705          189 V---------VDTLT-----------------------------KSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSR  230 (264)
Q Consensus       189 ~---------i~~~~-----------------------------~~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r  230 (264)
                      .         +..++                             -..+++++++|...+-.             +....+
T Consensus        99 ~~~~~~~~~~~~~~l~~~gl~~~~~~~~~~LSgGq~qRvalaraL~~~p~llLLDEPts~L-------------D~~~~~  165 (352)
T PRK11144         99 YGMAKSMVAQFDKIVALLGIEPLLDRYPGSLSGGEKQRVAIGRALLTAPELLLMDEPLASL-------------DLPRKR  165 (352)
T ss_pred             hhhhhhhHHHHHHHHHHcCCchhhhCCcccCCHHHHHHHHHHHHHHcCCCEEEEcCCcccC-------------CHHHHH
Confidence            1         00000                             01345566666544333             123333


Q ss_pred             HHHHHHHHHHHHHhccCcEEEEEcccchHhhhc
Q 024705          231 IMTQALRKIHYSLCQSHTLIIFLNQVKVLLLKH  263 (264)
Q Consensus       231 ~i~~~L~~l~~~l~~~g~tVi~i~h~~~~~~~~  263 (264)
                      .+.+.|+++.   ++.|+|+|+++|..+.+...
T Consensus       166 ~l~~~L~~l~---~~~g~tii~vTHd~~~~~~~  195 (352)
T PRK11144        166 ELLPYLERLA---REINIPILYVSHSLDEILRL  195 (352)
T ss_pred             HHHHHHHHHH---HhcCCeEEEEecCHHHHHHh
Confidence            4555555554   56699999999999876543

>cd03214 ABC_Iron-Siderophores_B12_Hemin ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea

Probab=99.08  E-value=1.6e-09  Score=88.79  Aligned_cols=130  Identities=17%  Similarity=0.183  Sum_probs=77.1

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCC-CH-HHHHHcCCCcc--------ce--eEeCCCCH
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENAL-DP-SLAEAMGIDAE--------NL--LIAQPDSA  183 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~-~~-~~~~~~g~~~~--------~l--~~~~~~~~  183 (264)
                      -+.+|+++.|.||||+|||||+..++....+..+.+.+-..+... .. .+...+++.++        ..  ......+.
T Consensus        21 ~i~~G~~~~l~G~nGsGKStLl~~i~G~~~~~~G~v~~~g~~~~~~~~~~~~~~i~~~~q~l~~~gl~~~~~~~~~~LS~  100 (180)
T cd03214          21 SIEAGEIVGILGPNGAGKSTLLKTLAGLLKPSSGEILLDGKDLASLSPKELARKIAYVPQALELLGLAHLADRPFNELSG  100 (180)
T ss_pred             EECCCCEEEEECCCCCCHHHHHHHHhCCCCCCCcEEEECCEECCcCCHHHHHHHHhHHHHHHHHcCCHhHhcCCcccCCH
Confidence            478999999999999999999988887665556655443222111 11 22223333221        00  00112222


Q ss_pred             H--HHHHHHHHHhhcCCccEEEEcCccccccccccCCCcCCCCcHHHHHHHHHHHHHHHHHHhccCcEEEEEcccchHhh
Q 024705          184 E--NLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVKVLLL  261 (264)
Q Consensus       184 e--e~~~~i~~~~~~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r~i~~~L~~l~~~l~~~g~tVi~i~h~~~~~~  261 (264)
                      -  ..+...+.++  .+++++++|....-..             ....+.+.+.+.++.   ++.|+++|+++|..+.+.
T Consensus       101 G~~qrl~laral~--~~p~llllDEP~~~LD-------------~~~~~~~~~~l~~~~---~~~~~tiii~sh~~~~~~  162 (180)
T cd03214         101 GERQRVLLARALA--QEPPILLLDEPTSHLD-------------IAHQIELLELLRRLA---RERGKTVVMVLHDLNLAA  162 (180)
T ss_pred             HHHHHHHHHHHHh--cCCCEEEEeCCccCCC-------------HHHHHHHHHHHHHHH---HhcCCEEEEEeCCHHHHH
Confidence            2  2233344443  5899999998776552             133344556666654   444899999999988765


Q ss_pred             hc
Q 024705          262 KH  263 (264)
Q Consensus       262 ~~  263 (264)
                      +.
T Consensus       163 ~~  164 (180)
T cd03214         163 RY  164 (180)
T ss_pred             Hh
Confidence            43

Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC transporter mediating vitamin B12 uptake. The two ATP-binding cassettes (BtuD) are in close contact with each other, as are the two membrane-spanning subunits (BtuC); this arrangement is distinct from that observed for the E. coli lipid flippase MsbA. The BtuC subunits provide 20 transmembrane helices grouped around a translocation pathway that is closed to the cytoplasm by a gate region, whereas the dimer arrangement of the BtuD subunits resembles the ATP-bound form of the Rad50 DNA repair enzyme. A prominent cytoplasmic loop of BtuC forms the contact region with the ATP-binding cassette and represent a conserved motif among the ABC transporters.

>cd03292 ABC_FtsE_transporter FtsE is a hydrophilic nucleotide-binding protein that binds FtsX to form a heterodimeric ATP-binding cassette (ABC)-type transporter that associates with the bacterial inner membrane

Probab=99.08  E-value=1.3e-09  Score=91.52  Aligned_cols=38  Identities=26%  Similarity=0.357  Sum_probs=30.7

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEE
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAY  153 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~  153 (264)
                      -+.+|+++.|.||||||||||+..++....+..+.+.|
T Consensus        23 ~i~~G~~~~i~G~nGsGKSTLl~~l~G~~~~~~G~i~~   60 (214)
T cd03292          23 SISAGEFVFLVGPSGAGKSTLLKLIYKEELPTSGTIRV   60 (214)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhcCCCCCceEEEE
Confidence            37799999999999999999998888765555555543

The FtsE/X transporter is thought to be involved in cell division and is important for assembly or stability of the septal ring.

>PRK11247 ssuB aliphatic sulfonates transport ATP-binding subunit; Provisional

Probab=99.08  E-value=8.7e-10  Score=95.49  Aligned_cols=37  Identities=27%  Similarity=0.396  Sum_probs=30.4

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEE
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCA  152 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~  152 (264)
                      -+++|+++.|.||||+|||||+..++....+..+.+.
T Consensus        34 ~i~~Ge~~~I~G~NGsGKSTLlk~l~Gl~~p~~G~i~   70 (257)
T PRK11247         34 HIPAGQFVAVVGRSGCGKSTLLRLLAGLETPSAGELL   70 (257)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhcCCCCCCeEEE
Confidence            4779999999999999999999988876655555553

>cd03269 ABC_putative_ATPase This subfamily is involved in drug resistance, nodulation, lipid transport, and bacteriocin and lantibiotic immunity

Probab=99.07  E-value=1e-09  Score=92.06  Aligned_cols=36  Identities=25%  Similarity=0.309  Sum_probs=29.4

Q ss_pred             CCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEE
Q 024705          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCA  152 (264)
Q Consensus       117 l~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~  152 (264)
                      +.+|+++.|.||||||||||+..++....+..+.+.
T Consensus        23 i~~G~~~~i~G~nGsGKSTLl~~l~G~~~~~~G~i~   58 (210)
T cd03269          23 VEKGEIFGLLGPNGAGKTTTIRMILGIILPDSGEVL   58 (210)
T ss_pred             EcCCcEEEEECCCCCCHHHHHHHHhCCCCCCceEEE
Confidence            679999999999999999999888876544444443

In eubacteria and archaea, the typical organization consists of one ABC and one or two IMs. Eukaryote systems of the ABCA subfamily display ABC domains strongly similar to this family. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region in addition to the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>cd03262 ABC_HisP_GlnQ_permeases HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively

Probab=99.07  E-value=1.6e-09  Score=90.97  Aligned_cols=38  Identities=29%  Similarity=0.308  Sum_probs=31.4

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEE
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAY  153 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~  153 (264)
                      -+++|+++.|.||||||||||+..++....+..+.+.+
T Consensus        22 ~i~~G~~~~l~G~nGsGKSTLl~~l~G~~~~~~G~i~~   59 (213)
T cd03262          22 TVKKGEVVVIIGPSGSGKSTLLRCINLLEEPDSGTIII   59 (213)
T ss_pred             EECCCCEEEEECCCCCCHHHHHHHHhCCCCCCCceEEE
Confidence            47799999999999999999999988766555665544

Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP has properties intermediate between those of integral and peripheral membrane proteins and is accessible from both sides of the membrane, presumably by its interaction with HisQ and HisM. The two HisP subunits form a homodimer within the complex. The domain structure of the amino acid uptake systems is typical for prokaryote extracellular solute binding protein-dependent uptake systems. All of the amino acid uptake systems also have at least one, and in a few cases, two extracellular solute binding proteins located in the periplasm of Gram-negative bacteria, or attached to the cell membrane of Gram-positive bacteria. The best-studied member of the PAAT (polar amino acid transport) family is the HisJQM

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

Probab=99.07  E-value=9.4e-11  Score=99.03  Aligned_cols=39  Identities=26%  Similarity=0.313  Sum_probs=30.2

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEE
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYL  154 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~  154 (264)
                      -+++|+++.|.||+|||||||+..++.-..+..+.|.+.
T Consensus        25 ~v~~GEfvsilGpSGcGKSTLLriiAGL~~p~~G~V~~~   63 (248)
T COG1116          25 SVEKGEFVAILGPSGCGKSTLLRLIAGLEKPTSGEVLLD   63 (248)
T ss_pred             EECCCCEEEEECCCCCCHHHHHHHHhCCCCCCCceEEEC
Confidence            378999999999999999998777776655555554443

>PRK10851 sulfate/thiosulfate transporter subunit; Provisional

Probab=99.07  E-value=9.3e-10  Score=99.48  Aligned_cols=66  Identities=18%  Similarity=0.253  Sum_probs=42.3

Q ss_pred             CCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCC-CCHHHHHHcCCCccceeEeCCCCH
Q 024705          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENA-LDPSLAEAMGIDAENLLIAQPDSA  183 (264)
Q Consensus       117 l~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~-~~~~~~~~~g~~~~~l~~~~~~~~  183 (264)
                      +++|+++.|.||||||||||+..++....+..+.+. ++.+.. ......+.+|+.+++..+++..++
T Consensus        25 i~~Ge~~~llGpsGsGKSTLLr~IaGl~~p~~G~I~-i~g~~i~~~~~~~r~i~~v~Q~~~l~p~~tv   91 (353)
T PRK10851         25 IPSGQMVALLGPSGSGKTTLLRIIAGLEHQTSGHIR-FHGTDVSRLHARDRKVGFVFQHYALFRHMTV   91 (353)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhCCCCCCCcEEE-ECCEECCCCCHHHCCEEEEecCcccCCCCcH
Confidence            679999999999999999999888886655555554 443221 111223446666665444433333

>TIGR02673 FtsE cell division ATP-binding protein FtsE

Probab=99.06  E-value=1.3e-09  Score=91.55  Aligned_cols=38  Identities=24%  Similarity=0.267  Sum_probs=30.9

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEE
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAY  153 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~  153 (264)
                      -+++|+++.|.||||||||||+..++....+..+.+.+
T Consensus        24 ~i~~G~~~~l~G~nGsGKSTLl~~i~Gl~~~~~G~i~~   61 (214)
T TIGR02673        24 HIRKGEFLFLTGPSGAGKTTLLKLLYGALTPSRGQVRI   61 (214)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhCCCCCCCceEEE
Confidence            47899999999999999999998887765555555544

This model describes FtsE, a member of the ABC transporter ATP-binding protein family. This protein, and its permease partner FtsX, localize to the division site. In a number of species, the ftsEX gene pair is located next to FtsY, the signal recognition particle-docking protein.

>cd03237 ABC_RNaseL_inhibitor_domain2 The ATPase domain 2 of RNase L inhibitor

Probab=99.06  E-value=1.5e-09  Score=93.46  Aligned_cols=131  Identities=15%  Similarity=0.202  Sum_probs=73.8

Q ss_pred             CCCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCC-------eEEEEecCCCCC--HHHHHHc-------CCCcc-----
Q 024705          115 GGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGG-------YCAYLDVENALD--PSLAEAM-------GIDAE-----  173 (264)
Q Consensus       115 gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~-------~v~~~~~e~~~~--~~~~~~~-------g~~~~-----  173 (264)
                      |-+.+|+++.|.||||+|||||+..++....+..+       .+.|+..+....  ....+.+       +....     
T Consensus        20 ~~i~~Ge~~~i~G~NGsGKSTLlk~L~G~~~p~~G~i~~~g~~i~~~~q~~~~~~~~tv~e~l~~~~~~~~~~~~~~~~~   99 (246)
T cd03237          20 GSISESEVIGILGPNGIGKTTFIKMLAGVLKPDEGDIEIELDTVSYKPQYIKADYEGTVRDLLSSITKDFYTHPYFKTEI   99 (246)
T ss_pred             CCcCCCCEEEEECCCCCCHHHHHHHHhCCCcCCCCeEEECCceEEEecccccCCCCCCHHHHHHHHhhhccccHHHHHHH
Confidence            46889999999999999999999988776554433       334443322110  0000000       00000     


Q ss_pred             --ceeE-------eCCCCHH--HHHHHHHHHhhcCCccEEEEcCccccccccccCCCcCCCCcHHHHHHHHHHHHHHHHH
Q 024705          174 --NLLI-------AQPDSAE--NLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYS  242 (264)
Q Consensus       174 --~l~~-------~~~~~~e--e~~~~i~~~~~~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r~i~~~L~~l~~~  242 (264)
                        .+.+       ....+.-  +.+.+++.+.  .+++++++|...+.+.             ......+.+.++++.  
T Consensus       100 l~~l~l~~~~~~~~~~LSgGe~qrv~iaraL~--~~p~llllDEPt~~LD-------------~~~~~~l~~~l~~~~--  162 (246)
T cd03237         100 AKPLQIEQILDREVPELSGGELQRVAIAACLS--KDADIYLLDEPSAYLD-------------VEQRLMASKVIRRFA--  162 (246)
T ss_pred             HHHcCCHHHhhCChhhCCHHHHHHHHHHHHHh--cCCCEEEEeCCcccCC-------------HHHHHHHHHHHHHHH--
Confidence              0000       0001111  1122223332  5788999998776652             134444566666665  


Q ss_pred             HhccCcEEEEEcccchHhhhc
Q 024705          243 LCQSHTLIIFLNQVKVLLLKH  263 (264)
Q Consensus       243 l~~~g~tVi~i~h~~~~~~~~  263 (264)
                       ++.+.+||+++|....+...
T Consensus       163 -~~~~~tiiivsHd~~~~~~~  182 (246)
T cd03237         163 -ENNEKTAFVVEHDIIMIDYL  182 (246)
T ss_pred             -HhcCCEEEEEeCCHHHHHHh
Confidence             56789999999998877653

The ABC ATPase, RNase L inhibitor (RLI), is a key enzyme in ribosomal biogenesis, formation of translation preinitiation complexes, and assembly of HIV capsids. RLI's are not transport proteins and thus cluster with a group of soluble proteins that lack the transmembrane components commonly found in other members of the family. Structurally, RLI's have an N-terminal Fe-S domain and two nucleotide-binding domains which are arranged to form two composite active sites in their interface cleft. RLI is one of the most conserved enzymes between archaea and eukaryotes with a sequence identity of more than 48%. The high degree of evolutionary conservation suggests that RLI performs a central role in archaeal and eukaryotic physiology.

>PRK11629 lolD lipoprotein transporter ATP-binding subunit; Provisional

Probab=99.05  E-value=1.6e-09  Score=92.31  Aligned_cols=38  Identities=24%  Similarity=0.340  Sum_probs=30.5

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEE
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAY  153 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~  153 (264)
                      -+++|+++.|.||||||||||+..++....+..+.+.+
T Consensus        31 ~i~~Ge~~~l~G~nGsGKSTLl~~l~Gl~~~~~G~i~~   68 (233)
T PRK11629         31 SIGEGEMMAIVGSSGSGKSTLLHLLGGLDTPTSGDVIF   68 (233)
T ss_pred             EEcCCcEEEEECCCCCCHHHHHHHHhcCCCCCceEEEE
Confidence            37899999999999999999998888765544555443

>cd03226 ABC_cobalt_CbiO_domain2 Domain II of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota

Probab=99.05  E-value=1.1e-09  Score=91.45  Aligned_cols=38  Identities=29%  Similarity=0.387  Sum_probs=30.6

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEE
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAY  153 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~  153 (264)
                      -+++|+++.|.||||||||||+..++....+..+.+.+
T Consensus        22 ~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~p~~G~i~~   59 (205)
T cd03226          22 DLYAGEIIALTGKNGAGKTTLAKILAGLIKESSGSILL   59 (205)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhcCCCCCceEEEE
Confidence            37799999999999999999998888765555555543

The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. The CbiMNQO family ABC transport system is involved in cobalt transport in association with the cobalamin (vitamin B12) biosynthetic pathways. Most cobalt (Cbi) transport systems possess a separate CbiN component, the cobalt-binding periplasmic protein, and they are encoded by the conserved gene cluster cbiMNQO. Both the CbiM and CbiQ proteins are integral cytoplasmic membrane proteins, and the CbiO protein has the linker peptide and the Walker A and B motifs commonly found in the ATPase components of the ABC-type transport systems.

>cd03218 ABC_YhbG The ABC transporters belonging to the YhbG family are similar to members of the Mj1267_LivG family, which is involved in the transport of branched-chain amino acids

Probab=99.05  E-value=1.5e-09  Score=92.34  Aligned_cols=38  Identities=24%  Similarity=0.348  Sum_probs=31.1

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEE
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAY  153 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~  153 (264)
                      -+++|+++.|.||||||||||+..++....+..+.+.+
T Consensus        22 ~i~~Ge~~~l~G~nGsGKSTLl~~l~Gl~~p~~G~i~~   59 (232)
T cd03218          22 SVKQGEIVGLLGPNGAGKTTTFYMIVGLVKPDSGKILL   59 (232)
T ss_pred             EecCCcEEEEECCCCCCHHHHHHHHhCCCCCCCcEEEE
Confidence            37799999999999999999998888766555665544

The genes yhbG and yhbN are located in a single operon and may function together in cell envelope during biogenesis. YhbG is the putative ATP-binding cassette component and YhbN is the putative periplasmic-binding protein. Depletion of each gene product leads to growth arrest, irreversible cell damage and loss of viability in E. coli. The YhbG homolog (NtrA) is essential in Rhizobium meliloti, a symbiotic nitrogen-fixing bacterium.

>TIGR03864 PQQ_ABC_ATP ABC transporter, ATP-binding subunit, PQQ-dependent alcohol dehydrogenase system

Probab=99.05  E-value=1.7e-09  Score=92.30  Aligned_cols=38  Identities=21%  Similarity=0.278  Sum_probs=30.9

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEE
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAY  153 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~  153 (264)
                      -+.+|+++.|.||||+|||||+..++....+..|.+.+
T Consensus        23 ~i~~Ge~~~i~G~nGsGKSTLl~~l~G~~~p~~G~i~~   60 (236)
T TIGR03864        23 TVRPGEFVALLGPNGAGKSTLFSLLTRLYVAQEGQISV   60 (236)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhCCcCCCceEEEE
Confidence            47899999999999999999999988766555555544

Members of this protein family are the ATP-binding subunit of an ABC transporter system that is associated with PQQ biosynthesis and PQQ-dependent alcohol dehydrogenases. While this family shows homology to several efflux ABC transporter subunits, the presence of a periplasmic substrate-binding protein and association with systems for catabolism of alcohols suggests a role in import rather than detoxification.

>cd03300 ABC_PotA_N PotA is an ABC-type transporter and the ATPase component of the spermidine/putrescine-preferential uptake system consisting of PotA, -B, -C, and -D

Probab=99.05  E-value=1.6e-09  Score=92.35  Aligned_cols=37  Identities=22%  Similarity=0.286  Sum_probs=31.0

Q ss_pred             CCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEE
Q 024705          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAY  153 (264)
Q Consensus       117 l~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~  153 (264)
                      +.+|++++|.||||+|||||+..++....+..+.+.+
T Consensus        23 i~~Ge~~~i~G~nGsGKSTLl~~l~g~~~~~~G~i~~   59 (232)
T cd03300          23 IKEGEFFTLLGPSGCGKTTLLRLIAGFETPTSGEILL   59 (232)
T ss_pred             ECCCCEEEEECCCCCCHHHHHHHHhcCCCCCceEEEE
Confidence            6799999999999999999999988777655565544

PotA has two domains with the N-terminal domain containing the ATPase activity and the residues required for homodimerization with PotA and heterdimerization with PotB. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PRK13548 hmuV hemin importer ATP-binding subunit; Provisional

Probab=99.05  E-value=1.7e-09  Score=93.64  Aligned_cols=38  Identities=29%  Similarity=0.364  Sum_probs=31.1

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEE
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAY  153 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~  153 (264)
                      -+++|+++.|.||||+|||||+..++....+..|.+.+
T Consensus        24 ~i~~Ge~~~i~G~nGsGKSTLl~~i~G~~~p~~G~i~~   61 (258)
T PRK13548         24 TLRPGEVVAILGPNGAGKSTLLRALSGELSPDSGEVRL   61 (258)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhCCCCCCCCEEEE
Confidence            37799999999999999999998888866555555544

>cd03294 ABC_Pro_Gly_Bertaine This family comprises the glycine betaine/L-proline ATP binding subunit in bacteria and its equivalents in archaea

Probab=99.05  E-value=1.4e-09  Score=94.77  Aligned_cols=38  Identities=26%  Similarity=0.333  Sum_probs=30.6

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEE
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAY  153 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~  153 (264)
                      -+++|+++.|.||||+|||||+..++....+..|.+.+
T Consensus        46 ~i~~Ge~~~l~G~nGsGKSTLl~~L~Gl~~p~~G~i~i   83 (269)
T cd03294          46 DVREGEIFVIMGLSGSGKSTLLRCINRLIEPTSGKVLI   83 (269)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhcCCCCCCeEEEE
Confidence            47799999999999999999999888766555555543

This transport system belong to the larger ATP-Binding Cassette (ABC) transporter superfamily. The characteristic feature of these transporters is the obligatory coupling of ATP hydrolysis to substrate translocation. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>cd03232 ABC_PDR_domain2 The pleiotropic drug resistance-like (PDR) family of ATP-binding cassette (ABC) transporters

Probab=99.05  E-value=2.1e-09  Score=89.05  Aligned_cols=122  Identities=13%  Similarity=0.146  Sum_probs=77.1

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHh--hcCCeEEEEecCCCCCHHHHHHcCCCccceeEeCCCCHHHHHHH----
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQ--KLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSV----  189 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~--~~g~~v~~~~~e~~~~~~~~~~~g~~~~~l~~~~~~~~ee~~~~----  189 (264)
                      -+++|+++.|.||||+|||||+..++....  +..+.+ +++.+... ..+.+.+++.++...++...++.+.+..    
T Consensus        29 ~i~~Ge~~~l~G~nGsGKSTLl~~l~G~~~~~~~~G~i-~~~g~~~~-~~~~~~i~~~~q~~~~~~~~tv~~~l~~~~~~  106 (192)
T cd03232          29 YVKPGTLTALMGESGAGKTTLLDVLAGRKTAGVITGEI-LINGRPLD-KNFQRSTGYVEQQDVHSPNLTVREALRFSALL  106 (192)
T ss_pred             EEeCCcEEEEECCCCCCHHHHHHHHhCCCcCCCcceEE-EECCEehH-HHhhhceEEecccCccccCCcHHHHHHHHHHH
Confidence            478999999999999999999988876432  234444 44433211 2233456776665555444455544432    


Q ss_pred             -------------HHHHhhcCCccEEEEcCccccccccccCCCcCCCCcHHHHHHHHHHHHHHHHHHhccCcEEEEEccc
Q 024705          190 -------------VDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQV  256 (264)
Q Consensus       190 -------------i~~~~~~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r~i~~~L~~l~~~l~~~g~tVi~i~h~  256 (264)
                                   .+.+  -.+++++++|...+-..             ....+.+.+.++++    ++.|.|||+++|.
T Consensus       107 ~~LSgGe~qrv~la~al--~~~p~vlllDEP~~~LD-------------~~~~~~l~~~l~~~----~~~~~tiiivtH~  167 (192)
T cd03232         107 RGLSVEQRKRLTIGVEL--AAKPSILFLDEPTSGLD-------------SQAAYNIVRFLKKL----ADSGQAILCTIHQ  167 (192)
T ss_pred             hcCCHHHhHHHHHHHHH--hcCCcEEEEeCCCcCCC-------------HHHHHHHHHHHHHH----HHcCCEEEEEEcC
Confidence                         1111  24789999998776652             13344455566655    3458999999999


Q ss_pred             ch
Q 024705          257 KV  258 (264)
Q Consensus       257 ~~  258 (264)
                      .+
T Consensus       168 ~~  169 (192)
T cd03232         168 PS  169 (192)
T ss_pred             Ch
Confidence            76

PDR is a well-described phenomenon occurring in fungi and shares several similarities with processes in bacteria and higher eukaryotes. This PDR subfamily represents domain I of its (ABC-IM)2 organization. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>KOG2373 consensus Predicted mitochondrial DNA helicase twinkle [Replication, recombination and repair]

Probab=99.05  E-value=4.8e-10  Score=98.28  Aligned_cols=146  Identities=14%  Similarity=0.117  Sum_probs=101.1

Q ss_pred             CcHHHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCHH----HHHHcCCCccc-ee--
Q 024705          104 GSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPS----LAEAMGIDAEN-LL--  176 (264)
Q Consensus       104 G~~~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~~----~~~~~g~~~~~-l~--  176 (264)
                      -++.|+++|+  |..+|+++++.||.|+|||||+...+..++.+|-..+|-++|......    ..+-.|+...+ +.  
T Consensus       259 RFpvLNk~Lk--GhR~GElTvlTGpTGsGKTTFlsEYsLDL~~QGVnTLwgSFEi~n~rla~~mL~Qyagyrl~drl~~y  336 (514)
T KOG2373|consen  259 RFPVLNKYLK--GHRPGELTVLTGPTGSGKTTFLSEYSLDLFTQGVNTLWGSFEIPNKRLAHWMLVQYAGYRLLDRLNSY  336 (514)
T ss_pred             hhhHHHHHhc--cCCCCceEEEecCCCCCceeEehHhhHHHHhhhhhheeeeeecchHHHHHHHHHHHccCchHhhhhhh
Confidence            4678999996  999999999999999999999999999999999999999999875541    22334544321 10  


Q ss_pred             ----------------EeCCCCHHHHHHHHHHHhhcCCccEEEEcCccccccccccCCCcCCCCcHHHHHHHHHHHHHHH
Q 024705          177 ----------------IAQPDSAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIH  240 (264)
Q Consensus       177 ----------------~~~~~~~ee~~~~i~~~~~~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r~i~~~L~~l~  240 (264)
                                      +......+..++.+...+--+++.-||||.++-++....+....     -..+..+...+++++
T Consensus       337 ~HWadrFErlplyfmtfhgqq~~~~vi~~i~ha~yV~di~HViIDNLQFmmg~~~~~~Dr-----f~~QD~iig~fR~fA  411 (514)
T KOG2373|consen  337 KHWADRFERLPLYFMTFHGQQFMEKVINEIAHAIYVEDIQHVIIDNLQFMMGQGMMALDR-----FHLQDRIIGYFRQFA  411 (514)
T ss_pred             hHHHHHHhccchHhhhhcccchHHHHHHHHHHHHHHHhhhhhhhhhHHHHhccchhccch-----hhhHHHHHHHHHHHh
Confidence                            11111233344444444333568889999999998643332211     122233556677777


Q ss_pred             HHHhccCcEEEEEcccchH
Q 024705          241 YSLCQSHTLIIFLNQVKVL  259 (264)
Q Consensus       241 ~~l~~~g~tVi~i~h~~~~  259 (264)
                         .+.||.|-++-|.+++
T Consensus       412 ---T~nn~HvTlVvHPRKe  427 (514)
T KOG2373|consen  412 ---TQNNIHVTLVVHPRKE  427 (514)
T ss_pred             ---hccceeEEEEeccccc
Confidence               9999999999998764

>cd03263 ABC_subfamily_A The ABCA subfamily mediates the transport of a variety of lipid compounds

Probab=99.04  E-value=2.3e-09  Score=90.44  Aligned_cols=61  Identities=20%  Similarity=0.197  Sum_probs=40.2

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCC-HHHHHHcCCCcccee
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALD-PSLAEAMGIDAENLL  176 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~-~~~~~~~g~~~~~l~  176 (264)
                      -+++|+++.|.||||+|||||+..++....+..+.+.+...+.... ..+.+.+++.+++..
T Consensus        24 ~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~~~~G~i~~~g~~~~~~~~~~~~~i~~v~q~~~   85 (220)
T cd03263          24 NVYKGEIFGLLGHNGAGKTTTLKMLTGELRPTSGTAYINGYSIRTDRKAARQSLGYCPQFDA   85 (220)
T ss_pred             EEcCCcEEEEECCCCCCHHHHHHHHhCCCCCCCcEEEECCEecccchHHHhhhEEEecCcCC
Confidence            3789999999999999999999888887655566555432221111 123344666655443

Mutations of members of ABCA subfamily are associated with human genetic diseases, such as, familial high-density lipoprotein (HDL) deficiency, neonatal surfactant deficiency, degenerative retinopathies, and congenital keratinization disorders. The ABCA1 protein is involved in disorders of cholesterol transport and high-density lipoprotein (HDL) biosynthesis. The ABCA4 (ABCR) protein transports vitamin A derivatives in the outer segments of photoreceptor cells, and therefore, performs a crucial step in the visual cycle. The ABCA genes are not present in yeast. However, evolutionary studies of ABCA genes indicate that they arose as transporters that subsequently duplicated and that certain sets of ABCA genes were lost in different eukaryotic lineages.

>TIGR01186 proV glycine betaine/L-proline transport ATP binding subunit

Probab=99.04  E-value=1.2e-09  Score=98.98  Aligned_cols=71  Identities=23%  Similarity=0.329  Sum_probs=49.2

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCC--CH-HH----HHHcCCCccceeEeCCCCHHHHH
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENAL--DP-SL----AEAMGIDAENLLIAQPDSAENLL  187 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~--~~-~~----~~~~g~~~~~l~~~~~~~~ee~~  187 (264)
                      -+++|+++.|.||||||||||+..++....+..+.+ +++.+...  .. .+    .+.+|+.+++..++...++.+.+
T Consensus        15 ~i~~Gei~~l~G~sGsGKSTLLr~L~Gl~~p~~G~I-~i~G~~i~~~~~~~~~~~rr~~i~~v~Q~~~l~~~~TV~eNi   92 (363)
T TIGR01186        15 AIAKGEIFVIMGLSGSGKSTTVRMLNRLIEPTAGQI-FIDGENIMKQSPVELREVRRKKIGMVFQQFALFPHMTILQNT   92 (363)
T ss_pred             EEcCCCEEEEECCCCChHHHHHHHHhCCCCCCceEE-EECCEECCcCCHHHHHHHHhCcEEEEECCCcCCCCCCHHHHH
Confidence            378999999999999999999988888776666665 44443222  11 12    44678888877666655655444

This model describes the glycine betaine/L-proline ATP binding subunit in bacteria and its equivalents in archaea. This transport system belong to the larger ATP-Binding Cassette (ABC) transporter superfamily. The characteristic feature of these transporter is the obligatory coupling of ATP hydrolysis to substrate translocation. The minimal configuration of bacterial ABC transport system: an ATPase or ATP binding subunit; An integral membrane protein; a hydrophilic polypetpide, which likely functions as substrate binding protein. Functionally, this transport system is involved in osmoregulation. Under conditions of stress, the organism recruits these transport system to accumulate glycine betaine and other solutes which offer osmo-protection. It has been demonstrated that glycine betaine uptake is accompanied by symport with sodium ions. The locus has been named variously as proU or opuA. A gene library from L.lact

>TIGR02211 LolD_lipo_ex lipoprotein releasing system, ATP-binding protein

Probab=99.04  E-value=1.8e-09  Score=91.12  Aligned_cols=38  Identities=32%  Similarity=0.390  Sum_probs=31.6

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEE
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAY  153 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~  153 (264)
                      -+++|+++.|.||||+|||||+..++....+..+.+.|
T Consensus        27 ~i~~G~~~~i~G~nGsGKSTLl~~i~G~~~~~~G~i~~   64 (221)
T TIGR02211        27 SIGKGEIVAIVGSSGSGKSTLLHLLGGLDNPTSGEVLF   64 (221)
T ss_pred             EEcCCcEEEEECCCCCCHHHHHHHHhCCCCCCCcEEEE
Confidence            47899999999999999999999988876555665544

This model represents LolD, a member of the ABC transporter family (pfam00005). LolD is involved in localization of lipoproteins in some bacteria. It works with a transmembrane protein LolC, which in some species is a paralogous pair LolC and LolE. Depending on whether the residue immediately following the new, modified N-terminal Cys residue, the nascent lipoprotein may be carried further by LolA and LolB to the outer membrane, or remain at the inner membrane. The top scoring proteins excluded by this model include homologs from the archaeal genus Methanosarcina.

>PRK11248 tauB taurine transporter ATP-binding subunit; Provisional

Probab=99.04  E-value=1.3e-09  Score=94.35  Aligned_cols=38  Identities=24%  Similarity=0.272  Sum_probs=30.9

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEE
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAY  153 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~  153 (264)
                      -+++|+++.|.||||+|||||+..++....+..+.+.|
T Consensus        23 ~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~p~~G~i~~   60 (255)
T PRK11248         23 TLESGELLVVLGPSGCGKTTLLNLIAGFVPYQHGSITL   60 (255)
T ss_pred             EECCCCEEEEECCCCCCHHHHHHHHhCCCCCCCcEEEE
Confidence            47899999999999999999999888766555555543

>COG3638 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=99.04  E-value=2.1e-09  Score=89.97  Aligned_cols=141  Identities=16%  Similarity=0.159  Sum_probs=86.6

Q ss_pred             ccCcHHHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCC-CCCH-----HHHHHcCCCccce
Q 024705          102 STGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVEN-ALDP-----SLAEAMGIDAENL  175 (264)
Q Consensus       102 ~tG~~~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~-~~~~-----~~~~~~g~~~~~l  175 (264)
                      |.|-..|+.+-=  -+++|+++.|.||+|+|||||+.++........+ -+++...+ ..-.     .+.+.+|+-.+.+
T Consensus        14 p~~~~aL~~Vnl--~I~~GE~VaiIG~SGaGKSTLLR~lngl~d~t~G-~i~~~g~~i~~~~~k~lr~~r~~iGmIfQ~~   90 (258)
T COG3638          14 PGGHQALKDVNL--EINQGEMVAIIGPSGAGKSTLLRSLNGLVDPTSG-EILFNGVQITKLKGKELRKLRRDIGMIFQQF   90 (258)
T ss_pred             CCCceeeeeEeE--EeCCCcEEEEECCCCCcHHHHHHHHhcccCCCcc-eEEecccchhccchHHHHHHHHhceeEeccC
Confidence            345555555432  5889999999999999999999998885544444 44444432 2221     3456688877765


Q ss_pred             eEeCCCCHHHHH------------------------------------------------------HHHHHHhhcCCccE
Q 024705          176 LIAQPDSAENLL------------------------------------------------------SVVDTLTKSGSIDV  201 (264)
Q Consensus       176 ~~~~~~~~ee~~------------------------------------------------------~~i~~~~~~~~~~~  201 (264)
                      .+++..++-+.+                                                      .+.+.++  .++++
T Consensus        91 nLv~r~sv~~NVl~grl~~~s~~~slfglfsk~dk~~Al~aLervgi~~~A~qra~~LSGGQQQRVaIARaL~--Q~pki  168 (258)
T COG3638          91 NLVPRLSVLENVLLGRLGYTSTWRSLFGLFSKEDKAQALDALERVGILDKAYQRASTLSGGQQQRVAIARALV--QQPKI  168 (258)
T ss_pred             CcccccHHHHHHHhhhcccchHHHHHhCCCCHHHHHHHHHHHHHcCcHHHHHHHhccCCcchhHHHHHHHHHh--cCCCE
Confidence            444332211111                                                      1112221  35677


Q ss_pred             EEEcCccccccccccCCCcCCCCcHHHHHHHHHHHHHHHHHHhccCcEEEEEcccchHhhhc
Q 024705          202 IVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVKVLLLKH  263 (264)
Q Consensus       202 vvIDsl~~~~~~~~~~~~~~~~~~~~q~r~i~~~L~~l~~~l~~~g~tVi~i~h~~~~~~~~  263 (264)
                      +.-|...+.+             +....+.+...|+++.   ++.|+|||+.-|..+-.-+.
T Consensus       169 ILADEPvasL-------------Dp~~a~~Vm~~l~~in---~~~g~Tvi~nLH~vdlA~~Y  214 (258)
T COG3638         169 ILADEPVASL-------------DPESAKKVMDILKDIN---QEDGITVIVNLHQVDLAKKY  214 (258)
T ss_pred             EecCCccccc-------------ChhhHHHHHHHHHHHH---HHcCCEEEEEechHHHHHHH
Confidence            7777655443             2234455666777776   88999999999987655443

>TIGR02142 modC_ABC molybdenum ABC transporter, ATP-binding protein

Probab=99.04  E-value=1.3e-09  Score=98.60  Aligned_cols=38  Identities=32%  Similarity=0.402  Sum_probs=30.9

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEE
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAY  153 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~  153 (264)
                      -+++|+++.|.||||||||||+..++....+..+.+.+
T Consensus        19 ~i~~Gei~~l~G~nGsGKSTLl~~iaGl~~p~~G~I~~   56 (354)
T TIGR02142        19 TLPGQGVTAIFGRSGSGKTTLIRLIAGLTRPDEGEIVL   56 (354)
T ss_pred             EECCCCEEEEECCCCCCHHHHHHHHhCCCCCCceEEEE
Confidence            37899999999999999999998888766555555544

This model represents the ATP-binding cassette (ABC) protein of the three subunit molybdate ABC transporter. The three proteins of this complex are homologous to proteins of the sulfate ABC transporter. Molybdenum may be used in nitrogenases of nitrogen-fixing bacteria and in molybdopterin cofactors. In some cases, molybdate may be transported by a sulfate transporter rather than by a specific molybdate transporter.

>PRK10584 putative ABC transporter ATP-binding protein YbbA; Provisional

Probab=99.04  E-value=2.2e-09  Score=91.09  Aligned_cols=38  Identities=21%  Similarity=0.310  Sum_probs=30.8

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEE
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAY  153 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~  153 (264)
                      -+++|+++.|.||||+|||||+..++....+..+.+.|
T Consensus        32 ~i~~Ge~~~i~G~nGsGKSTLl~~i~Gl~~p~~G~i~~   69 (228)
T PRK10584         32 VVKRGETIALIGESGSGKSTLLAILAGLDDGSSGEVSL   69 (228)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHHcCCCCCCeeEEE
Confidence            36799999999999999999999888766555555543

>cd00267 ABC_ATPase ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules

Probab=99.04  E-value=2.6e-09  Score=85.48  Aligned_cols=120  Identities=19%  Similarity=0.233  Sum_probs=75.1

Q ss_pred             CCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCC---HHHHHHcCCCccceeEeCCCCHHH--HHHHHH
Q 024705          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALD---PSLAEAMGIDAENLLIAQPDSAEN--LLSVVD  191 (264)
Q Consensus       117 l~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~---~~~~~~~g~~~~~l~~~~~~~~ee--~~~~i~  191 (264)
                      +++|+++.|.|+||+|||||+..++.......+.+ +++......   ..+...+++.++       .+.-+  .+...+
T Consensus        22 i~~g~~~~i~G~nGsGKStll~~l~g~~~~~~G~i-~~~~~~~~~~~~~~~~~~i~~~~q-------lS~G~~~r~~l~~   93 (157)
T cd00267          22 LKAGEIVALVGPNGSGKSTLLRAIAGLLKPTSGEI-LIDGKDIAKLPLEELRRRIGYVPQ-------LSGGQRQRVALAR   93 (157)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhCCCCCCccEE-EECCEEcccCCHHHHHhceEEEee-------CCHHHHHHHHHHH
Confidence            67999999999999999999998887665444544 555432221   122233444333       33332  233334


Q ss_pred             HHhhcCCccEEEEcCccccccccccCCCcCCCCcHHHHHHHHHHHHHHHHHHhccCcEEEEEcccchHhhhc
Q 024705          192 TLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVKVLLLKH  263 (264)
Q Consensus       192 ~~~~~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r~i~~~L~~l~~~l~~~g~tVi~i~h~~~~~~~~  263 (264)
                      .+.  .+++++++|+...-...             .....+.+.+.++.   . .+.++++++|..+.+...
T Consensus        94 ~l~--~~~~i~ilDEp~~~lD~-------------~~~~~l~~~l~~~~---~-~~~tii~~sh~~~~~~~~  146 (157)
T cd00267          94 ALL--LNPDLLLLDEPTSGLDP-------------ASRERLLELLRELA---E-EGRTVIIVTHDPELAELA  146 (157)
T ss_pred             HHh--cCCCEEEEeCCCcCCCH-------------HHHHHHHHHHHHHH---H-CCCEEEEEeCCHHHHHHh
Confidence            443  46899999987765521             22333455555553   3 379999999998887653

The nucleotide-binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>cd03267 ABC_NatA_like Similar in sequence to NatA, this is the ATPase component of a bacterial ABC-type Na+ transport system called NatAB, which catalyzes ATP-dependent electrogenic Na+ extrusion without mechanically coupled to proton or K+ uptake

Probab=99.03  E-value=1.8e-09  Score=92.32  Aligned_cols=38  Identities=29%  Similarity=0.289  Sum_probs=30.6

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEE
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAY  153 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~  153 (264)
                      -+++|+++.|.||||+|||||+..++....+..+.+.+
T Consensus        43 ~i~~Ge~~~i~G~NGsGKSTLl~~i~Gl~~p~~G~i~~   80 (236)
T cd03267          43 TIEKGEIVGFIGPNGAGKTTTLKILSGLLQPTSGEVRV   80 (236)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhCCcCCCceEEEE
Confidence            36799999999999999999999988766555554443

NatB possess six putative membrane spanning regions at its C-terminus. In B. subtilis, NatAB is inducible by agents such as ethanol and protonophores, which lower the protonmotive force across the membrane. The closest sequence similarity to NatA is exhibited by DrrA of the two-component daunomycin- and doxorubicin-efflux system. Hence, the functional NatAB is presumably assembled with two copies of the single ATP-binding protein and the single intergral membrane protein.

>cd03299 ABC_ModC_like Archeal protein closely related to ModC

Probab=99.03  E-value=1.9e-09  Score=92.02  Aligned_cols=37  Identities=22%  Similarity=0.246  Sum_probs=29.8

Q ss_pred             CCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEE
Q 024705          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAY  153 (264)
Q Consensus       117 l~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~  153 (264)
                      +.+|+++.|.||||+|||||+..++....+..+.+.+
T Consensus        22 i~~Ge~~~i~G~nG~GKStLl~~l~G~~~p~~G~v~i   58 (235)
T cd03299          22 VERGDYFVILGPTGSGKSVLLETIAGFIKPDSGKILL   58 (235)
T ss_pred             EcCCcEEEEECCCCCCHHHHHHHHhCCcCCCceEEEE
Confidence            6799999999999999999999887765555554433

ModC is an ABC-type transporter and the ATPase component of a molybdate transport system that also includes the periplasmic binding protein ModA and the membrane protein ModB. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>cd03257 ABC_NikE_OppD_transporters The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE)

Probab=99.03  E-value=1.9e-09  Score=91.36  Aligned_cols=38  Identities=26%  Similarity=0.446  Sum_probs=31.3

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEE
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAY  153 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~  153 (264)
                      -+++|+++.|.||||+|||||+..++....+..+.+.+
T Consensus        27 ~i~~Ge~~~i~G~nGsGKSTLl~~l~G~~~~~~G~i~~   64 (228)
T cd03257          27 SIKKGETLGLVGESGSGKSTLARAILGLLKPTSGSIIF   64 (228)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhCCCCCCCceEEE
Confidence            47899999999999999999998888876555565544

The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane components (NikB and NikC), and two ATPase (NikD and NikE). The NikABCDE transporter is synthesized under anaerobic conditions to meet the increased demand for nickel resulting from hydrogenase synthesis. The molecular mechanism of nickel uptake in many bacteria and most archaea is not known. Many other members of this ABC family are also involved in the uptake of dipeptides and oligopeptides. The oligopeptide transport system (Opp) is a five-component ABC transport composed of a membrane-anchored substrate binding proteins (SRP), OppA, two transmembrane proteins, OppB and OppC, and two ATP-binding domains, OppD and OppF.

>TIGR01184 ntrCD nitrate transport ATP-binding subunits C and D

Probab=99.03  E-value=2.5e-09  Score=91.07  Aligned_cols=37  Identities=24%  Similarity=0.362  Sum_probs=30.6

Q ss_pred             CCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEE
Q 024705          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAY  153 (264)
Q Consensus       117 l~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~  153 (264)
                      +++|+++.|.||||+|||||+..++....+..+.+.+
T Consensus         8 i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~p~~G~i~~   44 (230)
T TIGR01184         8 IQQGEFISLIGHSGCGKSTLLNLISGLAQPTSGGVIL   44 (230)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhCCCCCCCceEEE
Confidence            6799999999999999999999988776555565544

This model describes the ATP binding subunits of nitrate transport in bacteria and archaea. This protein belongs to the ATP-binding cassette (ABC) superfamily. It is thought that the two subunits encoded by ntrC and ntrD form the binding surface for interaction with ATP. This model is restricted in identifying ATP binding subunit associated with the nitrate transport. Nitrate assimilation is aided by other proteins derived from the operon which among others include products of ntrA - a regulatory protein; ntrB - a hydropbobic transmembrane permease and narB - a reductase.

>PRK13650 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=99.03  E-value=1.9e-09  Score=94.49  Aligned_cols=59  Identities=17%  Similarity=0.135  Sum_probs=39.8

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCC-C-HHHHHHcCCCccc
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENAL-D-PSLAEAMGIDAEN  174 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~-~-~~~~~~~g~~~~~  174 (264)
                      -+++|+++.|.||||+|||||+..++....+..|.+.+.+.+... . ..+.+.+|+.+++
T Consensus        29 ~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~p~~G~i~~~g~~i~~~~~~~~~~~i~~v~q~   89 (279)
T PRK13650         29 HVKQGEWLSIIGHNGSGKSTTVRLIDGLLEAESGQIIIDGDLLTEENVWDIRHKIGMVFQN   89 (279)
T ss_pred             EEeCCCEEEEECCCCCCHHHHHHHHhcCCCCCCcEEEECCEECCcCcHHHHHhhceEEEcC
Confidence            478999999999999999999998887665555655443322211 1 1334556766654

>COG1124 DppF ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]

Probab=99.03  E-value=1.9e-09  Score=90.64  Aligned_cols=130  Identities=15%  Similarity=0.214  Sum_probs=78.7

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCH----HHHHHcCCCcccee------------EeC
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP----SLAEAMGIDAENLL------------IAQ  179 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~----~~~~~~g~~~~~l~------------~~~  179 (264)
                      -+.+|+.+.|.|++||||||++..++.-..+..|. ++++.......    .+.+.+.+.+|+.+            +..
T Consensus        29 ~i~~Ge~lgivGeSGsGKSTL~r~l~Gl~~p~~G~-I~~~G~~~~~~~~~~~~~~~VQmVFQDp~~SLnP~~tv~~~l~E  107 (252)
T COG1124          29 EIERGETLGIVGESGSGKSTLARLLAGLEKPSSGS-ILLDGKPLAPKKRAKAFYRPVQMVFQDPYSSLNPRRTVGRILSE  107 (252)
T ss_pred             EecCCCEEEEEcCCCCCHHHHHHHHhcccCCCCce-EEECCcccCccccchhhccceeEEecCCccccCcchhHHHHHhh
Confidence            37899999999999999999999888766554444 44544322221    12222222222110            000


Q ss_pred             C---------------------------------CCHH--HHHHHHHHHhhcCCccEEEEcCccccccccccCCCcCCCC
Q 024705          180 P---------------------------------DSAE--NLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMY  224 (264)
Q Consensus       180 ~---------------------------------~~~e--e~~~~i~~~~~~~~~~~vvIDsl~~~~~~~~~~~~~~~~~  224 (264)
                      +                                 .+.-  +-+.+++.+  .-+|++++.|...+....           
T Consensus       108 pl~~~~~~~~~~~i~~~L~~VgL~~~~l~R~P~eLSGGQ~QRiaIARAL--~~~PklLIlDEptSaLD~-----------  174 (252)
T COG1124         108 PLRPHGLSKSQQRIAELLDQVGLPPSFLDRRPHELSGGQRQRIAIARAL--IPEPKLLILDEPTSALDV-----------  174 (252)
T ss_pred             hhccCCccHHHHHHHHHHHHcCCCHHHHhcCchhcChhHHHHHHHHHHh--ccCCCEEEecCchhhhcH-----------
Confidence            0                                 0111  111222333  247899999987776621           


Q ss_pred             cHHHHHHHHHHHHHHHHHHhccCcEEEEEcccchHhhhcC
Q 024705          225 SDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVKVLLLKHF  264 (264)
Q Consensus       225 ~~~q~r~i~~~L~~l~~~l~~~g~tVi~i~h~~~~~~~~~  264 (264)
                        .-+..+.+.|.++.   +++|.|.|+|+|..+-++..|
T Consensus       175 --siQa~IlnlL~~l~---~~~~lt~l~IsHdl~~v~~~c  209 (252)
T COG1124         175 --SVQAQILNLLLELK---KERGLTYLFISHDLALVEHMC  209 (252)
T ss_pred             --HHHHHHHHHHHHHH---HhcCceEEEEeCcHHHHHHHh
Confidence              33334667777777   889999999999998877654

>cd03247 ABCC_cytochrome_bd The CYD subfamily implicated in cytochrome bd biogenesis

Probab=99.03  E-value=2.1e-09  Score=87.90  Aligned_cols=124  Identities=15%  Similarity=0.237  Sum_probs=79.3

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCC--CHHHHHHcCCCccceeEeCCCCHHHH-------
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENAL--DPSLAEAMGIDAENLLIAQPDSAENL-------  186 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~--~~~~~~~~g~~~~~l~~~~~~~~ee~-------  186 (264)
                      -+++|+++.|.||||+|||||+..++....+..+.+. ++.....  ...+.+.+++.+++..+.. .++.+.       
T Consensus        24 ~i~~Ge~~~i~G~nGsGKStLl~~l~G~~~~~~G~i~-~~g~~~~~~~~~~~~~i~~~~q~~~~~~-~tv~~~i~~~LS~  101 (178)
T cd03247          24 ELKQGEKIALLGRSGSGKSTLLQLLTGDLKPQQGEIT-LDGVPVSDLEKALSSLISVLNQRPYLFD-TTLRNNLGRRFSG  101 (178)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhccCCCCCCEEE-ECCEEHHHHHHHHHhhEEEEccCCeeec-ccHHHhhcccCCH
Confidence            4789999999999999999999999887666566654 4432111  1123445677666655443 233322       


Q ss_pred             -----HHHHHHHhhcCCccEEEEcCccccccccccCCCcCCCCcHHHHHHHHHHHHHHHHHHhccCcEEEEEcccchHhh
Q 024705          187 -----LSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVKVLLL  261 (264)
Q Consensus       187 -----~~~i~~~~~~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r~i~~~L~~l~~~l~~~g~tVi~i~h~~~~~~  261 (264)
                           +...+.++  .+++++++|....-...             ...+.+.+.++++    ++ +.+||+++|..+.++
T Consensus       102 G~~qrv~laral~--~~p~~lllDEP~~~LD~-------------~~~~~l~~~l~~~----~~-~~tii~~sh~~~~~~  161 (178)
T cd03247         102 GERQRLALARILL--QDAPIVLLDEPTVGLDP-------------ITERQLLSLIFEV----LK-DKTLIWITHHLTGIE  161 (178)
T ss_pred             HHHHHHHHHHHHh--cCCCEEEEECCcccCCH-------------HHHHHHHHHHHHH----cC-CCEEEEEecCHHHHH
Confidence                 22233333  58899999987766521             2334444555544    33 799999999988764

The CydC and CydD proteins are important for the formation of cytochrome bd terminal oxidase of E. coli and it has been proposed that they were necessary for biosynthesis of the cytochrome bd quinol oxidase and for periplasmic c-type cytochromes. CydCD were proposed to determine a heterooligomeric complex important for heme export into the periplasm or to be involved in the maintenance of the proper redox state of the periplasmic space. In Bacillus subtilius, the absence of CydCD does not affect the presence of halo-cytochrome c in the membrane and this observation suggests that CydCD proteins are not involved in the export of heme in this organism.

>PRK13635 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=99.03  E-value=2.1e-09  Score=94.26  Aligned_cols=59  Identities=22%  Similarity=0.186  Sum_probs=40.4

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCC--HHHHHHcCCCccc
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALD--PSLAEAMGIDAEN  174 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~--~~~~~~~g~~~~~  174 (264)
                      -+.+|+++.|.||||+|||||+..++....+..|.+.+-+.+....  ..+.+.+|+.+++
T Consensus        29 ~i~~Ge~~~i~G~nGaGKSTLl~~i~G~~~p~~G~i~~~g~~i~~~~~~~~~~~i~~~~q~   89 (279)
T PRK13635         29 SVYEGEWVAIVGHNGSGKSTLAKLLNGLLLPEAGTITVGGMVLSEETVWDVRRQVGMVFQN   89 (279)
T ss_pred             EEcCCCEEEEECCCCCcHHHHHHHHhcCCCCCCcEEEECCEECCcCcHHHHhhheEEEEeC
Confidence            4789999999999999999999888877666666665543322211  1234456666554

>PRK11831 putative ABC transporter ATP-binding protein YrbF; Provisional

Probab=99.03  E-value=2.1e-09  Score=93.63  Aligned_cols=38  Identities=29%  Similarity=0.397  Sum_probs=31.0

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEE
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAY  153 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~  153 (264)
                      -+++|+++.|.||||+|||||+..++....+..+.+.+
T Consensus        29 ~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~p~~G~i~~   66 (269)
T PRK11831         29 TVPRGKITAIMGPSGIGKTTLLRLIGGQIAPDHGEILF   66 (269)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhCCCCCCCceEEE
Confidence            37899999999999999999999888776555555544

>cd03231 ABC_CcmA_heme_exporter CcmA, the ATP-binding component of the bacterial CcmAB transporter

Probab=99.02  E-value=3e-09  Score=88.68  Aligned_cols=37  Identities=30%  Similarity=0.387  Sum_probs=30.4

Q ss_pred             CCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEE
Q 024705          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAY  153 (264)
Q Consensus       117 l~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~  153 (264)
                      +++|+++.|.|+||+|||||+..++....+..+.+.+
T Consensus        23 i~~Ge~~~i~G~nGsGKSTLl~~l~G~~~~~~G~i~~   59 (201)
T cd03231          23 LAAGEALQVTGPNGSGKTTLLRILAGLSPPLAGRVLL   59 (201)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhCCCCCCCcEEEE
Confidence            7899999999999999999988888766555555543

The CCM family is involved in bacterial cytochrome c biogenesis. Cytochrome c maturation in E. coli requires the ccm operon, which encodes eight membrane proteins (CcmABCDEFGH). CcmE is a periplasmic heme chaperone that binds heme covalently and transfers it onto apocytochrome c in the presence of CcmF, CcmG, and CcmH. The CcmAB proteins represent an ABC transporter and the CcmCD proteins participate in heme transfer to CcmE.

>cd03297 ABC_ModC_molybdenum_transporter ModC is an ABC-type transporter and the ATPase component of a molybdate transport system that also includes the periplasmic binding protein ModA and the membrane protein ModB

Probab=99.02  E-value=2.2e-09  Score=90.33  Aligned_cols=36  Identities=25%  Similarity=0.396  Sum_probs=29.6

Q ss_pred             CCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEE
Q 024705          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAY  153 (264)
Q Consensus       117 l~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~  153 (264)
                      +.+ +++.|.||||+|||||+..++....+..+.+.+
T Consensus        21 i~~-e~~~i~G~nGsGKSTLl~~l~G~~~~~~G~i~~   56 (214)
T cd03297          21 LNE-EVTGIFGASGAGKSTLLRCIAGLEKPDGGTIVL   56 (214)
T ss_pred             Ecc-eeEEEECCCCCCHHHHHHHHhCCCCCCCceEEE
Confidence            678 999999999999999999888766555666544

ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PRK11264 putative amino-acid ABC transporter ATP-binding protein YecC; Provisional

Probab=99.02  E-value=2.9e-09  Score=91.63  Aligned_cols=38  Identities=32%  Similarity=0.321  Sum_probs=30.7

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEE
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAY  153 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~  153 (264)
                      -+++|+++.|.||||+|||||+..++....+..+.+.+
T Consensus        25 ~i~~Ge~~~i~G~nGsGKSTLl~~l~G~~~~~~G~i~~   62 (250)
T PRK11264         25 EVKPGEVVAIIGPSGSGKTTLLRCINLLEQPEAGTIRV   62 (250)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhcCCCCCCeEEEE
Confidence            47899999999999999999999888765554555543

>PRK13538 cytochrome c biogenesis protein CcmA; Provisional

Probab=99.02  E-value=3.1e-09  Score=88.82  Aligned_cols=38  Identities=29%  Similarity=0.369  Sum_probs=31.5

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEE
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAY  153 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~  153 (264)
                      -+++|+++.|.||||+|||||+..++....+..+.+.|
T Consensus        23 ~i~~Ge~~~l~G~nGsGKSTLl~~l~G~~~p~~G~v~~   60 (204)
T PRK13538         23 TLNAGELVQIEGPNGAGKTSLLRILAGLARPDAGEVLW   60 (204)
T ss_pred             EECCCcEEEEECCCCCCHHHHHHHHhCCCCCCCcEEEE
Confidence            47899999999999999999999888876666666544

>COG0411 LivG ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]

Probab=99.02  E-value=7.7e-10  Score=93.03  Aligned_cols=141  Identities=16%  Similarity=0.169  Sum_probs=87.1

Q ss_pred             CcHHHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCC-HHHHHHcCC--CccceeEeCC
Q 024705          104 GSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALD-PSLAEAMGI--DAENLLIAQP  180 (264)
Q Consensus       104 G~~~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~-~~~~~~~g~--~~~~l~~~~~  180 (264)
                      |+..+|..-=  .+++|+++.|+||||+||||+...+.....+.++.+.|-..+...- +....+.|+  ..|+..+++.
T Consensus        16 Gl~Al~~Vsl--~v~~Gei~~LIGPNGAGKTTlfNlitG~~~P~~G~v~~~G~~it~l~p~~iar~Gi~RTFQ~~rlF~~   93 (250)
T COG0411          16 GLTAVNDVSL--EVRPGEIVGLIGPNGAGKTTLFNLITGFYKPSSGTVIFRGRDITGLPPHRIARLGIARTFQITRLFPG   93 (250)
T ss_pred             CEEEEeceeE--EEcCCeEEEEECCCCCCceeeeeeecccccCCCceEEECCcccCCCCHHHHHhccceeecccccccCC
Confidence            3444554432  5889999999999999999988777777777777776655444322 233334444  2343333332


Q ss_pred             CCHHHH----------------------------------------------------------HHHHHHHhhcCCccEE
Q 024705          181 DSAENL----------------------------------------------------------LSVVDTLTKSGSIDVI  202 (264)
Q Consensus       181 ~~~ee~----------------------------------------------------------~~~i~~~~~~~~~~~v  202 (264)
                      .++.|.                                                          +++.+.+.  .+|+++
T Consensus        94 lTVlENv~va~~~~~~~~~~l~~~~~~~~e~~~~e~A~~~Le~vgL~~~a~~~A~~LsyG~qR~LEIArALa--~~P~lL  171 (250)
T COG0411          94 LTVLENVAVGAHARLGLSGLLGRPRARKEEREARERARELLEFVGLGELADRPAGNLSYGQQRRLEIARALA--TQPKLL  171 (250)
T ss_pred             CcHHHHHHHHhhhhhhhhhhhccccchhhHHHHHHHHHHHHHHcCCchhhcchhhcCChhHhHHHHHHHHHh--cCCCEE
Confidence            222211                                                          11122221  467888


Q ss_pred             EEcCccccccccccCCCcCCCCcHHHHHHHHHHHHHHHHHHhccCcEEEEEcccchHhhhcC
Q 024705          203 VVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVKVLLLKHF  264 (264)
Q Consensus       203 vIDsl~~~~~~~~~~~~~~~~~~~~q~r~i~~~L~~l~~~l~~~g~tVi~i~h~~~~~~~~~  264 (264)
                      ++|...+=+..             .....+...++++.   ++.|+||++|-|..+-+-..|
T Consensus       172 LLDEPaAGln~-------------~e~~~l~~~i~~i~---~~~g~tillIEHdM~~Vm~l~  217 (250)
T COG0411         172 LLDEPAAGLNP-------------EETEELAELIRELR---DRGGVTILLIEHDMKLVMGLA  217 (250)
T ss_pred             EecCccCCCCH-------------HHHHHHHHHHHHHH---hcCCcEEEEEEeccHHHhhhc
Confidence            88877665532             34455667777775   668899999999998765543

>TIGR00968 3a0106s01 sulfate ABC transporter, ATP-binding protein

Probab=99.02  E-value=2.3e-09  Score=91.63  Aligned_cols=36  Identities=31%  Similarity=0.424  Sum_probs=30.1

Q ss_pred             CCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEE
Q 024705          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCA  152 (264)
Q Consensus       117 l~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~  152 (264)
                      +.+|+++.|.||||+|||||+..++.......+.+.
T Consensus        23 i~~Ge~~~l~G~nGsGKSTLl~~i~G~~~~~~G~i~   58 (237)
T TIGR00968        23 VPTGSLVALLGPSGSGKSTLLRIIAGLEQPDSGRIR   58 (237)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhcCCCCCceEEE
Confidence            779999999999999999999999876655555553

>cd03238 ABC_UvrA The excision repair protein UvrA; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion

Probab=99.02  E-value=8.1e-09  Score=84.35  Aligned_cols=124  Identities=13%  Similarity=0.174  Sum_probs=71.3

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCC---------HHHHHHcCCCccce-eEeCCCCHH-
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALD---------PSLAEAMGIDAENL-LIAQPDSAE-  184 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~---------~~~~~~~g~~~~~l-~~~~~~~~e-  184 (264)
                      -+++|+++.|.||||||||||+..+..    ..+.+.+........         ....+.+|+..... ......+.. 
T Consensus        17 ~i~~G~~~~l~G~nG~GKSTLl~~il~----~~G~v~~~~~~~~~~~~~~~~~~q~~~l~~~~L~~~~~~~~~~~LSgGq   92 (176)
T cd03238          17 SIPLNVLVVVTGVSGSGKSTLVNEGLY----ASGKARLISFLPKFSRNKLIFIDQLQFLIDVGLGYLTLGQKLSTLSGGE   92 (176)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhh----cCCcEEECCcccccccccEEEEhHHHHHHHcCCCccccCCCcCcCCHHH
Confidence            378999999999999999999987642    223333221110000         12344455432110 011122222 


Q ss_pred             -HHHHHHHHHhhcCCccEEEEcCccccccccccCCCcCCCCcHHHHHHHHHHHHHHHHHHhccCcEEEEEcccchHh
Q 024705          185 -NLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVKVLL  260 (264)
Q Consensus       185 -e~~~~i~~~~~~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r~i~~~L~~l~~~l~~~g~tVi~i~h~~~~~  260 (264)
                       ..+...+.+....+++++++|+...-...             ...+.+.+.++++    ++.|.+||+++|..+.+
T Consensus        93 ~qrl~laral~~~~~p~llLlDEPt~~LD~-------------~~~~~l~~~l~~~----~~~g~tvIivSH~~~~~  152 (176)
T cd03238          93 LQRVKLASELFSEPPGTLFILDEPSTGLHQ-------------QDINQLLEVIKGL----IDLGNTVILIEHNLDVL  152 (176)
T ss_pred             HHHHHHHHHHhhCCCCCEEEEeCCcccCCH-------------HHHHHHHHHHHHH----HhCCCEEEEEeCCHHHH
Confidence             33444555554334999999988766531             3334455555555    34699999999998765

Recognition and cleavage of the damaged DNA is a multistep ATP-dependent reaction that requires the UvrA, UvrB, and UvrC proteins. Both UvrA and UvrB are ATPases, with UvrA having two ATP binding sites, which have the characteristic signature of the family of ABC proteins, and UvrB having one ATP binding site that is structurally related to that of helicases.

>cd03295 ABC_OpuCA_Osmoprotection OpuCA is a the ATP binding component of a bacterial solute transporter that serves a protective role to cells growing in a hyperosmolar environment

Probab=99.02  E-value=3.1e-09  Score=91.08  Aligned_cols=67  Identities=22%  Similarity=0.299  Sum_probs=42.4

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCC--CH-HHHHHcCCCccceeEeCCCCH
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENAL--DP-SLAEAMGIDAENLLIAQPDSA  183 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~--~~-~~~~~~g~~~~~l~~~~~~~~  183 (264)
                      -+++|+++.|.||||+|||||+..++....+.++.+. ++.....  .. .....+++.+++..++...++
T Consensus        23 ~i~~Ge~~~i~G~nGsGKSTLl~~l~G~~~~~~G~i~-~~g~~~~~~~~~~~~~~i~~~~q~~~~~~~~tv   92 (242)
T cd03295          23 EIAKGEFLVLIGPSGSGKTTTMKMINRLIEPTSGEIF-IDGEDIREQDPVELRRKIGYVIQQIGLFPHMTV   92 (242)
T ss_pred             EECCCCEEEEECCCCCCHHHHHHHHhcCCCCCCceEE-ECCeEcCcCChHHhhcceEEEccCccccCCCcH
Confidence            4789999999999999999999988876655555554 4332211  11 223345665555444433333

ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition, to the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>COG4181 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]

Probab=99.01  E-value=2.9e-10  Score=90.84  Aligned_cols=126  Identities=18%  Similarity=0.207  Sum_probs=82.1

Q ss_pred             CCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCC-C-----HHHHHHcCCCccceeEeCCCCHHHHHHH-
Q 024705          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENAL-D-----PSLAEAMGIDAENLLIAQPDSAENLLSV-  189 (264)
Q Consensus       117 l~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~-~-----~~~~~~~g~~~~~l~~~~~~~~ee~~~~-  189 (264)
                      +.+|+.+.|+||+|||||||+..++..-...++.|.++...-.. +     ..|.+.+|+..|.+.+.+..+..|.+.. 
T Consensus        33 v~~Ge~vaiVG~SGSGKSTLl~vlAGLd~~ssGeV~l~G~~L~~ldEd~rA~~R~~~vGfVFQSF~Lip~ltAlENV~lP  112 (228)
T COG4181          33 VKRGETVAIVGPSGSGKSTLLAVLAGLDDPSSGEVRLLGQPLHKLDEDARAALRARHVGFVFQSFHLIPNLTALENVALP  112 (228)
T ss_pred             ecCCceEEEEcCCCCcHHhHHHHHhcCCCCCCceEEEcCcchhhcCHHHHHHhhccceeEEEEeeeccccchhhhhccch
Confidence            67999999999999999998877776555666777666543221 1     1467778999988877766554433211 


Q ss_pred             --------------HHHHh-----------------------------hcCCccEEEEcCccccccccccCCCcCCCCcH
Q 024705          190 --------------VDTLT-----------------------------KSGSIDVIVVDSVAALIPKCEIGVPINGMYSD  226 (264)
Q Consensus       190 --------------i~~~~-----------------------------~~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~  226 (264)
                                    .+.++                             -...|++++-|..+.-.             +.
T Consensus       113 leL~ge~~~~~~~~A~~lL~~vGLg~Rl~HyP~qLSGGEQQRVAiARAfa~~P~vLfADEPTGNL-------------D~  179 (228)
T COG4181         113 LELRGESSADSRAGAKALLEAVGLGKRLTHYPAQLSGGEQQRVALARAFAGRPDVLFADEPTGNL-------------DR  179 (228)
T ss_pred             hhhcCCccccHHHHHHHHHHHhCcccccccCccccCchHHHHHHHHHHhcCCCCEEeccCCCCCc-------------ch
Confidence                          11111                             01345566666544333             22


Q ss_pred             HHHHHHHHHHHHHHHHHhccCcEEEEEcccch
Q 024705          227 AQSRIMTQALRKIHYSLCQSHTLIIFLNQVKV  258 (264)
Q Consensus       227 ~q~r~i~~~L~~l~~~l~~~g~tVi~i~h~~~  258 (264)
                      .-.+.++..|..+.   ++.|+|+|+++|+..
T Consensus       180 ~Tg~~iaDLlF~ln---re~G~TlVlVTHD~~  208 (228)
T COG4181         180 ATGDKIADLLFALN---RERGTTLVLVTHDPQ  208 (228)
T ss_pred             hHHHHHHHHHHHHh---hhcCceEEEEeCCHH
Confidence            33344677888887   899999999999854

>PRK10070 glycine betaine transporter ATP-binding subunit; Provisional

Probab=99.01  E-value=1.8e-09  Score=98.96  Aligned_cols=72  Identities=15%  Similarity=0.176  Sum_probs=46.6

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCC-CCH-H----HHHHcCCCccceeEeCCCCHHHHH
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENA-LDP-S----LAEAMGIDAENLLIAQPDSAENLL  187 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~-~~~-~----~~~~~g~~~~~l~~~~~~~~ee~~  187 (264)
                      -+++|+++.|.||||||||||+..++....+..+.+.+-..+.. ... .    +.+.+|+.+++..++...++.+.+
T Consensus        50 ~i~~Gei~~LvG~NGsGKSTLLr~I~Gl~~p~sG~I~i~G~~i~~~~~~~l~~~~~~~igyv~Q~~~l~~~~Tv~enl  127 (400)
T PRK10070         50 AIEEGEIFVIMGLSGSGKSTMVRLLNRLIEPTRGQVLIDGVDIAKISDAELREVRRKKIAMVFQSFALMPHMTVLDNT  127 (400)
T ss_pred             EEcCCCEEEEECCCCchHHHHHHHHHcCCCCCCCEEEECCEECCcCCHHHHHHHHhCCEEEEECCCcCCCCCCHHHHH
Confidence            37899999999999999999998888776666666544332221 111 1    123577777765555444544443

>PRK11300 livG leucine/isoleucine/valine transporter ATP-binding subunit; Provisional

Probab=99.00  E-value=3.3e-09  Score=91.53  Aligned_cols=38  Identities=24%  Similarity=0.275  Sum_probs=31.2

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEE
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAY  153 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~  153 (264)
                      -+.+|+++.|.||||+|||||+..++....+..|.+.+
T Consensus        27 ~i~~Ge~~~l~G~nGsGKSTLl~~l~Gl~~~~~G~i~~   64 (255)
T PRK11300         27 EVREQEIVSLIGPNGAGKTTVFNCLTGFYKPTGGTILL   64 (255)
T ss_pred             EEcCCeEEEEECCCCCCHHHHHHHHhCCcCCCcceEEE
Confidence            36799999999999999999999888876555565544

>TIGR03005 ectoine_ehuA ectoine/hydroxyectoine ABC transporter, ATP-binding protein

Probab=99.00  E-value=3.1e-09  Score=91.67  Aligned_cols=38  Identities=21%  Similarity=0.257  Sum_probs=31.0

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEE
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAY  153 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~  153 (264)
                      -+++|+++.|.||||+|||||+..++....+..+.+.+
T Consensus        22 ~i~~Ge~~~i~G~nGsGKSTLl~~l~G~~~~~~G~i~~   59 (252)
T TIGR03005        22 SVAAGEKVALIGPSGSGKSTILRILMTLEPIDEGQIQV   59 (252)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhCCCCCCceEEEE
Confidence            37899999999999999999999888766555555543

Members of this family are the ATP-binding protein of a conserved four gene ABC transporter operon found next to ectoine unilization operons and ectoine biosynthesis operons. Ectoine is a compatible solute that protects enzymes from high osmolarity. It is released by some species in response to hypoosmotic shock, and it is taken up by a number of bacteria as a compatible solute or for consumption. This family shows strong sequence similiarity to a number of amino acid ABC transporter ATP-binding proteins.

>PRK10908 cell division protein FtsE; Provisional

Probab=99.00  E-value=3.5e-09  Score=89.53  Aligned_cols=38  Identities=18%  Similarity=0.269  Sum_probs=30.6

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEE
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAY  153 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~  153 (264)
                      -+.+|+++.|.||||+|||||+..++....+..+.+.+
T Consensus        24 ~i~~Ge~~~i~G~nGsGKSTLl~~l~G~~~~~~G~i~~   61 (222)
T PRK10908         24 HMRPGEMAFLTGHSGAGKSTLLKLICGIERPSAGKIWF   61 (222)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhCCCCCCceEEEE
Confidence            47899999999999999999999988765545555443

>COG3840 ThiQ ABC-type thiamine transport system, ATPase component [Coenzyme metabolism]

Probab=99.00  E-value=7.6e-10  Score=89.25  Aligned_cols=46  Identities=26%  Similarity=0.339  Sum_probs=34.0

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCC
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALD  161 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~  161 (264)
                      -++.|+++.|.||+|+|||||+..++.-..+..+.+.+-+.+....
T Consensus        21 ~v~~ge~vAi~GpSGaGKSTLLnLIAGF~~P~~G~i~i~g~d~t~~   66 (231)
T COG3840          21 TVPAGEIVAILGPSGAGKSTLLNLIAGFETPASGEILINGVDHTAS   66 (231)
T ss_pred             eecCCcEEEEECCCCccHHHHHHHHHhccCCCCceEEEcCeecCcC
Confidence            3789999999999999999977666665556666555555554433

>PRK14250 phosphate ABC transporter ATP-binding protein; Provisional

Probab=99.00  E-value=2.4e-09  Score=91.75  Aligned_cols=37  Identities=24%  Similarity=0.289  Sum_probs=30.9

Q ss_pred             CCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEE
Q 024705          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAY  153 (264)
Q Consensus       117 l~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~  153 (264)
                      +.+|+++.|.||||||||||+..++....+..+.+.+
T Consensus        26 i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~p~~G~i~~   62 (241)
T PRK14250         26 FEGGAIYTIVGPSGAGKSTLIKLINRLIDPTEGSILI   62 (241)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhCCCCCCCcEEEE
Confidence            6799999999999999999999888866555565554

>PRK09493 glnQ glutamine ABC transporter ATP-binding protein; Reviewed

Probab=99.00  E-value=4.4e-09  Score=90.01  Aligned_cols=38  Identities=29%  Similarity=0.356  Sum_probs=30.9

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEE
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAY  153 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~  153 (264)
                      -+.+|+++.|.||||+|||||+..++....+..|.+.+
T Consensus        23 ~i~~Ge~~~l~G~nGsGKSTLl~~l~G~~~~~~G~i~~   60 (240)
T PRK09493         23 NIDQGEVVVIIGPSGSGKSTLLRCINKLEEITSGDLIV   60 (240)
T ss_pred             EEcCCcEEEEECCCCCCHHHHHHHHhCCCCCCceEEEE
Confidence            47899999999999999999999888866555555443

>cd00544 CobU Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU)

Probab=98.99  E-value=2e-09  Score=87.29  Aligned_cols=120  Identities=19%  Similarity=0.352  Sum_probs=71.7

Q ss_pred             EEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCHHHHHHcCC----CccceeEeCCCCHHHHHHHHHHHhhcC
Q 024705          122 IVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGI----DAENLLIAQPDSAENLLSVVDTLTKSG  197 (264)
Q Consensus       122 ~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~~~~~~~g~----~~~~l~~~~~~~~ee~~~~i~~~~~~~  197 (264)
                      +++|+|++|||||+|+.+++..   .+++++|+......+.+..+++.-    .+......  ....++.+.+...   .
T Consensus         1 ~~li~G~~~sGKS~~a~~~~~~---~~~~~~y~at~~~~d~em~~rI~~H~~~R~~~w~t~--E~~~~l~~~l~~~---~   72 (169)
T cd00544           1 IILVTGGARSGKSRFAERLAAE---LGGPVTYIATAEAFDDEMAERIARHRKRRPAHWRTI--ETPRDLVSALKEL---D   72 (169)
T ss_pred             CEEEECCCCCCHHHHHHHHHHh---cCCCeEEEEccCcCCHHHHHHHHHHHHhCCCCceEe--ecHHHHHHHHHhc---C
Confidence            4789999999999999999865   678999999988877654443221    12222111  1123333333222   2


Q ss_pred             CccEEEEcCccccccccccCCCcCCCCcHHHHHHHHHHHHHHHHHHhccCcEEEEEcc
Q 024705          198 SIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQ  255 (264)
Q Consensus       198 ~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r~i~~~L~~l~~~l~~~g~tVi~i~h  255 (264)
                      +.++|+||+++.+....-..+ ...  ...   .+...+.++...+++.++++|+++.
T Consensus        73 ~~~~VLIDclt~~~~n~l~~~-~~~--~~~---~~~~~i~~l~~~l~~~~~~~viVsn  124 (169)
T cd00544          73 PGDVVLIDCLTLWVTNLLFAD-LEE--WEA---AIADEIDALLAAVRNKPGTLILVSN  124 (169)
T ss_pred             CCCEEEEEcHhHHHHHhCCCc-ccc--chh---HHHHHHHHHHHHHHcCCCcEEEEEC
Confidence            577999999999985322211 100  001   1223455555555777877777764

CobU is bifunctional cobalbumin biosynthesis enzymes which display adenosylcobinamide kinase and adenosylcobinamide phosphate guanyltransferase activity. This enzyme is a homotrimer with a propeller-like shape.

>COG1129 MglA ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]

Probab=98.99  E-value=2.6e-09  Score=99.08  Aligned_cols=139  Identities=18%  Similarity=0.223  Sum_probs=86.0

Q ss_pred             CcHHHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCC--CCHHHHHHcCCC--ccceeEeC
Q 024705          104 GSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENA--LDPSLAEAMGID--AENLLIAQ  179 (264)
Q Consensus       104 G~~~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~--~~~~~~~~~g~~--~~~l~~~~  179 (264)
                      |+..||..-=  -+.+|+++.+.|.||+|||||+..++....+.++. ++++.+..  ..+.-++..|+.  .|++.+.+
T Consensus        20 gV~AL~~v~l--~v~~GEV~aL~GeNGAGKSTLmKiLsGv~~p~~G~-I~~~G~~~~~~sp~~A~~~GI~~V~QEl~L~p   96 (500)
T COG1129          20 GVKALDGVSL--TVRPGEVHALLGENGAGKSTLMKILSGVYPPDSGE-ILIDGKPVAFSSPRDALAAGIATVHQELSLVP   96 (500)
T ss_pred             Cceeecccee--EEeCceEEEEecCCCCCHHHHHHHHhCcccCCCce-EEECCEEccCCCHHHHHhCCcEEEeechhccC
Confidence            4555665532  47899999999999999999998888877765554 44544332  122334444432  12111111


Q ss_pred             CCC--------------------------------------------------HHHHHHHHHHHhhcCCccEEEEcCccc
Q 024705          180 PDS--------------------------------------------------AENLLSVVDTLTKSGSIDVIVVDSVAA  209 (264)
Q Consensus       180 ~~~--------------------------------------------------~ee~~~~i~~~~~~~~~~~vvIDsl~~  209 (264)
                      ..+                                                  ..+++++.+.+.  .+++++++|..++
T Consensus        97 ~LsVaeNifLgre~~~~~g~id~~~m~~~A~~~l~~lg~~~~~~~~v~~LsiaqrQ~VeIArAl~--~~arllIlDEPTa  174 (500)
T COG1129          97 NLSVAENIFLGREPTRRFGLIDRKAMRRRARELLARLGLDIDPDTLVGDLSIAQRQMVEIARALS--FDARVLILDEPTA  174 (500)
T ss_pred             CccHHHHhhcccccccCCCccCHHHHHHHHHHHHHHcCCCCChhhhhhhCCHHHHHHHHHHHHHh--cCCCEEEEcCCcc
Confidence            100                                                  113334444442  4788999998888


Q ss_pred             cccccccCCCcCCCCcHHHHHHHHHHHHHHHHHHhccCcEEEEEcccchHhhhcC
Q 024705          210 LIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVKVLLLKHF  264 (264)
Q Consensus       210 ~~~~~~~~~~~~~~~~~~q~r~i~~~L~~l~~~l~~~g~tVi~i~h~~~~~~~~~  264 (264)
                      .++.             .+.+.+...+++|    ++.|++||+|||-.+++-+.|
T Consensus       175 aLt~-------------~E~~~Lf~~ir~L----k~~Gv~ii~ISHrl~Ei~~i~  212 (500)
T COG1129         175 ALTV-------------KETERLFDLIRRL----KAQGVAIIYISHRLDEVFEIA  212 (500)
T ss_pred             cCCH-------------HHHHHHHHHHHHH----HhCCCEEEEEcCcHHHHHHhc
Confidence            7742             3344445555555    789999999999988876654

>PRK13543 cytochrome c biogenesis protein CcmA; Provisional

Probab=98.99  E-value=4.3e-09  Score=88.62  Aligned_cols=38  Identities=21%  Similarity=0.212  Sum_probs=30.6

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEE
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAY  153 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~  153 (264)
                      -+.+|+++.|.|+||+|||||+..++.......|.+.|
T Consensus        33 ~i~~Ge~~~i~G~nGsGKSTLl~~i~G~~~~~~G~i~~   70 (214)
T PRK13543         33 HVDAGEALLVQGDNGAGKTTLLRVLAGLLHVESGQIQI   70 (214)
T ss_pred             EECCCCEEEEEcCCCCCHHHHHHHHhCCCCCCCeeEEE
Confidence            47899999999999999999999888766554554433

>PRK13652 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=98.99  E-value=4.5e-09  Score=92.00  Aligned_cols=59  Identities=17%  Similarity=0.197  Sum_probs=39.4

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCC-C-HHHHHHcCCCccc
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENAL-D-PSLAEAMGIDAEN  174 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~-~-~~~~~~~g~~~~~  174 (264)
                      -+++|+++.|.|+||+|||||+..++....+..|.+.+-..+... . ..+...+|+.+++
T Consensus        26 ~i~~Ge~~~i~G~NGsGKSTLl~~l~Gl~~p~~G~i~~~g~~~~~~~~~~~~~~i~~v~q~   86 (277)
T PRK13652         26 IAPRNSRIAVIGPNGAGKSTLFRHFNGILKPTSGSVLIRGEPITKENIREVRKFVGLVFQN   86 (277)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhcCCCCCceEEEECCEECCcCCHHHHHhheEEEecC
Confidence            378999999999999999999999887665555655443222111 1 1334456665554

>PRK13647 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=98.98  E-value=3.4e-09  Score=92.62  Aligned_cols=59  Identities=20%  Similarity=0.313  Sum_probs=39.2

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCC-C-HHHHHHcCCCccc
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENAL-D-PSLAEAMGIDAEN  174 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~-~-~~~~~~~g~~~~~  174 (264)
                      -+++|+++.|.||||+|||||+..++....+..+.+.+.+.+... . ..+...+|+.+++
T Consensus        27 ~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~p~~G~i~~~g~~~~~~~~~~~~~~i~~v~q~   87 (274)
T PRK13647         27 SIPEGSKTALLGPNGAGKSTLLLHLNGIYLPQRGRVKVMGREVNAENEKWVRSKVGLVFQD   87 (274)
T ss_pred             EEcCCCEEEEECCCCCcHHHHHHHHhcCCCCCceEEEECCEECCCCCHHHHHhhEEEEecC
Confidence            478999999999999999999988887665555555443322111 1 1334456766554

>PRK15112 antimicrobial peptide ABC system ATP-binding protein SapF; Provisional

Probab=98.98  E-value=3.2e-09  Score=92.41  Aligned_cols=39  Identities=28%  Similarity=0.318  Sum_probs=32.0

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEE
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYL  154 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~  154 (264)
                      -+++|+++.|.||||+|||||+..++....+..+.+.|.
T Consensus        35 ~i~~Ge~~~i~G~NGsGKSTLl~~l~Gl~~p~~G~i~~~   73 (267)
T PRK15112         35 TLREGQTLAIIGENGSGKSTLAKMLAGMIEPTSGELLID   73 (267)
T ss_pred             EecCCCEEEEEcCCCCCHHHHHHHHhCCCCCCCCEEEEC
Confidence            478999999999999999999988887766556665543

>PRK10575 iron-hydroxamate transporter ATP-binding subunit; Provisional

Probab=98.98  E-value=3.5e-09  Score=92.04  Aligned_cols=38  Identities=24%  Similarity=0.386  Sum_probs=30.8

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEE
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAY  153 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~  153 (264)
                      -+.+|+++.|.||||+|||||+..++....+..+.+.|
T Consensus        33 ~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~~~~G~i~~   70 (265)
T PRK10575         33 TFPAGKVTGLIGHNGSGKSTLLKMLGRHQPPSEGEILL   70 (265)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHcCCCCCCCCEEEE
Confidence            47799999999999999999999888765555555543

>PRK13634 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=98.98  E-value=2.5e-09  Score=94.22  Aligned_cols=59  Identities=27%  Similarity=0.321  Sum_probs=40.1

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCC---C---HHHHHHcCCCccc
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENAL---D---PSLAEAMGIDAEN  174 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~---~---~~~~~~~g~~~~~  174 (264)
                      -+++|+++.|.||||+|||||+..++....+..+.+.|...+...   .   ..+.+.+|+.+++
T Consensus        29 ~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~p~~G~i~~~g~~i~~~~~~~~~~~~~~~ig~v~q~   93 (290)
T PRK13634         29 SIPSGSYVAIIGHTGSGKSTLLQHLNGLLQPTSGTVTIGERVITAGKKNKKLKPLRKKVGIVFQF   93 (290)
T ss_pred             EEcCCCEEEEECCCCCcHHHHHHHHhcCCCCCCcEEEECCEECccccccchHHHHHhhEEEEeeC
Confidence            578999999999999999999999887765555555443322110   1   1234456766664

>PRK11614 livF leucine/isoleucine/valine transporter ATP-binding subunit; Provisional

Probab=98.98  E-value=4.4e-09  Score=89.82  Aligned_cols=39  Identities=26%  Similarity=0.407  Sum_probs=31.8

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEE
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYL  154 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~  154 (264)
                      -+.+|+++.|.||||+|||||+..++....+.++.+.+.
T Consensus        27 ~i~~Ge~~~i~G~nGsGKSTLl~~l~G~~~p~~G~i~~~   65 (237)
T PRK11614         27 HINQGEIVTLIGANGAGKTTLLGTLCGDPRATSGRIVFD   65 (237)
T ss_pred             EEcCCcEEEEECCCCCCHHHHHHHHcCCCCCCCceEEEC
Confidence            478999999999999999999998887665556665543

>PRK13637 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=98.98  E-value=3.5e-09  Score=93.20  Aligned_cols=60  Identities=20%  Similarity=0.257  Sum_probs=40.4

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCC---C-HHHHHHcCCCccce
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENAL---D-PSLAEAMGIDAENL  175 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~---~-~~~~~~~g~~~~~l  175 (264)
                      -+.+|+++.|.||||+|||||+..++....+..|.+.+-+.+...   . ..+...+|+.+++.
T Consensus        29 ~i~~Ge~~~i~G~nGaGKSTLl~~l~Gl~~p~~G~i~~~g~~~~~~~~~~~~~~~~ig~v~q~~   92 (287)
T PRK13637         29 EIEDGEFVGLIGHTGSGKSTLIQHLNGLLKPTSGKIIIDGVDITDKKVKLSDIRKKVGLVFQYP   92 (287)
T ss_pred             EEcCCCEEEEECCCCCcHHHHHHHHhcCCCCCccEEEECCEECCCcCccHHHHhhceEEEecCc
Confidence            478999999999999999999998887665555555443222211   1 13345677766653

>PRK10247 putative ABC transporter ATP-binding protein YbbL; Provisional

Probab=98.98  E-value=6.1e-09  Score=88.34  Aligned_cols=38  Identities=26%  Similarity=0.286  Sum_probs=30.9

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEE
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAY  153 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~  153 (264)
                      -+++|+++.|.||||+|||||+..++....+..+.+.+
T Consensus        29 ~i~~Ge~~~i~G~nGsGKSTLl~~l~G~~~~~~G~i~~   66 (225)
T PRK10247         29 SLRAGEFKLITGPSGCGKSTLLKIVASLISPTSGTLLF   66 (225)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhcccCCCCCeEEE
Confidence            47899999999999999999999888765555555543

>PRK10253 iron-enterobactin transporter ATP-binding protein; Provisional

Probab=98.98  E-value=4.4e-09  Score=91.42  Aligned_cols=38  Identities=24%  Similarity=0.350  Sum_probs=30.8

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEE
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAY  153 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~  153 (264)
                      -+.+|+++.|.||||+|||||+..++.......+.+.|
T Consensus        29 ~i~~Ge~~~i~G~nGsGKSTLl~~i~G~~~~~~G~i~~   66 (265)
T PRK10253         29 EIPDGHFTAIIGPNGCGKSTLLRTLSRLMTPAHGHVWL   66 (265)
T ss_pred             EECCCCEEEEECCCCCCHHHHHHHHcCCCCCCCcEEEE
Confidence            47799999999999999999998888766555555543

>PRK09536 btuD corrinoid ABC transporter ATPase; Reviewed

Probab=98.98  E-value=4.1e-10  Score=103.22  Aligned_cols=62  Identities=15%  Similarity=0.187  Sum_probs=43.2

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCC-C-HHHHHHcCCCccceeE
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENAL-D-PSLAEAMGIDAENLLI  177 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~-~-~~~~~~~g~~~~~l~~  177 (264)
                      -+++|+++.|.||||+|||||+..++....+..+.+.+...+... . ..+++.+|+.+++..+
T Consensus        25 ~i~~Geiv~liGpNGaGKSTLLk~LaGll~p~sG~I~l~G~~i~~~~~~~~~~~ig~v~q~~~l   88 (402)
T PRK09536         25 SVREGSLVGLVGPNGAGKTTLLRAINGTLTPTAGTVLVAGDDVEALSARAASRRVASVPQDTSL   88 (402)
T ss_pred             EECCCCEEEEECCCCchHHHHHHHHhcCCCCCCcEEEECCEEcCcCCHHHHhcceEEEccCCCC
Confidence            478999999999999999999998887666666666554433221 1 2445567776665443

>PRK13540 cytochrome c biogenesis protein CcmA; Provisional

Probab=98.98  E-value=6.6e-09  Score=86.52  Aligned_cols=58  Identities=19%  Similarity=0.265  Sum_probs=38.3

Q ss_pred             CCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCC-C-HHHHHHcCCCccce
Q 024705          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENAL-D-PSLAEAMGIDAENL  175 (264)
Q Consensus       117 l~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~-~-~~~~~~~g~~~~~l  175 (264)
                      +.+|++++|.||||+|||||+..++....+..+. ++++.+... . ..+.+.+++.+++.
T Consensus        24 i~~Ge~~~l~G~nGsGKSTLl~~i~G~~~~~~G~-v~~~g~~~~~~~~~~~~~i~~~~q~~   83 (200)
T PRK13540         24 LPAGGLLHLKGSNGAGKTTLLKLIAGLLNPEKGE-ILFERQSIKKDLCTYQKQLCFVGHRS   83 (200)
T ss_pred             ECCCCEEEEECCCCCCHHHHHHHHhcCCCCCCee-EEECCCccccCHHHHHhheEEecccc
Confidence            6799999999999999999998887765454554 455543221 1 12334456555443

>COG1137 YhbG ABC-type (unclassified) transport system, ATPase component [General function prediction only]

Probab=98.98  E-value=6.9e-11  Score=96.52  Aligned_cols=149  Identities=15%  Similarity=0.096  Sum_probs=87.6

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCH--HHHH-HcCCCccceeEeCCCCHHHHHHHHHH
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP--SLAE-AMGIDAENLLIAQPDSAENLLSVVDT  192 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~--~~~~-~~g~~~~~l~~~~~~~~ee~~~~i~~  192 (264)
                      .+.+|+++.+.||||+||||.-..+..-..+..+++.+-+.+.+.-+  .|++ .+|+.+|...++...++++.+..+-+
T Consensus        26 ~v~~GEiVGLLGPNGAGKTT~Fymi~Glv~~d~G~i~ld~~diT~lPm~~RArlGigYLpQE~SIFr~LtV~dNi~~vlE  105 (243)
T COG1137          26 EVNSGEIVGLLGPNGAGKTTTFYMIVGLVRPDSGKILLDDEDITKLPMHKRARLGIGYLPQEASIFRKLTVEDNIMAVLE  105 (243)
T ss_pred             EEcCCcEEEEECCCCCCceeEEEEEEEEEecCCceEEECCcccccCChHHHhhcCcccccccchHhhcCcHHHHHHHHHh
Confidence            47899999999999999999665555555555666665555555444  3333 35788998888888887776655433


Q ss_pred             HhhcC-C--ccEEEEcCccccccccccCCCcCCCCcHHHHHH--------------------------HHHHHHHHHHHH
Q 024705          193 LTKSG-S--IDVIVVDSVAALIPKCEIGVPINGMYSDAQSRI--------------------------MTQALRKIHYSL  243 (264)
Q Consensus       193 ~~~~~-~--~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r~--------------------------i~~~L~~l~~~l  243 (264)
                      ..... .  .+-.-+|.+..-+.-..+...++..++|.+.|.                          ....++++...+
T Consensus       106 ~~~~d~~~~~~~~~l~~LL~ef~i~hlr~~~a~sLSGGERRR~EIARaLa~~P~fiLLDEPFAGVDPiaV~dIq~iI~~L  185 (243)
T COG1137         106 IREKDLKKAERKEELDALLEEFHITHLRDSKAYSLSGGERRRVEIARALAANPKFILLDEPFAGVDPIAVIDIQRIIKHL  185 (243)
T ss_pred             hhhcchhHHHHHHHHHHHHHHhchHHHhcCcccccccchHHHHHHHHHHhcCCCEEEecCCccCCCchhHHHHHHHHHHH
Confidence            32110 0  000001222221111222233333333333321                          122566777777


Q ss_pred             hccCcEEEEEcccchHhhhcC
Q 024705          244 CQSHTLIIFLNQVKVLLLKHF  264 (264)
Q Consensus       244 ~~~g~tVi~i~h~~~~~~~~~  264 (264)
                      ++.|+-|+++.|..++.-+.|
T Consensus       186 ~~rgiGvLITDHNVREtL~i~  206 (243)
T COG1137         186 KDRGIGVLITDHNVRETLDIC  206 (243)
T ss_pred             HhCCceEEEccccHHHHHhhh
Confidence            899999999999988765543

>PRK10895 lipopolysaccharide ABC transporter ATP-binding protein; Provisional

Probab=98.97  E-value=5.1e-09  Score=89.66  Aligned_cols=37  Identities=27%  Similarity=0.361  Sum_probs=30.9

Q ss_pred             CCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEE
Q 024705          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAY  153 (264)
Q Consensus       117 l~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~  153 (264)
                      +++|+++.|.||||+|||||+..++....+..+.+.+
T Consensus        26 i~~Ge~~~l~G~nGsGKSTLl~~l~G~~~~~~G~i~~   62 (241)
T PRK10895         26 VNSGEIVGLLGPNGAGKTTTFYMVVGIVPRDAGNIII   62 (241)
T ss_pred             EcCCcEEEEECCCCCCHHHHHHHHhCCCCCCCcEEEE
Confidence            6799999999999999999999888876555565544

>cd03224 ABC_TM1139_LivF_branched LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids

Probab=98.97  E-value=6.5e-10  Score=93.89  Aligned_cols=68  Identities=24%  Similarity=0.304  Sum_probs=43.0

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCC-CH-H-HHHHcCCCccceeEeCCCCH
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENAL-DP-S-LAEAMGIDAENLLIAQPDSA  183 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~-~~-~-~~~~~g~~~~~l~~~~~~~~  183 (264)
                      -+.+|+++.|.||||||||||+..++....+..+.+.+...+... .. . ..+.+++.+++..++...++
T Consensus        22 ~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~~~~G~i~~~g~~~~~~~~~~~~~~~i~~~~q~~~~~~~~t~   92 (222)
T cd03224          22 TVPEGEIVALLGRNGAGKTTLLKTIMGLLPPRSGSIRFDGRDITGLPPHERARAGIGYVPEGRRIFPELTV   92 (222)
T ss_pred             EEcCCeEEEEECCCCCCHHHHHHHHhCCCCCCCceEEECCEEcCCCCHHHHHhcCeEEeccccccCCCCcH
Confidence            478999999999999999999988877665556665543322211 11 1 23346766665444433333

The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a heterodimer of six-helix TM domains (LivM and LivH), and one of two alternative soluble periplasmic substrate binding proteins (LivK or LivJ). ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules.

>cd03235 ABC_Metallic_Cations ABC component of the metal-type transporters

Probab=98.97  E-value=4.7e-09  Score=88.17  Aligned_cols=38  Identities=21%  Similarity=0.327  Sum_probs=30.6

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEE
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAY  153 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~  153 (264)
                      -+++|+++.|.||||+|||||+..++....+..+.+.|
T Consensus        21 ~i~~Ge~~~l~G~nGsGKSTLl~~l~G~~~p~~G~i~~   58 (213)
T cd03235          21 EVKPGEFLAIVGPNGAGKSTLLKAILGLLKPTSGSIRV   58 (213)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHcCCCCCCCCEEEE
Confidence            47899999999999999999999888765555555443

This family includes transporters involved in the uptake of various metallic cations such as iron, manganese, and zinc. The ATPases of this group of transporters are very similar to members of iron-siderophore uptake family suggesting that they share a common ancestor. The best characterized metal-type ABC transporters are the YfeABCD system of Y. pestis, the SitABCD system of Salmonella enterica serovar Typhimurium, and the SitABCD transporter of Shigella flexneri. Moreover other uncharacterized homologs of these metal-type transporters are mainly found in pathogens like Haemophilus or enteroinvasive E. coli isolates.

>TIGR03415 ABC_choXWV_ATP choline ABC transporter, ATP-binding protein

Probab=98.97  E-value=2e-09  Score=98.01  Aligned_cols=69  Identities=16%  Similarity=0.164  Sum_probs=45.5

Q ss_pred             CCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCC---C---CCH-H----HHHHcCCCccceeEeCCCCHHH
Q 024705          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVEN---A---LDP-S----LAEAMGIDAENLLIAQPDSAEN  185 (264)
Q Consensus       117 l~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~---~---~~~-~----~~~~~g~~~~~l~~~~~~~~ee  185 (264)
                      +++|+++.|.|+||||||||+..++....+..+.+ +++.+.   .   ... .    +.+.+++.+++..+++..++.+
T Consensus        47 i~~Gei~~I~G~nGsGKSTLlr~L~Gl~~p~~G~I-~idG~~~~~~i~~~~~~~l~~~r~~~i~~vfQ~~~l~p~~Tv~e  125 (382)
T TIGR03415        47 IEEGEICVLMGLSGSGKSSLLRAVNGLNPVSRGSV-LVKDGDGSIDVANCDAATLRRLRTHRVSMVFQKFALMPWLTVEE  125 (382)
T ss_pred             EcCCCEEEEECCCCCcHHHHHHHHhCCCCCCCcEE-EECCEecccccccCCHHHHHHHhcCCEEEEECCCcCCCCCcHHH
Confidence            67999999999999999999999888766666665 455421   1   111 1    1235777777665555444443


Q ss_pred             H
Q 024705          186 L  186 (264)
Q Consensus       186 ~  186 (264)
                      .
T Consensus       126 N  126 (382)
T TIGR03415       126 N  126 (382)
T ss_pred             H
Confidence            3

Members of this protein family are the ATP-binding subunit of a three-protein transporter. This family belongs, more broadly, to the family of proline and glycine-betaine transporters, but members have been identified by direct characterization and by bioinformatic means as choline transporters. Many species have several closely-related members of this family, probably with variable abilities to act additionally on related quaternary amines.

>TIGR02324 CP_lyasePhnL phosphonate C-P lyase system protein PhnL

Probab=98.97  E-value=6.4e-09  Score=88.04  Aligned_cols=38  Identities=21%  Similarity=0.233  Sum_probs=31.2

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEE
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAY  153 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~  153 (264)
                      -+.+|+++.|.||||+|||||+..++....+..+.+.|
T Consensus        30 ~i~~Ge~~~l~G~nGsGKSTLl~~i~G~~~~~~G~i~~   67 (224)
T TIGR02324        30 TVNAGECVALSGPSGAGKSTLLKSLYANYLPDSGRILV   67 (224)
T ss_pred             EECCCCEEEEECCCCCCHHHHHHHHhCCCCCCCCeEEE
Confidence            36799999999999999999999888766555666544

Members of this family are the PhnL protein of C-P lyase systems for utilization of phosphonates. These systems resemble phosphonatase-based systems in having a three component ABC transporter, where TIGR01097 is the permease, TIGR01098 is the phosphonates binding protein, and TIGR02315 is the ATP-binding cassette (ABC) protein. They differ, however, in having, typically, ten or more additional genes, many of which are believed to form a membrane-associated C-P lysase complex. This protein (PhnL) and the adjacent-encoded PhnK (TIGR02323) resemble transporter ATP-binding proteins but are suggested, based on mutatgenesis studies, to be part of this C-P lyase complex rather than part of a transporter per se.

>PRK09984 phosphonate/organophosphate ester transporter subunit; Provisional

Probab=98.97  E-value=7e-09  Score=89.97  Aligned_cols=30  Identities=30%  Similarity=0.459  Sum_probs=26.6

Q ss_pred             CCCCcEEEEEecCCCChHHHHHHHHHHHhh
Q 024705          117 LPKGRIVEIYGREASGKTTLALHVIKEAQK  146 (264)
Q Consensus       117 l~~G~~~~I~G~~GsGKTtl~~~l~~~~~~  146 (264)
                      +.+|+++.|.||||+|||||+..++....+
T Consensus        27 i~~Ge~~~i~G~nGsGKSTLl~~i~G~~~p   56 (262)
T PRK09984         27 IHHGEMVALLGPSGSGKSTLLRHLSGLITG   56 (262)
T ss_pred             EcCCcEEEEECCCCCCHHHHHHHHhccCCC
Confidence            679999999999999999999988876544

>PRK13636 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=98.97  E-value=4.5e-09  Score=92.32  Aligned_cols=60  Identities=20%  Similarity=0.267  Sum_probs=40.8

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCC---C-HHHHHHcCCCccce
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENAL---D-PSLAEAMGIDAENL  175 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~---~-~~~~~~~g~~~~~l  175 (264)
                      -+++|+++.|.||||+|||||+..++....+..|.+.+...+...   . ..+...+|+.+++.
T Consensus        28 ~i~~Ge~~~i~G~nGaGKSTLl~~i~Gl~~p~~G~i~i~g~~~~~~~~~~~~~~~~ig~v~q~~   91 (283)
T PRK13636         28 NIKKGEVTAILGGNGAGKSTLFQNLNGILKPSSGRILFDGKPIDYSRKGLMKLRESVGMVFQDP   91 (283)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhcCCCCCccEEEECCEECCCCcchHHHHHhhEEEEecCc
Confidence            378999999999999999999999888765555655543322211   1 12345577666653

>PRK10619 histidine/lysine/arginine/ornithine transporter subunit; Provisional

Probab=98.97  E-value=5.1e-09  Score=90.59  Aligned_cols=40  Identities=20%  Similarity=0.238  Sum_probs=31.6

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEec
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDV  156 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~  156 (264)
                      -+++|+++.|.|+||+|||||+..++....+..+.+ +++.
T Consensus        27 ~i~~Ge~~~l~G~nGsGKSTLl~~i~G~~~~~~G~i-~~~g   66 (257)
T PRK10619         27 QANAGDVISIIGSSGSGKSTFLRCINFLEKPSEGSI-VVNG   66 (257)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhCCCCCCCeEE-EECC
Confidence            478999999999999999999998887665555554 4443

>cd03233 ABC_PDR_domain1 The pleiotropic drug resistance (PDR) family of ATP-binding cassette (ABC) transporters

Probab=98.96  E-value=3.9e-09  Score=88.13  Aligned_cols=128  Identities=14%  Similarity=0.120  Sum_probs=73.6

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHh---hcCCeEEEEecCCCCC--HHHHHHcCCCccceeEeCCCCHHHHHHH-
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQ---KLGGYCAYLDVENALD--PSLAEAMGIDAENLLIAQPDSAENLLSV-  189 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~---~~g~~v~~~~~e~~~~--~~~~~~~g~~~~~l~~~~~~~~ee~~~~-  189 (264)
                      -+++|+++.|.||||+|||||+..++....   +..+.+ +++......  ....+.+++.+++..++...++.+.+.. 
T Consensus        29 ~i~~Ge~~~i~G~nGsGKSTLl~~l~G~~~~~~~~~G~i-~i~g~~~~~~~~~~~~~i~~~~q~~~~~~~~tv~~~l~~~  107 (202)
T cd03233          29 VVKPGEMVLVLGRPGSGCSTLLKALANRTEGNVSVEGDI-HYNGIPYKEFAEKYPGEIIYVSEEDVHFPTLTVRETLDFA  107 (202)
T ss_pred             EECCCcEEEEECCCCCCHHHHHHHhcccCCCCCCcceEE-EECCEECccchhhhcceEEEEecccccCCCCcHHHHHhhh
Confidence            478999999999999999999888887665   344544 443322111  1233345665554433333344333221 


Q ss_pred             ----------------------HHHHhhcCCccEEEEcCccccccccccCCCcCCCCcHHHHHHHHHHHHHHHHHHhccC
Q 024705          190 ----------------------VDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSH  247 (264)
Q Consensus       190 ----------------------i~~~~~~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r~i~~~L~~l~~~l~~~g  247 (264)
                                            .+.++  .+++++++|....-..             ....+.+.+.++++.   ++.+
T Consensus       108 ~~~~~~~~~~~LS~Ge~qrl~laral~--~~p~llllDEPt~~LD-------------~~~~~~~~~~l~~~~---~~~~  169 (202)
T cd03233         108 LRCKGNEFVRGISGGERKRVSIAEALV--SRASVLCWDNSTRGLD-------------SSTALEILKCIRTMA---DVLK  169 (202)
T ss_pred             hhhccccchhhCCHHHHHHHHHHHHHh--hCCCEEEEcCCCccCC-------------HHHHHHHHHHHHHHH---HhCC
Confidence                                  12221  4678999997665542             134444566666664   5556


Q ss_pred             cEEE-EEcccchHhhh
Q 024705          248 TLII-FLNQVKVLLLK  262 (264)
Q Consensus       248 ~tVi-~i~h~~~~~~~  262 (264)
                      .++| +++|..+.+..
T Consensus       170 ~t~ii~~~h~~~~~~~  185 (202)
T cd03233         170 TTTFVSLYQASDEIYD  185 (202)
T ss_pred             CEEEEEEcCCHHHHHH
Confidence            6655 55666555543

PDR is a well-described phenomenon occurring in fungi and shares several similarities with processes in bacteria and higher eukaryotes. This PDR subfamily represents domain I of its (ABC-IM)2 organization. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and more complex organic molecules. The nucleotide-binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>cd03219 ABC_Mj1267_LivG_branched The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine

Probab=98.96  E-value=7.1e-10  Score=94.59  Aligned_cols=71  Identities=15%  Similarity=0.111  Sum_probs=44.2

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCC-CH-HH-HHHcCCCccceeEeCCCCHHHH
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENAL-DP-SL-AEAMGIDAENLLIAQPDSAENL  186 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~-~~-~~-~~~~g~~~~~l~~~~~~~~ee~  186 (264)
                      -+++|+++.|.||||||||||+..++....+..|.+.+...+... .. .+ ...+++.+++..++...++.+.
T Consensus        22 ~i~~Ge~~~l~G~nGsGKSTLl~~l~Gl~~~~~G~i~~~g~~~~~~~~~~~~~~~i~~v~q~~~l~~~~tv~~~   95 (236)
T cd03219          22 SVRPGEIHGLIGPNGAGKTTLFNLISGFLRPTSGSVLFDGEDITGLPPHEIARLGIGRTFQIPRLFPELTVLEN   95 (236)
T ss_pred             EecCCcEEEEECCCCCCHHHHHHHHcCCCCCCCceEEECCEECCCCCHHHHHhcCEEEEecccccccCCCHHHH
Confidence            377999999999999999999988887665555555443222111 11 12 2346666666544444444443

MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E. coli branched-chain amino acid transporter. MJ1267 contains an insertion from residues 114 to 123 characteristic of LivG (Leucine-Isoleucine-Valine) homologs. The branched-chain amino acid transporter from E. coli comprises a heterodimer of ABCs (LivF and LivG), a heterodimer of six-helix TM domains (LivM and LivH), and one of two alternative soluble periplasmic substrate binding proteins (LivK or LivJ).

>TIGR02770 nickel_nikD nickel import ATP-binding protein NikD

Probab=98.96  E-value=4.9e-09  Score=89.20  Aligned_cols=37  Identities=22%  Similarity=0.386  Sum_probs=30.3

Q ss_pred             CCCCcEEEEEecCCCChHHHHHHHHHHHhh----cCCeEEE
Q 024705          117 LPKGRIVEIYGREASGKTTLALHVIKEAQK----LGGYCAY  153 (264)
Q Consensus       117 l~~G~~~~I~G~~GsGKTtl~~~l~~~~~~----~g~~v~~  153 (264)
                      +++|+++.|.||||+|||||+..++....+    ..+.+.+
T Consensus         9 i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~p~~~~~~G~i~~   49 (230)
T TIGR02770         9 LKRGEVLALVGESGSGKSLTCLAILGLLPPGLTQTSGEILL   49 (230)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhcCCCCccCccccEEEE
Confidence            679999999999999999999988887654    4555543

This family represents the NikD subunit of a multisubunit nickel import ABC transporter complex. Nickel, once imported, may be used in urease and in certain classes of hydrogenase and superoxide dismutase. NikD and NikE are homologous.

>TIGR03608 L_ocin_972_ABC putative bacteriocin export ABC transporter, lactococcin 972 group

Probab=98.96  E-value=3.9e-09  Score=88.13  Aligned_cols=38  Identities=26%  Similarity=0.271  Sum_probs=31.1

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEE
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAY  153 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~  153 (264)
                      -+++|+++.|.||||+|||||+..++....+..+.+.|
T Consensus        20 ~i~~Ge~~~i~G~nGsGKSTLl~~l~G~~~~~~G~i~~   57 (206)
T TIGR03608        20 TIEKGKMYAIIGESGSGKSTLLNIIGLLEKFDSGQVYL   57 (206)
T ss_pred             EEeCCcEEEEECCCCCCHHHHHHHHhcCCCCCCeEEEE
Confidence            36799999999999999999999988866555565544

A gene pair with a fairly wide distribution consists of a polypeptide related to the lactococcin 972 (see TIGR01653) and multiple-membrane-spanning putative immunity protein (see TIGR01654). This model represents a small clade within the ABC transporters that regularly are found adjacent to these bacteriocin system gene pairs and are likely serve as export proteins.

>TIGR01166 cbiO cobalt transport protein ATP-binding subunit

Probab=98.95  E-value=5.5e-09  Score=86.24  Aligned_cols=38  Identities=24%  Similarity=0.417  Sum_probs=30.4

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEE
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAY  153 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~  153 (264)
                      -+++|+++.|.||||||||||+..++....+..+.+.+
T Consensus        14 ~i~~Ge~~~i~G~nGsGKSTLl~~i~G~~~~~~G~i~~   51 (190)
T TIGR01166        14 AAERGEVLALLGANGAGKSTLLLHLNGLLRPQSGAVLI   51 (190)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhCCCCCCceeEEE
Confidence            47899999999999999999988887765544555544

This model describes the ATP binding subunit of the multisubunit cobalt transporter in bacteria and its equivalents in archaea. The model is restricted to ATP subunit that is a part of the cobalt transporter, which belongs to the ABC transporter superfamily (ATP Binding Cassette). The model excludes ATP binding subunit that are associated with other transporters belonging to ABC transporter superfamily. This superfamily includes two groups, one which catalyze the uptake of small molecules, including ions from the external milieu and the other group which is engaged in the efflux of small molecular weight compounds and ions from within the cell. Energy derived from the hydrolysis of ATP drive the both the process of uptake and efflux.

>PRK13646 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=98.95  E-value=4.8e-09  Score=92.28  Aligned_cols=59  Identities=20%  Similarity=0.279  Sum_probs=40.5

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCC---C---HHHHHHcCCCccc
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENAL---D---PSLAEAMGIDAEN  174 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~---~---~~~~~~~g~~~~~  174 (264)
                      -+++|+++.|.||||||||||+..++....+..|.+.+-+.+...   .   ..+.+.+|+.+++
T Consensus        29 ~i~~Ge~~~i~G~nGsGKSTLl~~L~Gl~~p~~G~i~~~g~~i~~~~~~~~~~~~~~~ig~v~q~   93 (286)
T PRK13646         29 EFEQGKYYAIVGQTGSGKSTLIQNINALLKPTTGTVTVDDITITHKTKDKYIRPVRKRIGMVFQF   93 (286)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhcCCCCCCcEEEECCEECccccccchHHHHHhheEEEecC
Confidence            578999999999999999999999887666556655443222211   1   1234557776665

>TIGR02769 nickel_nikE nickel import ATP-binding protein NikE

Probab=98.95  E-value=6.1e-09  Score=90.54  Aligned_cols=38  Identities=26%  Similarity=0.476  Sum_probs=30.8

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEE
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAY  153 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~  153 (264)
                      -+++|+++.|.||||+|||||+..++....+..+.+.|
T Consensus        33 ~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~p~~G~i~~   70 (265)
T TIGR02769        33 SIEEGETVGLLGRSGCGKSTLARLLLGLEKPAQGTVSF   70 (265)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhCCCCCCCcEEEE
Confidence            37899999999999999999988888766555555544

This family represents the NikE subunit of a multisubunit nickel import ABC transporter complex. Nickel, once imported, may be used in urease and in certain classes of hydrogenase and superoxide dismutase.

>PRK13648 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=98.95  E-value=6.8e-09  Score=90.47  Aligned_cols=58  Identities=28%  Similarity=0.434  Sum_probs=38.6

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCC--C-HHHHHHcCCCccc
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENAL--D-PSLAEAMGIDAEN  174 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~--~-~~~~~~~g~~~~~  174 (264)
                      -+++|+++.|.||||+|||||+..++....+..|.+ +++.....  . ..+.+.+++.+++
T Consensus        31 ~i~~Ge~~~I~G~nGsGKSTLl~~i~Gl~~~~~G~i-~~~g~~~~~~~~~~~~~~i~~v~q~   91 (269)
T PRK13648         31 NIPKGQWTSIVGHNGSGKSTIAKLMIGIEKVKSGEI-FYNNQAITDDNFEKLRKHIGIVFQN   91 (269)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhcCCCCCceEE-EECCEECCcCCHHHHHhheeEEEeC
Confidence            478999999999999999999988887665555554 44433211  1 1233446655554

>PRK13539 cytochrome c biogenesis protein CcmA; Provisional

Probab=98.95  E-value=2.7e-09  Score=89.37  Aligned_cols=38  Identities=26%  Similarity=0.278  Sum_probs=30.9

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEE
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAY  153 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~  153 (264)
                      -+++|+++.|.||||+|||||+..++.......|.+.|
T Consensus        24 ~i~~Ge~~~i~G~nGsGKSTLl~~l~G~~~~~~G~i~~   61 (207)
T PRK13539         24 TLAAGEALVLTGPNGSGKTTLLRLIAGLLPPAAGTIKL   61 (207)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhCCCCCCCceEEE
Confidence            47799999999999999999988888765555565544

>cd03264 ABC_drug_resistance_like ABC-type multidrug transport system, ATPase component

Probab=98.95  E-value=9.5e-09  Score=86.19  Aligned_cols=62  Identities=18%  Similarity=0.179  Sum_probs=39.7

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCC-HHHHHHcCCCccceeEe
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALD-PSLAEAMGIDAENLLIA  178 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~-~~~~~~~g~~~~~l~~~  178 (264)
                      -+++| ++.|.||||+|||||+..++....+..+.+.+...+.... ....+.+++.+++..++
T Consensus        22 ~i~~g-~~~i~G~nGsGKSTLl~~l~Gl~~~~~G~i~~~g~~~~~~~~~~~~~i~~~~q~~~~~   84 (211)
T cd03264          22 TLGPG-MYGLLGPNGAGKTTLMRILATLTPPSSGTIRIDGQDVLKQPQKLRRRIGYLPQEFGVY   84 (211)
T ss_pred             EEcCC-cEEEECCCCCCHHHHHHHHhCCCCCCccEEEECCCccccchHHHHhheEEecCCCccc
Confidence            36688 9999999999999999888876655566655433221111 22344566655554433

The biological function of this family is not well characterized, but display ABC domains similar to members of ABCA subfamily. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PRK13640 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=98.94  E-value=7e-09  Score=91.02  Aligned_cols=58  Identities=21%  Similarity=0.236  Sum_probs=38.9

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcC---CeEEEEecCCCCC---HHHHHHcCCCccc
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLG---GYCAYLDVENALD---PSLAEAMGIDAEN  174 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g---~~v~~~~~e~~~~---~~~~~~~g~~~~~  174 (264)
                      -+++|+++.|.||||+|||||+..++....+..   +.+ +++.+....   ..+...+|+.+++
T Consensus        29 ~i~~Ge~~~I~G~nGaGKSTLl~~l~G~~~p~~g~~G~i-~i~g~~~~~~~~~~~~~~ig~v~q~   92 (282)
T PRK13640         29 SIPRGSWTALIGHNGSGKSTISKLINGLLLPDDNPNSKI-TVDGITLTAKTVWDIREKVGIVFQN   92 (282)
T ss_pred             EEcCCCEEEEECCCCCcHHHHHHHHhcccCCCCCCCcEE-EECCEECCcCCHHHHHhheEEEEEC
Confidence            478999999999999999999999887765543   444 444432211   1233456665554

>PRK11124 artP arginine transporter ATP-binding subunit; Provisional

Probab=98.94  E-value=8.6e-09  Score=88.31  Aligned_cols=38  Identities=18%  Similarity=0.253  Sum_probs=30.8

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEE
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAY  153 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~  153 (264)
                      -+++|+++.|.||||+|||||+..++....+..+.+.+
T Consensus        24 ~i~~Ge~~~i~G~nGsGKSTLl~~l~G~~~~~~G~i~~   61 (242)
T PRK11124         24 DCPQGETLVLLGPSGAGKSSLLRVLNLLEMPRSGTLNI   61 (242)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhCCCCCCceEEEE
Confidence            36799999999999999999999888765555555543

>PRK11308 dppF dipeptide transporter ATP-binding subunit; Provisional

Probab=98.94  E-value=5.6e-09  Score=93.54  Aligned_cols=39  Identities=28%  Similarity=0.436  Sum_probs=31.6

Q ss_pred             CCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEe
Q 024705          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLD  155 (264)
Q Consensus       117 l~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~  155 (264)
                      +.+|+++.|.|+||||||||+..++.......+.+.|.+
T Consensus        38 i~~Ge~~~IvG~sGsGKSTLl~~l~gl~~p~~G~i~~~g   76 (327)
T PRK11308         38 LERGKTLAVVGESGCGKSTLARLLTMIETPTGGELYYQG   76 (327)
T ss_pred             ECCCCEEEEECCCCCcHHHHHHHHHcCCCCCCcEEEECC
Confidence            679999999999999999999998876555556555533

>TIGR03873 F420-0_ABC_ATP proposed F420-0 ABC transporter, ATP-binding protein

Probab=98.93  E-value=8.1e-09  Score=89.28  Aligned_cols=38  Identities=24%  Similarity=0.337  Sum_probs=30.8

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEE
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAY  153 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~  153 (264)
                      -+++|+++.|.||||+|||||+..++....+..+.+.+
T Consensus        23 ~i~~Ge~~~i~G~nGsGKSTLl~~i~G~~~~~~G~i~~   60 (256)
T TIGR03873        23 TAPPGSLTGLLGPNGSGKSTLLRLLAGALRPDAGTVDL   60 (256)
T ss_pred             EEcCCcEEEEECCCCCCHHHHHHHHcCCCCCCCCEEEE
Confidence            36799999999999999999999888766555555544

This small clade of ABC-type transporter ATP-binding protein components is found as a three gene cassette along with a periplasmic substrate-binding protein (TIGR03868) and a permease (TIGR03869). The organisms containing this cassette are all Actinobacteria and all contain numerous genes requiring the coenzyme F420. This model was defined based on five such organisms, four of which are lacking all F420 biosynthetic capability save the final side-chain polyglutamate attachment step (via the gene cofE: TIGR01916). In Jonesia denitrificans DSM 20603 and marine actinobacterium PHSC20C1 this cassette is in an apparent operon with the cofE gene and, in PHSC20C1, also with a F420-dependent glucose-6-phosphate dehydrogenase (TIGR03554). Based on these observations we propose that this ATP-binding protein is a component of an F420-0 (that is, F420 lacking only the polyglutamate tail) transporter.

>PRK13651 cobalt transporter ATP-binding subunit; Provisional

Probab=98.93  E-value=8.4e-09  Score=91.52  Aligned_cols=38  Identities=26%  Similarity=0.369  Sum_probs=31.4

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEE
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAY  153 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~  153 (264)
                      -+.+|+++.|.||||||||||+..++....+..+.+.+
T Consensus        29 ~i~~Ge~v~iiG~nGsGKSTLl~~L~Gl~~p~~G~i~~   66 (305)
T PRK13651         29 EINQGEFIAIIGQTGSGKTTFIEHLNALLLPDTGTIEW   66 (305)
T ss_pred             EEeCCCEEEEECCCCCcHHHHHHHHhCCCCCCCcEEEE
Confidence            47899999999999999999999888876555555544

>PRK03695 vitamin B12-transporter ATPase; Provisional

Probab=98.93  E-value=9.8e-09  Score=88.42  Aligned_cols=38  Identities=21%  Similarity=0.274  Sum_probs=29.5

Q ss_pred             CCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEec
Q 024705          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDV  156 (264)
Q Consensus       117 l~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~  156 (264)
                      +++|+++.|.||||||||||+..++... +..+.+ +++.
T Consensus        19 i~~Gei~~l~G~nGsGKSTLl~~l~Gl~-~~~G~i-~~~g   56 (248)
T PRK03695         19 VRAGEILHLVGPNGAGKSTLLARMAGLL-PGSGSI-QFAG   56 (248)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHcCCC-CCCeEE-EECC
Confidence            7799999999999999999998887754 344444 4443

>TIGR03740 galliderm_ABC gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit

Probab=98.93  E-value=8.4e-09  Score=87.27  Aligned_cols=36  Identities=22%  Similarity=0.350  Sum_probs=29.5

Q ss_pred             CCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEE
Q 024705          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCA  152 (264)
Q Consensus       117 l~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~  152 (264)
                      +.+|++++|.||||+|||||+..++....+..+.+.
T Consensus        23 i~~Ge~~~i~G~nGsGKSTLl~~l~G~~~~~~G~i~   58 (223)
T TIGR03740        23 VPKNSVYGLLGPNGAGKSTLLKMITGILRPTSGEII   58 (223)
T ss_pred             EcCCcEEEEECCCCCCHHHHHHHHhCCCCCCceEEE
Confidence            679999999999999999999988876555445443

Model TIGR03731 represents the family of all lantibiotics related to gallidermin, including epidermin, mutatin, and nisin. This protein family describes the ATP-binding subunit of a gallidermin/epidermin class lantibiotic protection transporter. It is largely restricted to gallidermin-family lantibiotic biosynthesis and export cassettes, but also occurs in orphan transporter cassettes in species that lack candidate lantibiotic precursor and synthetase genes.

>PRK15439 autoinducer 2 ABC transporter ATP-binding protein LsrA; Provisional

Probab=98.92  E-value=6e-09  Score=98.82  Aligned_cols=130  Identities=15%  Similarity=0.165  Sum_probs=74.8

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCC-CH-H-HHHHcCCCccceeEeCCCCHHHHHH----
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENAL-DP-S-LAEAMGIDAENLLIAQPDSAENLLS----  188 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~-~~-~-~~~~~g~~~~~l~~~~~~~~ee~~~----  188 (264)
                      -+++|+++.|.||||||||||+..++....+..|.+.+-..+... .. . +...+|+.+++..++...++.+.+.    
T Consensus        33 ~i~~Ge~~~liG~NGsGKSTLl~~l~Gl~~p~~G~i~~~g~~~~~~~~~~~~~~~i~~v~q~~~~~~~~tv~e~l~~~~~  112 (510)
T PRK15439         33 TLHAGEVHALLGGNGAGKSTLMKIIAGIVPPDSGTLEIGGNPCARLTPAKAHQLGIYLVPQEPLLFPNLSVKENILFGLP  112 (510)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhCCCCCCceEEEECCEECCCCCHHHHHhCCEEEEeccCccCCCCcHHHHhhcccc
Confidence            478999999999999999999988887655555555432222111 11 1 1223555555433333223322211    


Q ss_pred             --------------------------------------HHHHHhhcCCccEEEEcCccccccccccCCCcCCCCcHHHHH
Q 024705          189 --------------------------------------VVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSR  230 (264)
Q Consensus       189 --------------------------------------~i~~~~~~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r  230 (264)
                                                            +.+.+  ..+|+++++|...+-.             +....+
T Consensus       113 ~~~~~~~~~~~~l~~~~l~~~~~~~~~~LSgG~~qrv~la~aL--~~~p~lllLDEPt~~L-------------D~~~~~  177 (510)
T PRK15439        113 KRQASMQKMKQLLAALGCQLDLDSSAGSLEVADRQIVEILRGL--MRDSRILILDEPTASL-------------TPAETE  177 (510)
T ss_pred             cchHHHHHHHHHHHHcCCCccccCChhhCCHHHHHHHHHHHHH--HcCCCEEEEECCCCCC-------------CHHHHH
Confidence                                                  11111  1356677777655544             223344


Q ss_pred             HHHHHHHHHHHHHhccCcEEEEEcccchHhhhcC
Q 024705          231 IMTQALRKIHYSLCQSHTLIIFLNQVKVLLLKHF  264 (264)
Q Consensus       231 ~i~~~L~~l~~~l~~~g~tVi~i~h~~~~~~~~~  264 (264)
                      .+.+.|+++    ++.|.+||+++|..+.+...|
T Consensus       178 ~l~~~l~~~----~~~g~tiiivtHd~~~~~~~~  207 (510)
T PRK15439        178 RLFSRIREL----LAQGVGIVFISHKLPEIRQLA  207 (510)
T ss_pred             HHHHHHHHH----HHCCCEEEEEeCCHHHHHHhC
Confidence            455556655    345899999999988876543

>cd03217 ABC_FeS_Assembly ABC-type transport system involved in Fe-S cluster assembly, ATPase component

Probab=98.92  E-value=6.4e-10  Score=92.71  Aligned_cols=128  Identities=15%  Similarity=0.195  Sum_probs=78.7

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHH--hhcCCeEEEEecCCCC-CH-HH-HHHcCCCccceeEeCCCCHHHHHH--
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEA--QKLGGYCAYLDVENAL-DP-SL-AEAMGIDAENLLIAQPDSAENLLS--  188 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~--~~~g~~v~~~~~e~~~-~~-~~-~~~~g~~~~~l~~~~~~~~ee~~~--  188 (264)
                      -+.+|+++.|.|+||+|||||+..++...  .+..+.+.+...+... .. .+ ...+++.+++.......+.+++..  
T Consensus        22 ~i~~Ge~~~i~G~nGsGKStLl~~l~G~~~~~p~~G~i~~~g~~~~~~~~~~~~~~~i~~v~q~~~~~~~~~~~~~l~~~  101 (200)
T cd03217          22 TIKKGEVHALMGPNGSGKSTLAKTIMGHPKYEVTEGEILFKGEDITDLPPEERARLGIFLAFQYPPEIPGVKNADFLRYV  101 (200)
T ss_pred             EECCCcEEEEECCCCCCHHHHHHHHhCCCcCCCCccEEEECCEECCcCCHHHHhhCcEEEeecChhhccCccHHHHHhhc
Confidence            46799999999999999999998887763  3445555443322111 11 22 223666666544443334443332  


Q ss_pred             -------------HHHHHhhcCCccEEEEcCccccccccccCCCcCCCCcHHHHHHHHHHHHHHHHHHhccCcEEEEEcc
Q 024705          189 -------------VVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQ  255 (264)
Q Consensus       189 -------------~i~~~~~~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r~i~~~L~~l~~~l~~~g~tVi~i~h  255 (264)
                                   ..+.++  .+++++++|....-..             ....+.+.+.|+++    ++.+.|||+++|
T Consensus       102 ~~~LS~G~~qrv~laral~--~~p~illlDEPt~~LD-------------~~~~~~l~~~L~~~----~~~~~tiii~sh  162 (200)
T cd03217         102 NEGFSGGEKKRNEILQLLL--LEPDLAILDEPDSGLD-------------IDALRLVAEVINKL----REEGKSVLIITH  162 (200)
T ss_pred             cccCCHHHHHHHHHHHHHh--cCCCEEEEeCCCccCC-------------HHHHHHHHHHHHHH----HHCCCEEEEEec
Confidence                         122222  5789999998776552             13334455566655    345899999999


Q ss_pred             cchHhhh
Q 024705          256 VKVLLLK  262 (264)
Q Consensus       256 ~~~~~~~  262 (264)
                      ..+.++.
T Consensus       163 ~~~~~~~  169 (200)
T cd03217         163 YQRLLDY  169 (200)
T ss_pred             CHHHHHH
Confidence            9887654

Biosynthesis of iron-sulfur clusters (Fe-S) depends on multiprotein systems. The SUF system of E. coli and Erwinia chrysanthemi is important for Fe-S biogenesis under stressful conditions. The SUF system is made of six proteins: SufC is an atypical cytoplasmic ABC-ATPase, which forms a complex with SufB and SufD; SufA plays the role of a scaffold protein for assembly of iron-sulfur clusters and delivery to target proteins; SufS is a cysteine desulfurase which mobilizes the sulfur atom from cysteine and provides it to the cluster; SufE has no associated function yet.

>PRK13638 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=98.92  E-value=9.3e-09  Score=89.70  Aligned_cols=38  Identities=16%  Similarity=0.276  Sum_probs=31.2

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEE
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAY  153 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~  153 (264)
                      -+++|+++.|.||||+|||||+..++....+..|.+.+
T Consensus        23 ~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~p~~G~i~~   60 (271)
T PRK13638         23 DFSLSPVTGLVGANGCGKSTLFMNLSGLLRPQKGAVLW   60 (271)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHcCCCCCCccEEEE
Confidence            47799999999999999999999888766555665544

>COG4586 ABC-type uncharacterized transport system, ATPase component [General function prediction only]

Probab=98.92  E-value=8.9e-09  Score=87.95  Aligned_cols=133  Identities=14%  Similarity=0.178  Sum_probs=82.4

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCH-HHHHHcCCCcc---ceeEeCC-----------
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP-SLAEAMGIDAE---NLLIAQP-----------  180 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~-~~~~~~g~~~~---~l~~~~~-----------  180 (264)
                      -+|+|+++++.|+||+||||++..+.....+.+++|-.-..+.-..+ ...+++|+...   .+.+.-+           
T Consensus        46 ~IP~G~ivgflGaNGAGKSTtLKmLTGll~p~~G~v~V~G~~Pf~~~~~~~~~~~~v~gqk~ql~Wdlp~~ds~~v~~~I  125 (325)
T COG4586          46 EIPKGEIVGFLGANGAGKSTTLKMLTGLLLPTSGKVRVNGKDPFRRREEYLRSIGLVMGQKLQLWWDLPALDSLEVLKLI  125 (325)
T ss_pred             ecCCCcEEEEEcCCCCcchhhHHHHhCccccCCCeEEecCcCcchhHHHHHHHHHHHhhhhheeeeechhhhhHHHHHHH
Confidence            48999999999999999999999998888888888876665443322 22333332211   1111100           


Q ss_pred             --CCHHHHHH-------H----------HHHH------------hhcCCccEEEEcCccccccccccCCCcCCCCcHHHH
Q 024705          181 --DSAENLLS-------V----------VDTL------------TKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQS  229 (264)
Q Consensus       181 --~~~ee~~~-------~----------i~~~------------~~~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~  229 (264)
                        .+..++.+       +          ++++            .--++|+++++|..+--..     .        ..+
T Consensus       126 y~Ipd~~F~~r~~~l~eiLdl~~~lk~~vr~LSlGqRmraeLaaaLLh~p~VLfLDEpTvgLD-----V--------~aq  192 (325)
T COG4586         126 YEIPDDEFAERLDFLTEILDLEGFLKWPVRKLSLGQRMRAELAAALLHPPKVLFLDEPTVGLD-----V--------NAQ  192 (325)
T ss_pred             HhCCHHHHHHHHHHHHHHhcchhhhhhhhhhccchHHHHHHHHHHhcCCCcEEEecCCccCcc-----h--------hHH
Confidence              00001110       0          1100            0126889999998774331     1        222


Q ss_pred             HHHHHHHHHHHHHHhccCcEEEEEcccchHhhhcC
Q 024705          230 RIMTQALRKIHYSLCQSHTLIIFLNQVKVLLLKHF  264 (264)
Q Consensus       230 r~i~~~L~~l~~~l~~~g~tVi~i~h~~~~~~~~~  264 (264)
                      ..+.+++++..   .++++||++++|..++++..|
T Consensus       193 ~~ir~Flke~n---~~~~aTVllTTH~~~di~~lc  224 (325)
T COG4586         193 ANIREFLKEYN---EERQATVLLTTHIFDDIATLC  224 (325)
T ss_pred             HHHHHHHHHHH---HhhCceEEEEecchhhHHHhh
Confidence            33556777776   789999999999999998765

>PRK15079 oligopeptide ABC transporter ATP-binding protein OppF; Provisional

Probab=98.91  E-value=8.6e-09  Score=92.45  Aligned_cols=38  Identities=26%  Similarity=0.414  Sum_probs=31.2

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEE
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAY  153 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~  153 (264)
                      -+.+|+++.|.|+||||||||+..++.......+.+.|
T Consensus        43 ~i~~Ge~~~lvG~sGsGKSTLlk~i~Gl~~p~~G~I~~   80 (331)
T PRK15079         43 RLYEGETLGVVGESGCGKSTFARAIIGLVKATDGEVAW   80 (331)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHHCCCCCCCcEEEE
Confidence            37799999999999999999999988766555565544

>PRK10418 nikD nickel transporter ATP-binding protein NikD; Provisional

Probab=98.91  E-value=8.6e-09  Score=89.04  Aligned_cols=31  Identities=23%  Similarity=0.392  Sum_probs=27.0

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhh
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQK  146 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~  146 (264)
                      -+++|+++.|.||||+|||||+..++....+
T Consensus        25 ~i~~Ge~~~l~G~nGsGKSTLl~~l~Gl~~~   55 (254)
T PRK10418         25 TLQRGRVLALVGGSGSGKSLTCAAALGILPA   55 (254)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhCCCCC
Confidence            3779999999999999999999888876544

>COG4608 AppF ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]

Probab=98.91  E-value=1.2e-08  Score=87.46  Aligned_cols=138  Identities=14%  Similarity=0.168  Sum_probs=89.6

Q ss_pred             HHHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCC--CH-------HHHHHcCCCcccee
Q 024705          106 LKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENAL--DP-------SLAEAMGIDAENLL  176 (264)
Q Consensus       106 ~~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~--~~-------~~~~~~g~~~~~l~  176 (264)
                      .++|.+-=  -+.+|+++.|.|++||||||++..++....+.+|.+.|-..+...  ..       ...+.+|...+.+.
T Consensus        27 ~avd~Vsf--~i~~ge~~glVGESG~GKSTlgr~i~~L~~pt~G~i~f~g~~i~~~~~~~~~~~v~elL~~Vgl~~~~~~  104 (268)
T COG4608          27 KAVDGVSF--SIKEGETLGLVGESGCGKSTLGRLILGLEEPTSGEILFEGKDITKLSKEERRERVLELLEKVGLPEEFLY  104 (268)
T ss_pred             EEecceeE--EEcCCCEEEEEecCCCCHHHHHHHHHcCcCCCCceEEEcCcchhhcchhHHHHHHHHHHHHhCCCHHHhh
Confidence            44554432  478999999999999999999999988777667766554333211  11       23445675544332


Q ss_pred             EeC-CCCH--HHHHHHHHHHhhcCCccEEEEcCccccccccccCCCcCCCCcHHHHHHHHHHHHHHHHHHhccCcEEEEE
Q 024705          177 IAQ-PDSA--ENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFL  253 (264)
Q Consensus       177 ~~~-~~~~--ee~~~~i~~~~~~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r~i~~~L~~l~~~l~~~g~tVi~i  253 (264)
                      -++ ..+.  .+.+.+.+.+.  -+|+++|.|...+.+..             .-+..+.+.|.++.   ++.|.+.++|
T Consensus       105 ryPhelSGGQrQRi~IARALa--l~P~liV~DEpvSaLDv-------------SiqaqIlnLL~dlq---~~~~lt~lFI  166 (268)
T COG4608         105 RYPHELSGGQRQRIGIARALA--LNPKLIVADEPVSALDV-------------SVQAQILNLLKDLQ---EELGLTYLFI  166 (268)
T ss_pred             cCCcccCchhhhhHHHHHHHh--hCCcEEEecCchhhcch-------------hHHHHHHHHHHHHH---HHhCCeEEEE
Confidence            222 1222  23444445443  58999999998877631             22233567778887   8889999999


Q ss_pred             cccchHhhhc
Q 024705          254 NQVKVLLLKH  263 (264)
Q Consensus       254 ~h~~~~~~~~  263 (264)
                      +|+...+...
T Consensus       167 sHDL~vv~~i  176 (268)
T COG4608         167 SHDLSVVRYI  176 (268)
T ss_pred             EEEHHhhhhh
Confidence            9998776543

>TIGR03411 urea_trans_UrtD urea ABC transporter, ATP-binding protein UrtD

Probab=98.91  E-value=1.3e-08  Score=87.18  Aligned_cols=39  Identities=21%  Similarity=0.244  Sum_probs=31.8

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEE
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYL  154 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~  154 (264)
                      -+.+|+++.|.||||+|||||+..++....+..+.+.+.
T Consensus        24 ~i~~Ge~~~l~G~nGsGKSTLl~~l~G~~~p~~G~i~~~   62 (242)
T TIGR03411        24 YVDPGELRVIIGPNGAGKTTMMDVITGKTRPDEGSVLFG   62 (242)
T ss_pred             EEcCCcEEEEECCCCCCHHHHHHHHhCCCCCCCCeEEEC
Confidence            477999999999999999999999888765555655443

Members of this protein family are ABC transporter ATP-binding subunits associated with urea transport and metabolism. This protein is found in a conserved five-gene transport operon typically found adjacent to urease genes. It was shown in Cyanobacteria that disruption leads to the loss of high-affinity urea transport activity.

>PRK13547 hmuV hemin importer ATP-binding subunit; Provisional

Probab=98.91  E-value=1.3e-08  Score=88.82  Aligned_cols=32  Identities=25%  Similarity=0.431  Sum_probs=27.3

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhc
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKL  147 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~  147 (264)
                      -+.+|+++.|.||||+|||||+..++....+.
T Consensus        23 ~i~~Ge~~~l~G~nGsGKSTLl~~laG~~~p~   54 (272)
T PRK13547         23 RIEPGRVTALLGRNGAGKSTLLKALAGDLTGG   54 (272)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhCCCCCc
Confidence            37799999999999999999999888765443

>PRK09544 znuC high-affinity zinc transporter ATPase; Reviewed

Probab=98.91  E-value=1.9e-08  Score=86.82  Aligned_cols=130  Identities=15%  Similarity=0.231  Sum_probs=71.9

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCe--------EEEEecCCCCCH----HHHHHcCCCc----cc-----
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGY--------CAYLDVENALDP----SLAEAMGIDA----EN-----  174 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~--------v~~~~~e~~~~~----~~~~~~g~~~----~~-----  174 (264)
                      -+++|+++.|.||||+|||||+..++....+..+.        +.|+..+.....    ...+.+.+..    +.     
T Consensus        26 ~i~~Ge~~~I~G~NGsGKSTLl~~i~Gl~~p~~G~i~~~~~~~i~~v~q~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~l  105 (251)
T PRK09544         26 ELKPGKILTLLGPNGAGKSTLVRVVLGLVAPDEGVIKRNGKLRIGYVPQKLYLDTTLPLTVNRFLRLRPGTKKEDILPAL  105 (251)
T ss_pred             EEcCCcEEEEECCCCCCHHHHHHHHhCCCCCCceEEEECCccCEEEeccccccccccChhHHHHHhccccccHHHHHHHH
Confidence            37899999999999999999999888765444443        334433321110    0011110000    00     


Q ss_pred             --eeE-------eCCCCHHH--HHHHHHHHhhcCCccEEEEcCccccccccccCCCcCCCCcHHHHHHHHHHHHHHHHHH
Q 024705          175 --LLI-------AQPDSAEN--LLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSL  243 (264)
Q Consensus       175 --l~~-------~~~~~~ee--~~~~i~~~~~~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r~i~~~L~~l~~~l  243 (264)
                        +.+       ....+..+  .+...+.++  .+++++++|...+-..             ....+.+.+.|+++.   
T Consensus       106 ~~~gl~~~~~~~~~~LSgGq~qrv~laral~--~~p~lllLDEPt~~LD-------------~~~~~~l~~~L~~~~---  167 (251)
T PRK09544        106 KRVQAGHLIDAPMQKLSGGETQRVLLARALL--NRPQLLVLDEPTQGVD-------------VNGQVALYDLIDQLR---  167 (251)
T ss_pred             HHcCChHHHhCChhhCCHHHHHHHHHHHHHh--cCCCEEEEeCCCcCCC-------------HHHHHHHHHHHHHHH---
Confidence              000       00011111  112222222  5789999998776552             133344556666654   


Q ss_pred             hccCcEEEEEcccchHhhhc
Q 024705          244 CQSHTLIIFLNQVKVLLLKH  263 (264)
Q Consensus       244 ~~~g~tVi~i~h~~~~~~~~  263 (264)
                      ++.|.+||+++|..+.+.+.
T Consensus       168 ~~~g~tiiivsH~~~~i~~~  187 (251)
T PRK09544        168 RELDCAVLMVSHDLHLVMAK  187 (251)
T ss_pred             HhcCCEEEEEecCHHHHHHh
Confidence            55689999999999887654

>PRK13645 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=98.90  E-value=8e-09  Score=90.97  Aligned_cols=38  Identities=18%  Similarity=0.175  Sum_probs=31.5

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEE
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAY  153 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~  153 (264)
                      -+++|++++|.||||||||||+..++....+..+.+.+
T Consensus        33 ~i~~Ge~~~l~G~nGsGKSTLl~~l~Gl~~p~~G~i~~   70 (289)
T PRK13645         33 TFKKNKVTCVIGTTGSGKSTMIQLTNGLIISETGQTIV   70 (289)
T ss_pred             EEeCCCEEEEECCCCCCHHHHHHHHhcCCCCCCceEEE
Confidence            47899999999999999999999988876555565544

>TIGR01189 ccmA heme ABC exporter, ATP-binding protein CcmA

Probab=98.90  E-value=1.4e-08  Score=84.38  Aligned_cols=37  Identities=24%  Similarity=0.250  Sum_probs=30.1

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEE
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCA  152 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~  152 (264)
                      -+.+|+++.|.||||+|||||+..++....+..+.+.
T Consensus        22 ~i~~Ge~~~i~G~nGsGKSTLl~~l~G~~~~~~G~i~   58 (198)
T TIGR01189        22 TLNAGEALQVTGPNGIGKTTLLRILAGLLRPDSGEVR   58 (198)
T ss_pred             EEcCCcEEEEECCCCCCHHHHHHHHhCCCCCCccEEE
Confidence            3779999999999999999999988876655555443

This model describes the cyt c biogenesis protein encoded by ccmA in bacteria. An exception is, an arabidopsis protein. Quite likely this is encoded by an organelle. Bacterial c-type cytocromes are located on the periplasmic side of the cytoplasmic membrane. Several gene products encoded in a locus designated as 'ccm' are implicated in the transport and assembly of the functional cytochrome C. This cluster includes genes: ccmA;B;C;D;E;F;G and H. The posttranslational pathway includes the transport of heme moiety, the secretion of the apoprotein and the covalent attachment of the heme with the apoprotein. The proteins ccmA and B represent an ABC transporter; ccmC and D participate in heme transfer to ccmE, which function as a periplasmic heme chaperone. The presence of ccmF, G and H is suggested to be obligatory for the final functional assembly of cytochrome c.

>cd03221 ABCF_EF-3 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth

Probab=98.90  E-value=2e-08  Score=79.32  Aligned_cols=109  Identities=17%  Similarity=0.234  Sum_probs=68.3

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCHHHHHHcCCCccceeEeCCCCHHHH--HHHHHHH
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENL--LSVVDTL  193 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~~~~~~~g~~~~~l~~~~~~~~ee~--~~~i~~~  193 (264)
                      -+++|+++.|.||||+|||||+..++....+..+.+ +++..        ..+++.+       ..+..+.  +...+.+
T Consensus        22 ~~~~Ge~~~i~G~nGsGKStLl~~l~G~~~~~~G~i-~~~~~--------~~i~~~~-------~lS~G~~~rv~laral   85 (144)
T cd03221          22 TINPGDRIGLVGRNGAGKSTLLKLIAGELEPDEGIV-TWGST--------VKIGYFE-------QLSGGEKMRLALAKLL   85 (144)
T ss_pred             EECCCCEEEEECCCCCCHHHHHHHHcCCCCCCceEE-EECCe--------EEEEEEc-------cCCHHHHHHHHHHHHH
Confidence            478999999999999999999988887665555544 44321        1122222       2443332  3334444


Q ss_pred             hhcCCccEEEEcCccccccccccCCCcCCCCcHHHHHHHHHHHHHHHHHHhccCcEEEEEcccchHhhh
Q 024705          194 TKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVKVLLLK  262 (264)
Q Consensus       194 ~~~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r~i~~~L~~l~~~l~~~g~tVi~i~h~~~~~~~  262 (264)
                      +  .+++++++|....-...             .....+.+.++       +.+.++++++|..+.+..
T Consensus        86 ~--~~p~illlDEP~~~LD~-------------~~~~~l~~~l~-------~~~~til~~th~~~~~~~  132 (144)
T cd03221          86 L--ENPNLLLLDEPTNHLDL-------------ESIEALEEALK-------EYPGTVILVSHDRYFLDQ  132 (144)
T ss_pred             h--cCCCEEEEeCCccCCCH-------------HHHHHHHHHHH-------HcCCEEEEEECCHHHHHH
Confidence            3  58899999987765521             22222333333       335799999999877654

EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated release of the deacylated tRNA from the E site. The reaction requires ATP hydrolysis. EF-3 contains two ATP nucleotide binding sequence (NBS) motifs. NBSI is sufficient for the intrinsic ATPase activity. NBSII is essential for the ribosome-stimulated functions.

>PRK13642 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=98.89  E-value=1.2e-08  Score=89.25  Aligned_cols=38  Identities=29%  Similarity=0.367  Sum_probs=31.4

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEE
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAY  153 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~  153 (264)
                      -+.+|+++.|.|+||+|||||+..++....+..+.+.|
T Consensus        29 ~i~~Ge~~~I~G~nGsGKSTLl~~l~Gl~~~~~G~i~~   66 (277)
T PRK13642         29 SITKGEWVSIIGQNGSGKSTTARLIDGLFEEFEGKVKI   66 (277)
T ss_pred             EEcCCCEEEEECCCCCcHHHHHHHHhcCCCCCCCEEEE
Confidence            37799999999999999999999888776655665544

>PRK13643 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=98.89  E-value=9.2e-09  Score=90.56  Aligned_cols=58  Identities=21%  Similarity=0.221  Sum_probs=40.2

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCC----C---HHHHHHcCCCccc
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENAL----D---PSLAEAMGIDAEN  174 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~----~---~~~~~~~g~~~~~  174 (264)
                      -+++|+++.|.||||+|||||+..++....+..+.+ +++.....    .   ..+.+.+|+.+++
T Consensus        28 ~i~~Ge~v~i~G~nGsGKSTLl~~l~Gl~~p~~G~i-~~~g~~i~~~~~~~~~~~~~~~ig~v~q~   92 (288)
T PRK13643         28 EVKKGSYTALIGHTGSGKSTLLQHLNGLLQPTEGKV-TVGDIVVSSTSKQKEIKPVRKKVGVVFQF   92 (288)
T ss_pred             EEcCCCEEEEECCCCChHHHHHHHHhcCCCCCCcEE-EECCEECccccccccHHHHHhhEEEEecC
Confidence            478999999999999999999999887665555555 44433211    1   1234557776665

>PRK11231 fecE iron-dicitrate transporter ATP-binding subunit; Provisional

Probab=98.89  E-value=1.2e-08  Score=88.18  Aligned_cols=38  Identities=26%  Similarity=0.409  Sum_probs=30.9

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEE
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAY  153 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~  153 (264)
                      -+++|+++.|.|+||+|||||+..++....+..+.+.+
T Consensus        24 ~i~~Ge~~~l~G~nGsGKSTLl~~l~Gl~~~~~G~i~~   61 (255)
T PRK11231         24 SLPTGKITALIGPNGCGKSTLLKCFARLLTPQSGTVFL   61 (255)
T ss_pred             EEcCCcEEEEECCCCCCHHHHHHHHhCCcCCCCcEEEE
Confidence            36799999999999999999999888766555555544

>PRK13639 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=98.89  E-value=1.4e-08  Score=88.89  Aligned_cols=59  Identities=24%  Similarity=0.286  Sum_probs=39.4

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCC--C--HHHHHHcCCCccc
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENAL--D--PSLAEAMGIDAEN  174 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~--~--~~~~~~~g~~~~~  174 (264)
                      -+.+|+++.|.||||+|||||+..++.......+.+.|-..+...  .  ..+.+.+++.+++
T Consensus        24 ~i~~Ge~~~l~G~nGsGKSTLl~~i~Gl~~~~~G~i~~~g~~~~~~~~~~~~~~~~i~~v~q~   86 (275)
T PRK13639         24 KAEKGEMVALLGPNGAGKSTLFLHFNGILKPTSGEVLIKGEPIKYDKKSLLEVRKTVGIVFQN   86 (275)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhCCCCCCccEEEECCEECccccchHHHHHhheEEEeeC
Confidence            478999999999999999999998887655555555443322111  1  1234556766665

>PRK13641 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=98.89  E-value=1.2e-08  Score=89.85  Aligned_cols=58  Identities=21%  Similarity=0.229  Sum_probs=39.3

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCC-----C--HHHHHHcCCCccc
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENAL-----D--PSLAEAMGIDAEN  174 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~-----~--~~~~~~~g~~~~~  174 (264)
                      -+++|+++.|.||||+|||||+..++....+..+.+ +++.....     .  ..+...+|+.+++
T Consensus        29 ~i~~Ge~~~iiG~NGaGKSTLl~~l~Gl~~p~~G~i-~~~g~~~~~~~~~~~~~~~~~~ig~v~q~   93 (287)
T PRK13641         29 ELEEGSFVALVGHTGSGKSTLMQHFNALLKPSSGTI-TIAGYHITPETGNKNLKKLRKKVSLVFQF   93 (287)
T ss_pred             EEeCCCEEEEECCCCCCHHHHHHHHhcCCCCCCcEE-EECCEECccccccchHHHHHhceEEEEeC
Confidence            478999999999999999999988887655555554 44433211     1  1233456766665

>PRK13632 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=98.89  E-value=1.3e-08  Score=88.86  Aligned_cols=38  Identities=24%  Similarity=0.332  Sum_probs=30.7

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEE
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAY  153 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~  153 (264)
                      -+++|+++.|.||||+|||||+..++....+..|.+.+
T Consensus        31 ~i~~Ge~~~l~G~nGsGKSTLl~~l~Gl~~p~~G~I~~   68 (271)
T PRK13632         31 EINEGEYVAILGHNGSGKSTISKILTGLLKPQSGEIKI   68 (271)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhcCCCCCCceEEE
Confidence            57899999999999999999998887766555555443

>cd03251 ABCC_MsbA MsbA is an essential ABC transporter, closely related to eukaryotic MDR proteins

Probab=98.88  E-value=2.1e-08  Score=85.40  Aligned_cols=60  Identities=23%  Similarity=0.366  Sum_probs=40.2

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCC--CC-HHHHHHcCCCcccee
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENA--LD-PSLAEAMGIDAENLL  176 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~--~~-~~~~~~~g~~~~~l~  176 (264)
                      -+++|+++.|.||||+|||||+..++....+..+.+.+ +.+..  .. ..+.+.+++.+++..
T Consensus        24 ~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~p~~G~i~~-~g~~~~~~~~~~~~~~i~~~~q~~~   86 (234)
T cd03251          24 DIPAGETVALVGPSGSGKSTLVNLIPRFYDVDSGRILI-DGHDVRDYTLASLRRQIGLVSQDVF   86 (234)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhccccCCCCEEEE-CCEEhhhCCHHHHHhhEEEeCCCCe
Confidence            37899999999999999999999888776666666544 33221  11 123445666555433

ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PRK10419 nikE nickel transporter ATP-binding protein NikE; Provisional

Probab=98.88  E-value=1.8e-08  Score=87.77  Aligned_cols=38  Identities=29%  Similarity=0.462  Sum_probs=30.9

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEE
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAY  153 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~  153 (264)
                      -+.+|+++.|.||||+|||||+..++....+..+.+.+
T Consensus        34 ~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~p~sG~i~~   71 (268)
T PRK10419         34 SLKSGETVALLGRSGCGKSTLARLLVGLESPSQGNVSW   71 (268)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhCCCCCCCcEEEE
Confidence            47899999999999999999999888765555555544

>PRK13644 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=98.87  E-value=1.5e-08  Score=88.56  Aligned_cols=59  Identities=27%  Similarity=0.383  Sum_probs=39.1

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCC-C--HHHHHHcCCCccc
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENAL-D--PSLAEAMGIDAEN  174 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~-~--~~~~~~~g~~~~~  174 (264)
                      -+++|+++.|.||||+|||||+..++....+..+.+.+.+.+... .  ..+.+.+|+.+++
T Consensus        24 ~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~p~~G~i~~~g~~~~~~~~~~~~~~~i~~v~q~   85 (274)
T PRK13644         24 VIKKGEYIGIIGKNGSGKSTLALHLNGLLRPQKGKVLVSGIDTGDFSKLQGIRKLVGIVFQN   85 (274)
T ss_pred             EEeCCCEEEEECCCCCCHHHHHHHHhcCCCCCCceEEECCEECCccccHHHHHhheEEEEEC
Confidence            378999999999999999999999888665555555443322111 1  2334456665554

>cd03253 ABCC_ATM1_transporter ATM1 is an ABC transporter that is expressed in the mitochondria

Probab=98.87  E-value=1.7e-08  Score=86.06  Aligned_cols=38  Identities=26%  Similarity=0.360  Sum_probs=31.5

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEE
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAY  153 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~  153 (264)
                      -+++|+++.|.||||+|||||+..++....+..+.+.+
T Consensus        23 ~i~~Ge~~~l~G~nGsGKSTLl~~i~Gl~~~~~G~v~~   60 (236)
T cd03253          23 TIPAGKKVAIVGPSGSGKSTILRLLFRFYDVSSGSILI   60 (236)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhcccCCCCCEEEE
Confidence            47899999999999999999999988876555665544

Although the specific function of ATM1 is unknown, its disruption results in the accumulation of excess mitochondrial iron, loss of mitochondrial cytochromes, oxidative damage to mitochondrial DNA, and decreased levels of cytosolic heme proteins. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PRK13633 cobalt transporter ATP-binding subunit; Provisional

Probab=98.87  E-value=2.1e-08  Score=87.96  Aligned_cols=58  Identities=28%  Similarity=0.331  Sum_probs=39.6

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCC----HHHHHHcCCCccc
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALD----PSLAEAMGIDAEN  174 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~----~~~~~~~g~~~~~  174 (264)
                      -+.+|+++.|.|+||+|||||+..++....+..|.+. ++......    ..+.+.+|+.+++
T Consensus        32 ~i~~Ge~~~l~G~nGsGKSTLl~~l~Gl~~~~~G~i~-i~g~~i~~~~~~~~~~~~i~~v~q~   93 (280)
T PRK13633         32 EVKKGEFLVILGRNGSGKSTIAKHMNALLIPSEGKVY-VDGLDTSDEENLWDIRNKAGMVFQN   93 (280)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhCCCCCCCceEE-ECCEeccccccHHHHhhheEEEecC
Confidence            4789999999999999999999888877665555554 44332211    1234456665554

>PRK13649 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=98.87  E-value=1.3e-08  Score=89.19  Aligned_cols=38  Identities=18%  Similarity=0.202  Sum_probs=31.3

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEE
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAY  153 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~  153 (264)
                      -+++|+++.|.||||+|||||+..++....+..+.+.+
T Consensus        29 ~i~~Ge~~~l~G~nGsGKSTLl~~i~Gl~~p~~G~i~~   66 (280)
T PRK13649         29 TIEDGSYTAFIGHTGSGKSTIMQLLNGLHVPTQGSVRV   66 (280)
T ss_pred             EEcCCcEEEEECCCCCCHHHHHHHHhCCCCCCceEEEE
Confidence            47899999999999999999998888766555555544

>COG4618 ArpD ABC-type protease/lipase transport system, ATPase and permease components [General function prediction only]

Probab=98.85  E-value=2.4e-08  Score=91.71  Aligned_cols=63  Identities=21%  Similarity=0.226  Sum_probs=47.8

Q ss_pred             CCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCC--CCHHHHHHcCCCccceeEeC
Q 024705          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENA--LDPSLAEAMGIDAENLLIAQ  179 (264)
Q Consensus       117 l~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~--~~~~~~~~~g~~~~~l~~~~  179 (264)
                      +.+|+...|+||+|||||||++.+.....+..+.|-+-..+-.  .....-+.+||-+|++.+++
T Consensus       359 l~~G~~lgIIGPSgSGKSTLaR~lvG~w~p~~G~VRLDga~l~qWd~e~lG~hiGYLPQdVeLF~  423 (580)
T COG4618         359 LQAGEALGIIGPSGSGKSTLARLLVGIWPPTSGSVRLDGADLRQWDREQLGRHIGYLPQDVELFD  423 (580)
T ss_pred             ecCCceEEEECCCCccHHHHHHHHHcccccCCCcEEecchhhhcCCHHHhccccCcCcccceecC
Confidence            6799999999999999999999999888776666554333322  22256778899999887654

>PRK10762 D-ribose transporter ATP binding protein; Provisional

Probab=98.85  E-value=1.5e-08  Score=95.95  Aligned_cols=38  Identities=21%  Similarity=0.371  Sum_probs=30.9

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEE
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAY  153 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~  153 (264)
                      -+.+|+++.|.||||||||||+..++....+..+.+.+
T Consensus        26 ~i~~Ge~~~l~G~NGsGKSTLl~~l~G~~~p~~G~i~~   63 (501)
T PRK10762         26 NVYPGRVMALVGENGAGKSTMMKVLTGIYTRDAGSILY   63 (501)
T ss_pred             EEcCCeEEEEECCCCCCHHHHHHHHhCCCCCCCcEEEE
Confidence            47799999999999999999998888766555555544

>TIGR02982 heterocyst_DevA ABC exporter ATP-binding subunit, DevA family

Probab=98.85  E-value=2e-08  Score=84.86  Aligned_cols=38  Identities=29%  Similarity=0.230  Sum_probs=30.3

Q ss_pred             CCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEe
Q 024705          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLD  155 (264)
Q Consensus       117 l~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~  155 (264)
                      +++|+++.|.|+||+|||||+..++....+..+.+ +++
T Consensus        28 i~~G~~~~I~G~nGsGKStLl~~l~G~~~~~~G~i-~~~   65 (220)
T TIGR02982        28 INPGEIVILTGPSGSGKTTLLTLIGGLRSVQEGSL-KVL   65 (220)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhCCCCCCCeEE-EEC
Confidence            67999999999999999999988887654445544 444

Members of this protein family are found mostly in the Cyanobacteria, but also in the Planctomycetes. Cyanobacterial examples are involved in heterocyst formation, by which some fraction of members of the colony undergo a developmental change and become capable of nitrogen fixation. The DevBCA proteins are thought export of either heterocyst-specific glycolipids or an enzyme essential for formation of the laminated layer found in heterocysts.

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

Probab=98.85  E-value=3e-08  Score=76.36  Aligned_cols=114  Identities=20%  Similarity=0.325  Sum_probs=77.4

Q ss_pred             CCCcEEEEEecCCCChHHHHHHHHHHHhhc-----CCeEEEEecCCCCCH-----HHHHHcCCCccceeEeCCCCHHHHH
Q 024705          118 PKGRIVEIYGREASGKTTLALHVIKEAQKL-----GGYCAYLDVENALDP-----SLAEAMGIDAENLLIAQPDSAENLL  187 (264)
Q Consensus       118 ~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~-----g~~v~~~~~e~~~~~-----~~~~~~g~~~~~l~~~~~~~~ee~~  187 (264)
                      +.+.++.|.||+|+|||+++..++......     ...++++........     .....++.....     ..+..++.
T Consensus         2 ~~~~~~~i~G~~G~GKT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~~~~~-----~~~~~~l~   76 (131)
T PF13401_consen    2 QSQRILVISGPPGSGKTTLIKRLARQLNAEAEIKNHPDVIYVNCPSSRTPRDFAQEILEALGLPLKS-----RQTSDELR   76 (131)
T ss_dssp             -----EEEEE-TTSSHHHHHHHHHHHHHHHHHHCCCEEEEEEEHHHHSSHHHHHHHHHHHHT-SSSS-----TS-HHHHH
T ss_pred             CCCcccEEEcCCCCCHHHHHHHHHHHhHHhhhccCCCcEEEEEeCCCCCHHHHHHHHHHHhCccccc-----cCCHHHHH
Confidence            356789999999999999999999988653     667888876554432     345556655444     45677788


Q ss_pred             HHHHHHhhcCCccEEEEcCccccccccccCCCcCCCCcHHHHHHHHHHHHHHHHHHhccCcEEEEEccc
Q 024705          188 SVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQV  256 (264)
Q Consensus       188 ~~i~~~~~~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r~i~~~L~~l~~~l~~~g~tVi~i~h~  256 (264)
                      ..+...+...+..+++||.+..+. .                ......|+.+.   .+.++.+|++.+.
T Consensus        77 ~~~~~~l~~~~~~~lviDe~~~l~-~----------------~~~l~~l~~l~---~~~~~~vvl~G~~  125 (131)
T PF13401_consen   77 SLLIDALDRRRVVLLVIDEADHLF-S----------------DEFLEFLRSLL---NESNIKVVLVGTP  125 (131)
T ss_dssp             HHHHHHHHHCTEEEEEEETTHHHH-T----------------HHHHHHHHHHT---CSCBEEEEEEESS
T ss_pred             HHHHHHHHhcCCeEEEEeChHhcC-C----------------HHHHHHHHHHH---hCCCCeEEEEECh
Confidence            888777777777899999999863 1                11334555554   6889999999876

>PRK13631 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=98.84  E-value=2.1e-08  Score=89.61  Aligned_cols=38  Identities=29%  Similarity=0.281  Sum_probs=31.6

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEE
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAY  153 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~  153 (264)
                      -+++|+++.|.|+||||||||+..++....+..|.+.+
T Consensus        48 ~i~~Ge~~~I~G~nGsGKSTLl~~L~Gl~~p~~G~I~i   85 (320)
T PRK13631         48 TFEKNKIYFIIGNSGSGKSTLVTHFNGLIKSKYGTIQV   85 (320)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhCCCCCCCCeEEE
Confidence            47899999999999999999998888766555665544

>cd03252 ABCC_Hemolysin The ABC-transporter hemolysin B is a central component of the secretion machinery that translocates the toxin, hemolysin A, in a Sec-independent fashion across both membranes of E

Probab=98.84  E-value=2e-08  Score=85.69  Aligned_cols=38  Identities=29%  Similarity=0.357  Sum_probs=31.9

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEE
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAY  153 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~  153 (264)
                      -+++|+++.|.||||+|||||+..++....+..+.+.|
T Consensus        24 ~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~~~~G~i~~   61 (237)
T cd03252          24 RIKPGEVVGIVGRSGSGKSTLTKLIQRFYVPENGRVLV   61 (237)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhcCcCCCCCEEEE
Confidence            37899999999999999999999988877666666554

coli. The hemolysin A (HlyA) transport machinery is composed of the ATP-binding cassette (ABC) transporter HlyB located in the inner membrane, hemolysin D (HlyD), also anchored in the inner membrane, and TolC, which resides in the outer membrane. HlyD apparently forms a continuous channel that bridges the entire periplasm, interacting with TolC and HlyB. This arrangement prevents the appearance of periplasmic intermediates of HlyA during substrate transport. Little is known about the molecular details of HlyA transport, but it is evident that ATP-hydrolysis by the ABC-transporter HlyB is a necessary source of energy.

>cd03260 ABC_PstB_phosphate_transporter Phosphate uptake is of fundamental importance in the cell physiology of bacteria because phosphate is required as a nutrient

Probab=98.84  E-value=5.4e-09  Score=88.65  Aligned_cols=69  Identities=23%  Similarity=0.266  Sum_probs=44.7

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHH-----hhcCCeEEEEecCCCC--C---HHHHHHcCCCccceeEeCCCCHHH
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEA-----QKLGGYCAYLDVENAL--D---PSLAEAMGIDAENLLIAQPDSAEN  185 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~-----~~~g~~v~~~~~e~~~--~---~~~~~~~g~~~~~l~~~~~~~~ee  185 (264)
                      -+++|+++.|.||||+|||||+..++...     .+..+.+.+ +.+...  .   ..+.+.+++.+++..++ ..++.+
T Consensus        22 ~i~~Ge~~~i~G~nGsGKSTLl~~i~G~~~~~~~~~~~G~i~~-~g~~~~~~~~~~~~~~~~i~~~~q~~~~~-~~tv~e   99 (227)
T cd03260          22 DIPKGEITALIGPSGCGKSTLLRLLNRLNDLIPGAPDEGEVLL-DGKDIYDLDVDVLELRRRVGMVFQKPNPF-PGSIYD   99 (227)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHHhhcccccCCCCCeEEEE-CCEEhhhcchHHHHHHhhEEEEecCchhc-cccHHH
Confidence            47799999999999999999999888876     555555544 332211  1   12344577766665444 344443


Q ss_pred             H
Q 024705          186 L  186 (264)
Q Consensus       186 ~  186 (264)
                      .
T Consensus       100 ~  100 (227)
T cd03260         100 N  100 (227)
T ss_pred             H
Confidence            3

The Pst system of E. coli comprises four distinct subunits encoded by the pstS, pstA, pstB, and pstC genes. The PstS protein is a phosphate-binding protein located in the periplasmic space. P stA and PstC are hydrophobic and they form the transmembrane portion of the Pst system. PstB is the catalytic subunit, which couples the energy of ATP hydrolysis to the import of phosphate across cellular membranes through the Pst system, often referred as ABC-protein. PstB belongs to one of the largest superfamilies of proteins characterized by a highly conserved adenosine triphosphate (ATP) binding cassette (ABC), which is also a nucleotide binding domain (NBD).

>cd03234 ABCG_White The White subfamily represents ABC transporters homologous to the Drosophila white gene, which acts as a dimeric importer for eye pigment precursors

Probab=98.84  E-value=7.9e-09  Score=87.67  Aligned_cols=72  Identities=15%  Similarity=0.238  Sum_probs=46.7

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHh---hcCCeEEEEecCCCCCHHHHHHcCCCccceeEeCCCCHHHHHH
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQ---KLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLS  188 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~---~~g~~v~~~~~e~~~~~~~~~~~g~~~~~l~~~~~~~~ee~~~  188 (264)
                      -+++|+++.|.||||+|||||+..++....   +..+.+.+ +........+.+.+++.+++..++...++.+.+.
T Consensus        29 ~i~~Ge~~~l~G~nGsGKSTLlk~l~G~~~~~~~~~G~i~~-~g~~~~~~~~~~~i~~~~q~~~~~~~~tv~enl~  103 (226)
T cd03234          29 HVESGQVMAILGSSGSGKTTLLDAISGRVEGGGTTSGQILF-NGQPRKPDQFQKCVAYVRQDDILLPGLTVRETLT  103 (226)
T ss_pred             EEcCCeEEEEECCCCCCHHHHHHHHhCccCCCCCCceEEEE-CCEECChHHhcccEEEeCCCCccCcCCcHHHHHH
Confidence            478999999999999999999998887765   44555544 3322211233445676666655544445554443

The eye pigmentation of Drosophila is developed from the synthesis and deposition in the cells of red pigments, which are synthesized from guanine, and brown pigments, which are synthesized from tryptophan. The pigment precursors are encoded by the white, brown, and scarlet genes, respectively. Evidence from genetic and biochemical studies suggest that the White and Brown proteins function as heterodimers to import guanine, while the White and Scarlet proteins function to import tryptophan. However, a recent study also suggests that White may be involved in the transport of a metabolite, such as 3-hydroxykynurenine, across intracellular membranes. Mammalian ABC transporters belonging to the White subfamily (ABCG1, ABCG5, and ABCG8) have been shown to be involved in the regulation of lipid-trafficking mechanisms in

>COG1117 PstB ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=98.84  E-value=1.7e-08  Score=83.40  Aligned_cols=64  Identities=17%  Similarity=0.156  Sum_probs=42.7

Q ss_pred             CCCCCCcEEEEEecCCCChHHHHHHHHHHHhh-----cCCeEEEEecCCCC---CH-HHHHHcCCCccceeEe
Q 024705          115 GGLPKGRIVEIYGREASGKTTLALHVIKEAQK-----LGGYCAYLDVENAL---DP-SLAEAMGIDAENLLIA  178 (264)
Q Consensus       115 gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~-----~g~~v~~~~~e~~~---~~-~~~~~~g~~~~~l~~~  178 (264)
                      ..+++++++.+.||+|||||||+..+-.-...     -.|.+.|...+.-.   +. ...+++|+..|....+
T Consensus        28 l~i~~~~VTAlIGPSGcGKST~LR~lNRmndl~~~~r~~G~v~~~g~ni~~~~~d~~~lRr~vGMVFQkPnPF  100 (253)
T COG1117          28 LDIPKNKVTALIGPSGCGKSTLLRCLNRMNDLIPGARVEGEVLLDGKNIYDPKVDVVELRRRVGMVFQKPNPF  100 (253)
T ss_pred             eeccCCceEEEECCCCcCHHHHHHHHHhhcccCcCceEEEEEEECCeeccCCCCCHHHHHHHheeeccCCCCC
Confidence            47999999999999999999998876432221     22445554433221   12 5678899988865443

>PRK09700 D-allose transporter ATP-binding protein; Provisional

Probab=98.84  E-value=1.8e-08  Score=95.50  Aligned_cols=38  Identities=21%  Similarity=0.255  Sum_probs=31.1

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEE
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAY  153 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~  153 (264)
                      -+++|+++.|.||||||||||+..++....+..|.+.+
T Consensus        27 ~i~~Ge~~~liG~nGsGKSTLl~~i~Gl~~p~~G~i~~   64 (510)
T PRK09700         27 TVYPGEIHALLGENGAGKSTLMKVLSGIHEPTKGTITI   64 (510)
T ss_pred             EEcCCcEEEEECCCCCCHHHHHHHHcCCcCCCccEEEE
Confidence            47799999999999999999998888766555565544

>PRK09473 oppD oligopeptide transporter ATP-binding component; Provisional

Probab=98.84  E-value=2.5e-08  Score=89.47  Aligned_cols=38  Identities=26%  Similarity=0.440  Sum_probs=30.3

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhc---CCeEEE
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKL---GGYCAY  153 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~---g~~v~~  153 (264)
                      -+.+|+++.|.|+||||||||+..++....+.   .|.+.|
T Consensus        38 ~i~~Ge~~~ivG~sGsGKSTL~~~l~Gl~~p~~~~sG~I~~   78 (330)
T PRK09473         38 SLRAGETLGIVGESGSGKSQTAFALMGLLAANGRIGGSATF   78 (330)
T ss_pred             EEcCCCEEEEECCCCchHHHHHHHHHcCCCCCCCCCeEEEE
Confidence            37899999999999999999999888766443   455544

>TIGR03269 met_CoM_red_A2 methyl coenzyme M reductase system, component A2

Probab=98.84  E-value=2.2e-08  Score=95.23  Aligned_cols=38  Identities=24%  Similarity=0.424  Sum_probs=30.6

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHH--hhcCCeEEE
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEA--QKLGGYCAY  153 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~--~~~g~~v~~  153 (264)
                      -+.+|+++.|.||||||||||+..++...  .+..+.+.+
T Consensus        22 ~i~~Ge~~~iiG~nGsGKSTLl~~l~Gl~~~~p~~G~i~~   61 (520)
T TIGR03269        22 TIEEGEVLGILGRSGAGKSVLMHVLRGMDQYEPTSGRIIY   61 (520)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhhcccCCCCceEEEE
Confidence            47899999999999999999999988875  344555544

The enzyme that catalyzes the final step in methanogenesis, methyl coenzyme M reductase, contains alpha, beta, and gamma chains. In older literature, the complex of alpha, beta, and gamma chains was termed component C, while this single chain protein was termed methyl coenzyme M reductase system component A2.

>PRK11701 phnK phosphonate C-P lyase system protein PhnK; Provisional

Probab=98.84  E-value=2.9e-08  Score=85.92  Aligned_cols=39  Identities=31%  Similarity=0.328  Sum_probs=31.9

Q ss_pred             CCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEe
Q 024705          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLD  155 (264)
Q Consensus       117 l~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~  155 (264)
                      +.+|+++.|.||||+|||||+..++....+..|.+.|..
T Consensus        29 i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~p~~G~i~~~g   67 (258)
T PRK11701         29 LYPGEVLGIVGESGSGKTTLLNALSARLAPDAGEVHYRM   67 (258)
T ss_pred             EeCCCEEEEECCCCCCHHHHHHHHhCCCCCCCCEEEECC
Confidence            789999999999999999999988887655566655433

>PRK11022 dppD dipeptide transporter ATP-binding subunit; Provisional

Probab=98.83  E-value=2.8e-08  Score=88.97  Aligned_cols=30  Identities=27%  Similarity=0.489  Sum_probs=26.8

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHh
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQ  145 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~  145 (264)
                      -+.+|+++.|.|+||||||||+..++....
T Consensus        29 ~i~~Ge~~~lvG~sGsGKSTL~~~l~Gll~   58 (326)
T PRK11022         29 SVKQGEVVGIVGESGSGKSVSSLAIMGLID   58 (326)
T ss_pred             EECCCCEEEEECCCCChHHHHHHHHHcCCC
Confidence            478999999999999999999999887654

>PRK13541 cytochrome c biogenesis protein CcmA; Provisional

Probab=98.83  E-value=1e-08  Score=85.01  Aligned_cols=38  Identities=24%  Similarity=0.252  Sum_probs=31.1

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEE
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAY  153 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~  153 (264)
                      -+++|++++|.|+||+|||||+..++....+..+.+.+
T Consensus        22 ~i~~Ge~~~l~G~nGsGKSTLl~~l~G~~~~~~G~i~~   59 (195)
T PRK13541         22 TFLPSAITYIKGANGCGKSSLLRMIAGIMQPSSGNIYY   59 (195)
T ss_pred             EEcCCcEEEEECCCCCCHHHHHHHHhcCCCCCCcEEEE
Confidence            47799999999999999999999888876555555543

>cd03249 ABC_MTABC3_MDL1_MDL2 MTABC3 (also known as ABCB6) is a mitochondrial ATP-binding cassette protein involved in iron homeostasis and one of four ABC transporters expressed in the mitochondrial inner membrane, the other three being MDL1(ABC7), MDL2, and ATM1

Probab=98.83  E-value=2.5e-08  Score=85.22  Aligned_cols=38  Identities=21%  Similarity=0.336  Sum_probs=31.7

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEE
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAY  153 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~  153 (264)
                      -+++|+++.|.||||+|||||+..++....+..+.+.+
T Consensus        25 ~i~~Ge~~~l~G~nGsGKSTLl~~i~G~~~~~~G~i~~   62 (238)
T cd03249          25 TIPPGKTVALVGSSGCGKSTVVSLLERFYDPTSGEILL   62 (238)
T ss_pred             EecCCCEEEEEeCCCCCHHHHHHHHhccCCCCCCEEEE
Confidence            37899999999999999999999888876666666544

In fact, the yeast MDL1 (multidrug resistance-like protein 1) and MDL2 (multidrug resistance-like protein 2) transporters are also included in this CD. MDL1 is an ATP-dependent permease that acts as a high-copy suppressor of ATM1 and is thought to have a role in resistance to oxidative stress. Interestingly, subfamily B is more closely related to the carboxyl-terminal component of subfamily C than the two halves of ABCC molecules are with one another.

>PRK10938 putative molybdenum transport ATP-binding protein ModF; Provisional

Probab=98.83  E-value=3.2e-08  Score=93.38  Aligned_cols=131  Identities=15%  Similarity=0.150  Sum_probs=75.1

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCC--C-HHHHHHcCCCccceeE--e-C-----CCCHH
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENAL--D-PSLAEAMGIDAENLLI--A-Q-----PDSAE  184 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~--~-~~~~~~~g~~~~~l~~--~-~-----~~~~e  184 (264)
                      -+++|+++.|.||||||||||+..++....+..+.+. ++.....  . ..+.+.+|+.+++...  . .     ..++.
T Consensus        25 ~i~~Ge~~~liG~nGsGKSTLl~~l~G~~~p~~G~i~-~~~~~~~~~~~~~~~~~i~~~~q~~~~~~~~~~~~~~~~~~~  103 (490)
T PRK10938         25 TLNAGDSWAFVGANGSGKSALARALAGELPLLSGERQ-SQFSHITRLSFEQLQKLVSDEWQRNNTDMLSPGEDDTGRTTA  103 (490)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhccCCCCCceEE-ECCcccccCCHHHHHHHhceeccCcchhhcccchhhccccHH
Confidence            4789999999999999999999888876655555554 3332211  1 1233446666554211  0 0     11111


Q ss_pred             HHH-------HHHHHHh-----------------------------hcCCccEEEEcCccccccccccCCCcCCCCcHHH
Q 024705          185 NLL-------SVVDTLT-----------------------------KSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQ  228 (264)
Q Consensus       185 e~~-------~~i~~~~-----------------------------~~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q  228 (264)
                      +.+       ..+..++                             -..+++++++|...+-.             +...
T Consensus       104 ~~~~~~~~~~~~~~~~l~~~~l~~~~~~~~~~LSgG~~qrv~la~al~~~p~lllLDEPt~~L-------------D~~~  170 (490)
T PRK10938        104 EIIQDEVKDPARCEQLAQQFGITALLDRRFKYLSTGETRKTLLCQALMSEPDLLILDEPFDGL-------------DVAS  170 (490)
T ss_pred             HhcccchhHHHHHHHHHHHcCCHhhhhCCcccCCHHHHHHHHHHHHHHcCCCEEEEcCCcccC-------------CHHH
Confidence            110       0010000                             01356777777665544             2244


Q ss_pred             HHHHHHHHHHHHHHHhccCcEEEEEcccchHhhhcC
Q 024705          229 SRIMTQALRKIHYSLCQSHTLIIFLNQVKVLLLKHF  264 (264)
Q Consensus       229 ~r~i~~~L~~l~~~l~~~g~tVi~i~h~~~~~~~~~  264 (264)
                      .+.+.+.|++++   + .|.|||+++|..+.+...|
T Consensus       171 ~~~l~~~l~~~~---~-~g~tvii~tH~~~~~~~~~  202 (490)
T PRK10938        171 RQQLAELLASLH---Q-SGITLVLVLNRFDEIPDFV  202 (490)
T ss_pred             HHHHHHHHHHHH---h-cCCeEEEEeCCHHHHHhhC
Confidence            455666666653   3 4899999999988776543

>TIGR01257 rim_protein retinal-specific rim ABC transporter

Probab=98.83  E-value=1.9e-08  Score=107.19  Aligned_cols=132  Identities=13%  Similarity=0.138  Sum_probs=81.8

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCC-HHHHHHcCCCccceeEeCCCCHHHHHHHHHHH-
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALD-PSLAEAMGIDAENLLIAQPDSAENLLSVVDTL-  193 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~-~~~~~~~g~~~~~l~~~~~~~~ee~~~~i~~~-  193 (264)
                      ++++|+++.|.||||+||||++..++....+..|.+.+.+.+.... ....+.+|+-+|...+....++.|.+...... 
T Consensus      1961 ~I~~GEi~gLLG~NGAGKTTLlkmL~Gll~ptsG~I~i~G~~i~~~~~~~r~~IGy~pQ~~~L~~~LTv~E~L~l~a~l~ 2040 (2272)
T TIGR01257      1961 GVRPGECFGLLGVNGAGKTTTFKMLTGDTTVTSGDATVAGKSILTNISDVHQNMGYCPQFDAIDDLLTGREHLYLYARLR 2040 (2272)
T ss_pred             EEcCCcEEEEECCCCCcHHHHHHHHhCCCCCCccEEEECCEECcchHHHHhhhEEEEeccccCCCCCCHHHHHHHHHHhc
Confidence            6899999999999999999999888887766666664433222111 12344578777765444444444333221100 


Q ss_pred             -------------------------------------------hhcCCccEEEEcCccccccccccCCCcCCCCcHHHHH
Q 024705          194 -------------------------------------------TKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSR  230 (264)
Q Consensus       194 -------------------------------------------~~~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r  230 (264)
                                                                 .--++|+++++|+.++-+             +...++
T Consensus      2041 g~~~~~~~~~v~~lLe~lgL~~~~dk~~~~LSGGqKqRLslA~ALi~~P~VLLLDEPTsGL-------------Dp~sr~ 2107 (2272)
T TIGR01257      2041 GVPAEEIEKVANWSIQSLGLSLYADRLAGTYSGGNKRKLSTAIALIGCPPLVLLDEPTTGM-------------DPQARR 2107 (2272)
T ss_pred             CCCHHHHHHHHHHHHHHcCCHHHhcCChhhCCHHHHHHHHHHHHHhcCCCEEEEECCCCCC-------------CHHHHH
Confidence                                                       001456667777655443             223444


Q ss_pred             HHHHHHHHHHHHHhccCcEEEEEcccchHhhhcC
Q 024705          231 IMTQALRKIHYSLCQSHTLIIFLNQVKVLLLKHF  264 (264)
Q Consensus       231 ~i~~~L~~l~~~l~~~g~tVi~i~h~~~~~~~~~  264 (264)
                      .+.+.++++    ++.|++||+++|..++++..|
T Consensus      2108 ~l~~lL~~l----~~~g~TIILtTH~mee~e~lc 2137 (2272)
T TIGR01257      2108 MLWNTIVSI----IREGRAVVLTSHSMEECEALC 2137 (2272)
T ss_pred             HHHHHHHHH----HhCCCEEEEEeCCHHHHHHhC
Confidence            455555555    344999999999999988755

This model describes the photoreceptor protein (rim protein) in eukaryotes. It is the member of ABC transporter superfamily. Rim protein is a membrane glycoprotein which is localized in the photoreceptor outer segment discs. Mutation/s in its genetic loci is implicated in the recessive Stargardt's disease.

>COG4619 ABC-type uncharacterized transport system, ATPase component [General function prediction only]

Probab=98.83  E-value=2.6e-08  Score=79.53  Aligned_cols=125  Identities=17%  Similarity=0.347  Sum_probs=78.4

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCC--H-HHHHHcCCCc-----------cceeEe---
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALD--P-SLAEAMGIDA-----------ENLLIA---  178 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~--~-~~~~~~g~~~-----------~~l~~~---  178 (264)
                      -+.+|+.+.|.||+|||||||...++....+..+ .++|..+.-..  + ....++.+..           +|+.+-   
T Consensus        25 ~v~~Ge~iaitGPSG~GKStllk~va~Lisp~~G-~l~f~Ge~vs~~~pea~Rq~VsY~~Q~paLfg~tVeDNlifP~~~  103 (223)
T COG4619          25 SVRAGEFIAITGPSGCGKSTLLKIVASLISPTSG-TLLFEGEDVSTLKPEAYRQQVSYCAQTPALFGDTVEDNLIFPWQI  103 (223)
T ss_pred             eecCCceEEEeCCCCccHHHHHHHHHhccCCCCc-eEEEcCccccccChHHHHHHHHHHHcCccccccchhhccccchHH
Confidence            4789999999999999999988888776655544 56666554322  2 2333332221           122110   


Q ss_pred             ---CCC--------------------------CHH-HHHHHHHHHhhcCCccEEEEcCccccccccccCCCcCCCCcHHH
Q 024705          179 ---QPD--------------------------SAE-NLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQ  228 (264)
Q Consensus       179 ---~~~--------------------------~~e-e~~~~i~~~~~~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q  228 (264)
                         .++                          ..| +....++.+  ...|+++.+|.+++-..             ...
T Consensus       104 r~rr~dr~aa~~llar~~l~~~~L~k~it~lSGGE~QriAliR~L--q~~P~ILLLDE~TsALD-------------~~n  168 (223)
T COG4619         104 RNRRPDRAAALDLLARFALPDSILTKNITELSGGEKQRIALIRNL--QFMPKILLLDEITSALD-------------ESN  168 (223)
T ss_pred             hccCCChHHHHHHHHHcCCchhhhcchhhhccchHHHHHHHHHHh--hcCCceEEecCchhhcC-------------hhh
Confidence               000                          011 223334444  36789999998887662             134


Q ss_pred             HHHHHHHHHHHHHHHhccCcEEEEEcccchH
Q 024705          229 SRIMTQALRKIHYSLCQSHTLIIFLNQVKVL  259 (264)
Q Consensus       229 ~r~i~~~L~~l~~~l~~~g~tVi~i~h~~~~  259 (264)
                      .+.+...+.++.   ++.+++|+-|+|.-+.
T Consensus       169 kr~ie~mi~~~v---~~q~vAv~WiTHd~dq  196 (223)
T COG4619         169 KRNIEEMIHRYV---REQNVAVLWITHDKDQ  196 (223)
T ss_pred             HHHHHHHHHHHh---hhhceEEEEEecChHH
Confidence            455667777776   6889999999998765

>cd03369 ABCC_NFT1 Domain 2 of NFT1 (New full-length MRP-type transporter 1)

Probab=98.83  E-value=3.3e-08  Score=82.70  Aligned_cols=38  Identities=26%  Similarity=0.384  Sum_probs=31.1

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEE
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAY  153 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~  153 (264)
                      -+++|+++.|.|+||+|||||+..++....+..+.+.+
T Consensus        30 ~i~~G~~~~i~G~nGsGKSTLl~~l~Gl~~~~~G~i~~   67 (207)
T cd03369          30 KVKAGEKIGIVGRTGAGKSTLILALFRFLEAEEGKIEI   67 (207)
T ss_pred             EECCCCEEEEECCCCCCHHHHHHHHhcccCCCCCeEEE
Confidence            37899999999999999999999888766555555544

NFT1 belongs to the MRP (mulrtidrug resisitance-associated protein) family of ABC transporters. Some of the MRP members have five additional transmembrane segments in their N-terminas, but the function of these additional membrane-spanning domains is not clear. The MRP was found in the multidrug-resisting lung cancer cell in which p-glycoprotein was not overexpressed. MRP exports glutathione by drug stimulation, as well as, certain substrates in conjugated forms with anions such as glutathione, glucuronate, and sulfate.

>PRK10261 glutathione transporter ATP-binding protein; Provisional

Probab=98.82  E-value=2.3e-08  Score=96.99  Aligned_cols=40  Identities=23%  Similarity=0.369  Sum_probs=31.8

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEe
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLD  155 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~  155 (264)
                      -+++|+++.|.|+||||||||+..++....+..|.+.|..
T Consensus       346 ~i~~Ge~~~lvG~nGsGKSTLlk~i~Gl~~p~~G~I~~~g  385 (623)
T PRK10261        346 DLWPGETLSLVGESGSGKSTTGRALLRLVESQGGEIIFNG  385 (623)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHHcCCCCCCcEEEECC
Confidence            3679999999999999999999888876655566665533

>cd03254 ABCC_Glucan_exporter_like Glucan exporter ATP-binding protein

Probab=98.81  E-value=2.7e-08  Score=84.46  Aligned_cols=37  Identities=27%  Similarity=0.327  Sum_probs=30.6

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEE
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCA  152 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~  152 (264)
                      -+++|+++.|.||||+|||||+..++....+..+.+.
T Consensus        25 ~i~~G~~~~i~G~nGsGKSTLl~~l~G~~~~~~G~i~   61 (229)
T cd03254          25 SIKPGETVAIVGPTGAGKTTLINLLMRFYDPQKGQIL   61 (229)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhcCcCCCCCEEE
Confidence            4789999999999999999999999887655555543

In A. tumefaciens cyclic beta-1, 2-glucan must be transported into the periplasmic space to exert its action as a virluence factor. This subfamily belongs to the MRP-like family and is involved in drug, peptide, and lipid export. The MRP-like family, similar to all ABC proteins, have a common four-domain core structure constituted by two membrane-spanning domains each composed of six transmembrane (TM) helices and two nucleotide-binding domains (NBD). ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>TIGR03771 anch_rpt_ABC anchored repeat-type ABC transporter, ATP-binding subunit

Probab=98.81  E-value=8.1e-08  Score=81.37  Aligned_cols=35  Identities=26%  Similarity=0.387  Sum_probs=29.1

Q ss_pred             CCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeE
Q 024705          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYC  151 (264)
Q Consensus       117 l~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v  151 (264)
                      +++|+++.|.|+||||||||+..++.......+.+
T Consensus         3 i~~Ge~~~l~G~nGsGKSTLl~~l~G~~~~~~G~i   37 (223)
T TIGR03771         3 ADKGELLGLLGPNGAGKTTLLRAILGLIPPAKGTV   37 (223)
T ss_pred             cCCCcEEEEECCCCCCHHHHHHHHhCCCCCCCceE
Confidence            67999999999999999999998887665545544

This protein family is the ATP-binding cassette subunit of binding protein-dependent ABC transporter complex that strictly co-occurs with TIGR03769. TIGRFAMs model TIGR03769 describes a protein domain that occurs singly or as one of up to three repeats in proteins of a number of Actinobacteria, including Propionibacterium acnes KPA171202. The TIGR03769 domain occurs both in an adjacent gene for the substrate-binding protein and in additional (often nearby) proteins, often with LPXTG-like sortase recognition signals. Homologous ATP-binding subunits outside the scope of this family include manganese transporter MntA in Synechocystis sp. PCC 6803 and chelated iron transporter subunits. The function of this transporter complex is unknown.

>COG4559 ABC-type hemin transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=98.81  E-value=7.4e-08  Score=79.68  Aligned_cols=60  Identities=23%  Similarity=0.218  Sum_probs=48.4

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCC--HHHHHHcCCCccce
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALD--PSLAEAMGIDAENL  175 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~--~~~~~~~g~~~~~l  175 (264)
                      -+++|++..|.||||+|||||+..+...+.+.++.|.|+...-..-  ..+++..++-+|+-
T Consensus        23 ~~~pGev~ailGPNGAGKSTlLk~LsGel~p~~G~v~~~g~~l~~~~~~~lA~~raVlpQ~s   84 (259)
T COG4559          23 DLRPGEVLAILGPNGAGKSTLLKALSGELSPDSGEVTLNGVPLNSWPPEELARHRAVLPQNS   84 (259)
T ss_pred             eccCCcEEEEECCCCccHHHHHHHhhCccCCCCCeEeeCCcChhhCCHHHHHHHhhhcccCc
Confidence            3789999999999999999999999999998899999887554332  25676667766654

>smart00382 AAA ATPases associated with a variety of cellular activities

Probab=98.81  E-value=8.5e-08  Score=73.40  Aligned_cols=92  Identities=28%  Similarity=0.338  Sum_probs=57.8

Q ss_pred             CCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCHHHHHHcCCCccceeEeCCCCHHHHHHHHHHHhhcCC
Q 024705          119 KGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTKSGS  198 (264)
Q Consensus       119 ~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~~~~~~~g~~~~~l~~~~~~~~ee~~~~i~~~~~~~~  198 (264)
                      ++..++|.||||+||||++..++..+...+..+++++.+............  ..................+....+...
T Consensus         1 ~~~~~~l~G~~G~GKTtl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~   78 (148)
T smart00382        1 PGEVILIVGPPGSGKTTLARALARELGPPGGGVIYIDGEDILEEVLDQLLL--IIVGGKKASGSGELRLRLALALARKLK   78 (148)
T ss_pred             CCCEEEEECCCCCcHHHHHHHHHhccCCCCCCEEEECCEEccccCHHHHHh--hhhhccCCCCCHHHHHHHHHHHHHhcC
Confidence            367899999999999999999999887665578888877665542221110  000000011222333334444444445


Q ss_pred             ccEEEEcCcccccc
Q 024705          199 IDVIVVDSVAALIP  212 (264)
Q Consensus       199 ~~~vvIDsl~~~~~  212 (264)
                      +.+++||++..+..
T Consensus        79 ~~viiiDei~~~~~   92 (148)
T smart00382       79 PDVLILDEITSLLD   92 (148)
T ss_pred             CCEEEEECCcccCC
Confidence            79999999998874

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.

>PF13479 AAA_24: AAA domain

Probab=98.80  E-value=4.1e-08  Score=82.70  Aligned_cols=127  Identities=24%  Similarity=0.201  Sum_probs=77.0

Q ss_pred             CcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCHHHHHHcCCCccceeEeCCCCHHHHHHHHHHHhh-cCC
Q 024705          120 GRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTK-SGS  198 (264)
Q Consensus       120 G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~~~~~~~g~~~~~l~~~~~~~~ee~~~~i~~~~~-~~~  198 (264)
                      +-.++|+|+||+||||++..+        .+++|+++|........    .  .+...++..+.+++.+.+..+.. ..+
T Consensus         3 ~~~~lIyG~~G~GKTt~a~~~--------~k~l~id~E~g~~~~~~----~--~~~~~i~i~s~~~~~~~~~~l~~~~~~   68 (213)
T PF13479_consen    3 PIKILIYGPPGSGKTTLAASL--------PKPLFIDTENGSDSLKF----L--DDGDVIPITSWEDFLEALDELEEDEAD   68 (213)
T ss_pred             ceEEEEECCCCCCHHHHHHhC--------CCeEEEEeCCCccchhh----h--cCCCeeCcCCHHHHHHHHHHHHhccCC
Confidence            346899999999999998876        67999999987433110    0  02222334477788777765533 358


Q ss_pred             ccEEEEcCccccccc--cccC-------CCcCCCCcHHHHHHHHHHHHHHHHH-HhccCcEEEEEcccchHh
Q 024705          199 IDVIVVDSVAALIPK--CEIG-------VPINGMYSDAQSRIMTQALRKIHYS-LCQSHTLIIFLNQVKVLL  260 (264)
Q Consensus       199 ~~~vvIDsl~~~~~~--~~~~-------~~~~~~~~~~q~r~i~~~L~~l~~~-l~~~g~tVi~i~h~~~~~  260 (264)
                      ++.||||+++.+...  ....       .+.+..........+.+.+.++... +...|..||++.|...+-
T Consensus        69 y~tiVIDsis~~~~~~~~~~~~~~~~~~~~~~~~~~~~~yg~~~~~~~~~i~~l~~~~~~~VI~tah~~~~~  140 (213)
T PF13479_consen   69 YDTIVIDSISWLEDMCLEYICRQNKKKIKRSGDPDYGKGYGELQQEFMRFIDKLLNALGKNVIFTAHAKEEE  140 (213)
T ss_pred             CCEEEEECHHHHHHHHHHHHhhhhcccccccCCCcccchHHHHHHHHHHHHHHHHHHCCCcEEEEEEEEEEE
Confidence            999999999986421  1111       0101111112222334444444443 356899999999986543

>cd03223 ABCD_peroxisomal_ALDP Peroxisomal ATP-binding cassette transporter (Pat) is involved in the import of very long-chain fatty acids (VLCFA) into the peroxisome

Probab=98.80  E-value=1.2e-07  Score=76.69  Aligned_cols=113  Identities=14%  Similarity=0.111  Sum_probs=65.8

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCHHHHHHcCCCccceeEe-------------CCCC
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIA-------------QPDS  182 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~~~~~~~g~~~~~l~~~-------------~~~~  182 (264)
                      -+++|+++.|.||||+|||||+..++....+..+.+.+ +..        +.+++.+++..+.             ...+
T Consensus        23 ~i~~Ge~~~i~G~nGsGKSTLl~~l~G~~~~~~G~i~~-~~~--------~~i~~~~q~~~~~~~tv~~nl~~~~~~~LS   93 (166)
T cd03223          23 EIKPGDRLLITGPSGTGKSSLFRALAGLWPWGSGRIGM-PEG--------EDLLFLPQRPYLPLGTLREQLIYPWDDVLS   93 (166)
T ss_pred             EECCCCEEEEECCCCCCHHHHHHHHhcCCCCCCceEEE-CCC--------ceEEEECCCCccccccHHHHhhccCCCCCC
Confidence            37799999999999999999999988766555554432 211        1122222221111             1122


Q ss_pred             HH--HHHHHHHHHhhcCCccEEEEcCccccccccccCCCcCCCCcHHHHHHHHHHHHHHHHHHhccCcEEEEEcccchH
Q 024705          183 AE--NLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVKVL  259 (264)
Q Consensus       183 ~e--e~~~~i~~~~~~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r~i~~~L~~l~~~l~~~g~tVi~i~h~~~~  259 (264)
                      .-  ..+...+.++  .+++++++|+..+-...             ..++.+.+.++       +.+.++|+++|....
T Consensus        94 ~G~~~rv~laral~--~~p~~lllDEPt~~LD~-------------~~~~~l~~~l~-------~~~~tiiivsh~~~~  150 (166)
T cd03223          94 GGEQQRLAFARLLL--HKPKFVFLDEATSALDE-------------ESEDRLYQLLK-------ELGITVISVGHRPSL  150 (166)
T ss_pred             HHHHHHHHHHHHHH--cCCCEEEEECCccccCH-------------HHHHHHHHHHH-------HhCCEEEEEeCChhH
Confidence            22  2222333333  58899999987766521             22232333333       336899999998754

The peroxisomal membrane forms a permeability barrier for a wide variety of metabolites required for and formed during fatty acid beta-oxidation. To communicate with the cytoplasm and mitochondria, peroxisomes need dedicated proteins to transport such hydrophilic molecules across their membranes. X-linked adrenoleukodystrophy (X-ALD) is caused by mutations in the ALD gene, which encodes ALDP (adrenoleukodystrophy protein ), a peroxisomal integral membrane protein that is a member of the ATP-binding cassette (ABC) transporter protein family. The disease is characterized by a striking and unpredictable variation in phenotypic expression. Phenotypes include the rapidly progressive childhood cerebral form (CCALD), the milder adult form, adrenomyeloneuropathy (AMN), and variants without neurologic involvement (i.e. asympt

>PRK13549 xylose transporter ATP-binding subunit; Provisional

Probab=98.80  E-value=2.6e-08  Score=94.42  Aligned_cols=38  Identities=24%  Similarity=0.355  Sum_probs=29.8

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhh--cCCeEEE
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQK--LGGYCAY  153 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~--~g~~v~~  153 (264)
                      -+++|+++.|.||||||||||+..++....+  ..+.+.|
T Consensus        27 ~i~~Ge~~~l~G~nGsGKSTLl~~l~Gl~~~~~~~G~i~~   66 (506)
T PRK13549         27 KVRAGEIVSLCGENGAGKSTLMKVLSGVYPHGTYEGEIIF   66 (506)
T ss_pred             EEeCCeEEEEECCCCCCHHHHHHHHhCCCCCCCCCeEEEE
Confidence            4779999999999999999998888876543  3444443

>PRK10982 galactose/methyl galaxtoside transporter ATP-binding protein; Provisional

Probab=98.79  E-value=2.6e-08  Score=93.99  Aligned_cols=38  Identities=24%  Similarity=0.278  Sum_probs=30.4

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEE
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAY  153 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~  153 (264)
                      -+++|+++.|.||||||||||+..++....+..+.+.+
T Consensus        20 ~i~~Ge~~~liG~nGsGKSTLl~~l~Gl~~p~~G~i~~   57 (491)
T PRK10982         20 KVRPHSIHALMGENGAGKSTLLKCLFGIYQKDSGSILF   57 (491)
T ss_pred             EEcCCcEEEEECCCCCCHHHHHHHHcCCCCCCceEEEE
Confidence            47899999999999999999988888765554555443

>cd03220 ABC_KpsT_Wzt ABC_KpsT_Wzt The KpsT/Wzt ABC transporter subfamily is involved in extracellular polysaccharide export

Probab=98.79  E-value=6.7e-08  Score=81.94  Aligned_cols=37  Identities=24%  Similarity=0.384  Sum_probs=30.2

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEE
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCA  152 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~  152 (264)
                      -+++|+++.|.||||+|||||+..++....+..+.+.
T Consensus        44 ~i~~Ge~~~i~G~nGsGKSTLl~~l~G~~~p~~G~i~   80 (224)
T cd03220          44 EVPRGERIGLIGRNGAGKSTLLRLLAGIYPPDSGTVT   80 (224)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhCCCCCCceEEE
Confidence            3779999999999999999999988886655455443

Among the variety of membrane-linked or extracellular polysaccharides excreted by bacteria, only capsular polysaccharides, lipopolysaccharides, and teichoic acids have been shown to be exported by ABC transporters. A typical system is made of a conserved integral membrane and an ABC. In addition to these proteins, capsular polysaccharide exporter systems require two 'accessory' proteins to perform their function: a periplasmic (E.coli) or a lipid-anchored outer membrane protein called OMA (Neisseria meningitidis and Haemophilus influenzae) and a cytoplasmic membrane protein MPA2.

>PRK13409 putative ATPase RIL; Provisional

Probab=98.79  E-value=3.1e-08  Score=95.31  Aligned_cols=131  Identities=18%  Similarity=0.187  Sum_probs=74.6

Q ss_pred             CCCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEE------EEecCCCCCH------HHHH----------------
Q 024705          115 GGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCA------YLDVENALDP------SLAE----------------  166 (264)
Q Consensus       115 gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~------~~~~e~~~~~------~~~~----------------  166 (264)
                      +-+.+|+++.|.||||+|||||+..++....+..+.+.      |+..+.....      ....                
T Consensus       360 ~~i~~Geiv~l~G~NGsGKSTLlk~L~Gl~~p~~G~I~~~~~i~y~~Q~~~~~~~~tv~e~l~~~~~~~~~~~~~~~~L~  439 (590)
T PRK13409        360 GEIYEGEVIGIVGPNGIGKTTFAKLLAGVLKPDEGEVDPELKISYKPQYIKPDYDGTVEDLLRSITDDLGSSYYKSEIIK  439 (590)
T ss_pred             eEECCCCEEEEECCCCCCHHHHHHHHhCCCCCCceEEEEeeeEEEecccccCCCCCcHHHHHHHHhhhcChHHHHHHHHH
Confidence            35789999999999999999999998876655455442      3332211110      0000                


Q ss_pred             HcCCCccceeEeCCCCHHHH--HHHHHHHhhcCCccEEEEcCccccccccccCCCcCCCCcHHHHHHHHHHHHHHHHHHh
Q 024705          167 AMGIDAENLLIAQPDSAENL--LSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLC  244 (264)
Q Consensus       167 ~~g~~~~~l~~~~~~~~ee~--~~~i~~~~~~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r~i~~~L~~l~~~l~  244 (264)
                      .+|+....-......+.-+.  +.+.+.+  ..+++++++|..++...             ...+..+.+.|++++   +
T Consensus       440 ~l~l~~~~~~~~~~LSGGe~QRvaiAraL--~~~p~llLLDEPt~~LD-------------~~~~~~l~~~l~~l~---~  501 (590)
T PRK13409        440 PLQLERLLDKNVKDLSGGELQRVAIAACL--SRDADLYLLDEPSAHLD-------------VEQRLAVAKAIRRIA---E  501 (590)
T ss_pred             HCCCHHHHhCCcccCCHHHHHHHHHHHHH--hcCCCEEEEeCCccCCC-------------HHHHHHHHHHHHHHH---H
Confidence            00110000000001111111  1122222  25788999998776652             245555667777775   6


Q ss_pred             ccCcEEEEEcccchHhhhc
Q 024705          245 QSHTLIIFLNQVKVLLLKH  263 (264)
Q Consensus       245 ~~g~tVi~i~h~~~~~~~~  263 (264)
                      +.|.+||+++|....+...
T Consensus       502 ~~g~tviivsHD~~~~~~~  520 (590)
T PRK13409        502 EREATALVVDHDIYMIDYI  520 (590)
T ss_pred             hCCCEEEEEeCCHHHHHHh
Confidence            6799999999998876543

>cd03244 ABCC_MRP_domain2 Domain 2 of the ABC subfamily C

Probab=98.79  E-value=4.8e-08  Score=82.43  Aligned_cols=38  Identities=29%  Similarity=0.418  Sum_probs=31.6

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEE
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAY  153 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~  153 (264)
                      -+++|+++.|.||||+|||||+..++....+..+.+.+
T Consensus        26 ~i~~Ge~~~i~G~nGsGKSTLl~~l~G~~~~~~G~i~~   63 (221)
T cd03244          26 SIKPGEKVGIVGRTGSGKSSLLLALFRLVELSSGSILI   63 (221)
T ss_pred             EECCCCEEEEECCCCCCHHHHHHHHHcCCCCCCCEEEE
Confidence            47899999999999999999999888776655666544

This family is also known as MRP (mulrtidrug resisitance-associated protein). Some of the MRP members have five additional transmembrane segments in their N-terminus, but the function of these additional membrane-spanning domains is not clear. The MRP was found in the multidrug-resistance lung cancer cell in which p-glycoprotein was not overexpressed. MRP exports glutathione by drug stimulation, as well as, certain substrates in conjugated forms with anions, such as glutathione, glucuronate, and sulfate.

>PRK11288 araG L-arabinose transporter ATP-binding protein; Provisional

Probab=98.79  E-value=3.1e-08  Score=93.70  Aligned_cols=38  Identities=21%  Similarity=0.254  Sum_probs=31.1

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEE
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAY  153 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~  153 (264)
                      -+++|+++.|.||||+|||||+..++....+..|.+.|
T Consensus        26 ~i~~Ge~~~l~G~nGsGKSTLl~~l~Gl~~p~~G~I~~   63 (501)
T PRK11288         26 DCRAGQVHALMGENGAGKSTLLKILSGNYQPDAGSILI   63 (501)
T ss_pred             EEeCCcEEEEECCCCCCHHHHHHHHhCCCCCCCCEEEE
Confidence            57899999999999999999998888766555555544

>PRK14258 phosphate ABC transporter ATP-binding protein; Provisional

Probab=98.78  E-value=6e-08  Score=84.12  Aligned_cols=31  Identities=16%  Similarity=0.288  Sum_probs=27.3

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhh
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQK  146 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~  146 (264)
                      -+++|+++.|.|+||+|||||+..++.....
T Consensus        29 ~i~~Ge~~~I~G~nGsGKSTLl~~l~Gl~~~   59 (261)
T PRK14258         29 EIYQSKVTAIIGPSGCGKSTFLKCLNRMNEL   59 (261)
T ss_pred             EEcCCcEEEEECCCCCCHHHHHHHHhcccCC
Confidence            3789999999999999999999888877654

>PRK14247 phosphate ABC transporter ATP-binding protein; Provisional

Probab=98.78  E-value=4e-08  Score=84.56  Aligned_cols=30  Identities=27%  Similarity=0.401  Sum_probs=26.6

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHh
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQ  145 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~  145 (264)
                      -+++|+++.|.||||||||||+..++....
T Consensus        25 ~i~~Ge~~~i~G~nGsGKSTLl~~i~G~~~   54 (250)
T PRK14247         25 EIPDNTITALMGPSGSGKSTLLRVFNRLIE   54 (250)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhccCC
Confidence            477999999999999999999998887654

>COG1123 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]

Probab=98.77  E-value=4.4e-08  Score=91.68  Aligned_cols=41  Identities=24%  Similarity=0.308  Sum_probs=35.8

Q ss_pred             CCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecC
Q 024705          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVE  157 (264)
Q Consensus       117 l~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e  157 (264)
                      +.+|+++.|.|++||||||++..++....+.++.+.|...+
T Consensus       314 l~~GE~lglVGeSGsGKSTlar~i~gL~~P~~G~i~~~g~~  354 (539)
T COG1123         314 LREGETLGLVGESGSGKSTLARILAGLLPPSSGSIIFDGQD  354 (539)
T ss_pred             ecCCCEEEEECCCCCCHHHHHHHHhCCCCCCCceEEEeCcc
Confidence            67899999999999999999999998887877777776654

>PRK14259 phosphate ABC transporter ATP-binding protein; Provisional

Probab=98.77  E-value=5.9e-08  Score=84.60  Aligned_cols=29  Identities=21%  Similarity=0.525  Sum_probs=25.9

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHH
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEA  144 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~  144 (264)
                      -+++|+++.|.||||||||||+..++...
T Consensus        35 ~i~~Ge~~~l~G~nGsGKSTLl~~l~Gl~   63 (269)
T PRK14259         35 DIPRGKVTALIGPSGCGKSTVLRSLNRMN   63 (269)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhccc
Confidence            47899999999999999999988888754

>TIGR01187 potA spermidine/putrescine ABC transporter ATP-binding subunit

Probab=98.77  E-value=2.6e-08  Score=89.15  Aligned_cols=60  Identities=17%  Similarity=0.097  Sum_probs=34.0

Q ss_pred             EEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCHHHHHHcCCCccceeEeCCCCHH
Q 024705          125 IYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAE  184 (264)
Q Consensus       125 I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~~~~~~~g~~~~~l~~~~~~~~e  184 (264)
                      |.||||||||||+..++....+..|.+.+-..+........+.+|+.+++..++...++.
T Consensus         1 l~G~nGsGKSTLl~~iaGl~~p~~G~I~i~g~~i~~~~~~~~~i~~v~q~~~l~~~~tv~   60 (325)
T TIGR01187         1 LLGPSGCGKTTLLRLLAGFEQPDSGSIMLDGEDVTNVPPHLRHINMVFQSYALFPHMTVE   60 (325)
T ss_pred             CcCCCCCCHHHHHHHHHCCCCCCceEEEECCEECCCCCHHHCCEEEEecCccccCCCcHH
Confidence            579999999999988887665555555443222111112233456655554444333333

This model describes spermidine/putrescine ABC transporter, ATP binding subunit in bacteria and its equivalents in archaea. This transport system belong to the larger ATP-Binding Cassette (ABC) transporter superfamily. The characteristic feature of these transporter is the obligatory coupling of ATP hydrolysis to substrate translocation. The minimal configuration of bacterial ABC transport system: an ATPase or ATP binding subunit; An integral membrane protein; a hydrophilic polypetpide, which likely functions as substrate binding protein. Polyamines like spermidine and putrescine play vital role in cell proliferation, differentiation, and ion homeostasis. The concentration of polyamines within the cell are regulated by biosynthesis, degradation and transport (uptake and efflux included).

>PRK14242 phosphate transporter ATP-binding protein; Provisional

Probab=98.77  E-value=8.2e-08  Score=82.78  Aligned_cols=29  Identities=14%  Similarity=0.304  Sum_probs=25.8

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHH
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEA  144 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~  144 (264)
                      -+++|+++.|.||||+|||||+..++...
T Consensus        28 ~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   56 (253)
T PRK14242         28 EFEQNQVTALIGPSGCGKSTFLRCLNRMN   56 (253)
T ss_pred             EEeCCCEEEEECCCCCCHHHHHHHHHhhc
Confidence            47899999999999999999998888754

>cd03236 ABC_RNaseL_inhibitor_domain1 The ATPase domain 1 of RNase L inhibitor

Probab=98.77  E-value=6.4e-08  Score=83.75  Aligned_cols=36  Identities=17%  Similarity=0.197  Sum_probs=31.2

Q ss_pred             CCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEE
Q 024705          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCA  152 (264)
Q Consensus       117 l~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~  152 (264)
                      +.+|+++.|.||||+|||||+..++....+..|.+.
T Consensus        23 i~~Ge~~~IvG~nGsGKSTLlk~l~Gl~~p~~G~I~   58 (255)
T cd03236          23 PREGQVLGLVGPNGIGKSTALKILAGKLKPNLGKFD   58 (255)
T ss_pred             CCCCCEEEEECCCCCCHHHHHHHHhCCcCCCCceEe
Confidence            679999999999999999999888887766666664

The ABC ATPase, RNase L inhibitor (RLI), is a key enzyme in ribosomal biogenesis, formation of translation preinitiation complexes, and assembly of HIV capsids. RLI s are not transport proteins and thus cluster with a group of soluble proteins that lack the transmembrane components commonly found in other members of the family. Structurally, RLIs have an N-terminal Fe-S domain and two nucleotide binding domains which are arranged to form two composite active sites in their interface cleft. RLI is one of the most conserved enzymes between archaea and eukaryotes with a sequence identity more than 48%. The high degree of evolutionary conservation suggests that RLI performs a central role in archaeal and eukaryotic physiology.

>PRK15056 manganese/iron transporter ATP-binding protein; Provisional

Probab=98.76  E-value=1e-07  Score=83.15  Aligned_cols=36  Identities=28%  Similarity=0.386  Sum_probs=29.3

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeE
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYC  151 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v  151 (264)
                      -+++|+++.|.||||+|||||+..++....+..+.+
T Consensus        29 ~i~~Ge~~~l~G~nGsGKSTLl~~l~Gl~~p~~G~i   64 (272)
T PRK15056         29 TVPGGSIAALVGVNGSGKSTLFKALMGFVRLASGKI   64 (272)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhCCCCCCceEE
Confidence            377999999999999999999998887655444444

>TIGR00972 3a0107s01c2 phosphate ABC transporter, ATP-binding protein

Probab=98.76  E-value=1.1e-08  Score=87.96  Aligned_cols=69  Identities=17%  Similarity=0.191  Sum_probs=44.5

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhc-----CCeEEEEecCCCC---CH-HHHHHcCCCccceeEeCCCCHHH
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKL-----GGYCAYLDVENAL---DP-SLAEAMGIDAENLLIAQPDSAEN  185 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~-----g~~v~~~~~e~~~---~~-~~~~~~g~~~~~l~~~~~~~~ee  185 (264)
                      -+++|+++.|.|+||+|||||+..++....+.     .+.+.+...+...   .. .+.+.+++.+++..+.. .++.+
T Consensus        23 ~i~~Ge~~~i~G~nGsGKSTLl~~l~G~~~p~~~~~~~G~i~~~g~~~~~~~~~~~~~~~~i~~v~q~~~~~~-~tv~e  100 (247)
T TIGR00972        23 DIPKNQVTALIGPSGCGKSTLLRSLNRMNDLVPGVRIEGKVLFDGQDIYDKKIDVVELRRRVGMVFQKPNPFP-MSIYD  100 (247)
T ss_pred             EECCCCEEEEECCCCCCHHHHHHHHhccCCCCcCCCCceEEEECCEEccccccchHHHHhheEEEecCcccCC-CCHHH
Confidence            47899999999999999999999888766554     5555543222111   11 23456777766654443 44443

This model represents the ATP-binding protein of a family of ABC transporters for inorganic phosphate. In the model species Escherichia coli, a constitutive transporter for inorganic phosphate, with low affinity, is also present. The high affinity transporter that includes this polypeptide is induced when extracellular phosphate concentrations are low. The proteins most similar to the members of this family but not included appear to be amino acid transporters.

>PRK05800 cobU adenosylcobinamide kinase/adenosylcobinamide-phosphate guanylyltransferase; Validated

Probab=98.76  E-value=1.9e-08  Score=81.76  Aligned_cols=119  Identities=13%  Similarity=0.223  Sum_probs=69.5

Q ss_pred             cEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCHHHHHHcCC----Cccce-eEeCCCCHHHHHHHHHHHhh
Q 024705          121 RIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGI----DAENL-LIAQPDSAENLLSVVDTLTK  195 (264)
Q Consensus       121 ~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~~~~~~~g~----~~~~l-~~~~~~~~ee~~~~i~~~~~  195 (264)
                      .+++|.|+||||||+++..++...   +.+++|+.+....+.+..+++..    .++.. .+..+.+..+   .+...  
T Consensus         2 ~~ili~G~~~sGKS~~a~~l~~~~---~~~~~~iat~~~~~~e~~~ri~~h~~~R~~~w~t~E~~~~l~~---~i~~~--   73 (170)
T PRK05800          2 MLILVTGGARSGKSRFAERLAAQS---GLQVLYIATAQPFDDEMAARIAHHRQRRPAHWQTVEEPLDLAE---LLRAD--   73 (170)
T ss_pred             CEEEEECCCCccHHHHHHHHHHHc---CCCcEeCcCCCCChHHHHHHHHHHHhcCCCCCeEecccccHHH---HHHhh--
Confidence            468999999999999999997653   55788998876665544333211    12222 2222333333   33322  


Q ss_pred             cCCccEEEEcCccccccccccCCCcCCCCcHHHHHHHHHHHHHHHHHHhccCcEEEEEccc
Q 024705          196 SGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQV  256 (264)
Q Consensus       196 ~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r~i~~~L~~l~~~l~~~g~tVi~i~h~  256 (264)
                      ..+.++|+||+++.+... .+..+.     ...   +...+.++...+++.++++|+|+..
T Consensus        74 ~~~~~~VlID~Lt~~~~n-~l~~~~-----~~~---~~~~l~~li~~L~~~~~tvVlVs~E  125 (170)
T PRK05800         74 AAPGRCVLVDCLTTWVTN-LLFEEG-----EEA---IAAEIDALLAALQQLPAKIILVTNE  125 (170)
T ss_pred             cCCCCEEEehhHHHHHHH-Hhcccc-----hHH---HHHHHHHHHHHHHcCCCCEEEEEcC
Confidence            135678999999999742 211110     011   2234445555557788888877753

>PRK15093 antimicrobial peptide ABC transporter ATP-binding protein; Provisional

Probab=98.76  E-value=7.4e-08  Score=86.45  Aligned_cols=29  Identities=28%  Similarity=0.414  Sum_probs=26.0

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHH
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEA  144 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~  144 (264)
                      -+.+|+++.|.|+||||||||+..++...
T Consensus        29 ~i~~Ge~~~ivG~sGsGKSTLl~~i~Gl~   57 (330)
T PRK15093         29 TLTEGEIRGLVGESGSGKSLIAKAICGVT   57 (330)
T ss_pred             EECCCCEEEEECCCCCCHHHHHHHHHccC
Confidence            47899999999999999999999887755

>cd03250 ABCC_MRP_domain1 Domain 1 of the ABC subfamily C

Probab=98.74  E-value=8e-08  Score=80.16  Aligned_cols=36  Identities=39%  Similarity=0.621  Sum_probs=30.0

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeE
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYC  151 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v  151 (264)
                      -+++|+++.|.||||+|||||+..++....+..+.+
T Consensus        27 ~i~~G~~~~i~G~nG~GKSTLl~~i~G~~~~~~G~i   62 (204)
T cd03250          27 EVPKGELVAIVGPVGSGKSSLLSALLGELEKLSGSV   62 (204)
T ss_pred             EECCCCEEEEECCCCCCHHHHHHHHhCcCCCCCCeE
Confidence            478999999999999999999999888765555544

This family is also known as MRP (mulrtidrug resisitance-associated protein). Some of the MRP members have five additional transmembrane segments in their N-terminas, but the function of these additional membrane-spanning domains is not clear. The MRP was found in the multidrug-resisting lung cancer cell in which p-glycoprotein was not overexpressed. MRP exports glutathione by drug stimulation, as well as, certain substrates in conjugated forms with anions, such as glutathione, glucuronate, and sulfate.

>PRK14273 phosphate ABC transporter ATP-binding protein; Provisional

Probab=98.74  E-value=1.1e-07  Score=82.16  Aligned_cols=31  Identities=19%  Similarity=0.278  Sum_probs=26.9

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhh
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQK  146 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~  146 (264)
                      -+++|+++.|.|+||+|||||+..++....+
T Consensus        29 ~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~~   59 (254)
T PRK14273         29 KILKNSITALIGPSGCGKSTFLRTLNRMNDL   59 (254)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhccccC
Confidence            3779999999999999999999888876543

>PRK14240 phosphate transporter ATP-binding protein; Provisional

Probab=98.74  E-value=1e-07  Score=82.04  Aligned_cols=29  Identities=14%  Similarity=0.331  Sum_probs=25.6

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHH
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEA  144 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~  144 (264)
                      -+.+|+++.|.||||||||||+..++...
T Consensus        25 ~i~~Ge~~~i~G~nGsGKSTLl~~i~G~~   53 (250)
T PRK14240         25 DIEENQVTALIGPSGCGKSTFLRTLNRMN   53 (250)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhccc
Confidence            37799999999999999999988888754

>cd03245 ABCC_bacteriocin_exporters ABC-type bacteriocin exporters

Probab=98.74  E-value=7.1e-08  Score=81.36  Aligned_cols=38  Identities=29%  Similarity=0.309  Sum_probs=30.6

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEE
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAY  153 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~  153 (264)
                      -+++|+++.|.||||+|||||+..++....+..+.+.|
T Consensus        26 ~i~~G~~~~i~G~nGsGKSTLl~~i~G~~~~~~G~i~~   63 (220)
T cd03245          26 TIRAGEKVAIIGRVGSGKSTLLKLLAGLYKPTSGSVLL   63 (220)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhcCcCCCCCeEEE
Confidence            36799999999999999999999888766555555443

Many non-lantibiotic bacteriocins of lactic acid bacteria are produced as precursors which have N-terminal leader peptides that share similarities in amino acid sequence and contain a conserved processing site of two glycine residues in positions -1 and -2. A dedicated ATP-binding cassette (ABC) transporter is responsible for the proteolytic cleavage of the leader peptides and subsequent translocation of the bacteriocins across the cytoplasmic membrane.

>PRK09700 D-allose transporter ATP-binding protein; Provisional

Probab=98.74  E-value=5.7e-08  Score=92.14  Aligned_cols=38  Identities=24%  Similarity=0.321  Sum_probs=31.0

Q ss_pred             CCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEE
Q 024705          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYL  154 (264)
Q Consensus       117 l~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~  154 (264)
                      +++|+++.|.||||||||||+..++....+..+.+.|.
T Consensus       286 i~~Ge~~~l~G~NGsGKSTLlk~i~Gl~~p~~G~I~~~  323 (510)
T PRK09700        286 VCRGEILGFAGLVGSGRTELMNCLFGVDKRAGGEIRLN  323 (510)
T ss_pred             EcCCcEEEEECCCCCCHHHHHHHHhCCCcCCCCeEEEC
Confidence            67899999999999999999998887665555655443

>COG1123 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]

Probab=98.74  E-value=1.1e-07  Score=89.10  Aligned_cols=133  Identities=12%  Similarity=0.114  Sum_probs=79.4

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhc----CCeEEEEecCCCCCH------HHHHHcCCCccce-eEeCC-CC-
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKL----GGYCAYLDVENALDP------SLAEAMGIDAENL-LIAQP-DS-  182 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~----g~~v~~~~~e~~~~~------~~~~~~g~~~~~l-~~~~~-~~-  182 (264)
                      -+.+|+++.|.|++||||||+++.++......    ++.++|-..|...-.      .+.+.+++.+|+. ...+| .+ 
T Consensus        31 ~v~~GE~lgIvGESGsGKSt~a~~i~gll~~~~~~~~G~I~~~g~dl~~l~~~~~r~~rg~~Ia~i~Q~p~~slnP~~tI  110 (539)
T COG1123          31 EVEPGEILGIVGESGSGKSTLALALMGLLPEGGRITSGEVILDGRDLLGLSEREMRKLRGKRIAMIFQDPMTSLNPVMTI  110 (539)
T ss_pred             EecCCcEEEEEcCCCCCHHHHHHHHhccCCCCCcccceEEEECCcchhcCCHHHHHHhccccEEEEecCchhhcCchhhH
Confidence            37899999999999999999999998876544    455655543322111      1233444444431 11111 11 


Q ss_pred             ---------------HHHHHHHHHH-------------------------------HhhcCCccEEEEcCcccccccccc
Q 024705          183 ---------------AENLLSVVDT-------------------------------LTKSGSIDVIVVDSVAALIPKCEI  216 (264)
Q Consensus       183 ---------------~ee~~~~i~~-------------------------------~~~~~~~~~vvIDsl~~~~~~~~~  216 (264)
                                     .++....+.+                               ..-..+|++++.|..+...     
T Consensus       111 g~Qi~E~~~~h~~~~~~ea~~~a~elL~~Vgl~~~~~~~~yPheLSGG~rQRv~iAmALa~~P~LLIaDEPTTaL-----  185 (539)
T COG1123         111 GDQIREALRLHGKGSRAEARKRAVELLEQVGLPDPERRDRYPHQLSGGMRQRVMIAMALALKPKLLIADEPTTAL-----  185 (539)
T ss_pred             HHHHHHHHHHhccccHHHHHHHHHHHHHHcCCCChhhhccCCcccCchHHHHHHHHHHHhCCCCEEEECCCcccc-----
Confidence                           1111111100                               0112467777777666554     


Q ss_pred             CCCcCCCCcHHHHHHHHHHHHHHHHHHhccCcEEEEEcccchHhhhcC
Q 024705          217 GVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVKVLLLKHF  264 (264)
Q Consensus       217 ~~~~~~~~~~~q~r~i~~~L~~l~~~l~~~g~tVi~i~h~~~~~~~~~  264 (264)
                              +..-+.++.+.|+++.   ++.|+++|+|||+..-+...|
T Consensus       186 --------Dvt~q~qIL~llk~l~---~e~g~a~l~ITHDl~Vva~~a  222 (539)
T COG1123         186 --------DVTTQAQILDLLKDLQ---RELGMAVLFITHDLGVVAELA  222 (539)
T ss_pred             --------CHHHHHHHHHHHHHHH---HHcCcEEEEEcCCHHHHHHhc
Confidence                    2244455677778777   899999999999987776543

>PRK14267 phosphate ABC transporter ATP-binding protein; Provisional

Probab=98.73  E-value=7.8e-08  Score=82.91  Aligned_cols=31  Identities=19%  Similarity=0.348  Sum_probs=26.9

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhh
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQK  146 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~  146 (264)
                      -+.+|+++.|.||||+|||||+..++....+
T Consensus        26 ~i~~Ge~~~l~G~nGsGKSTLl~~l~G~~~~   56 (253)
T PRK14267         26 KIPQNGVFALMGPSGCGKSTLLRTFNRLLEL   56 (253)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhccCCc
Confidence            4789999999999999999999888876543

>TIGR01978 sufC FeS assembly ATPase SufC

Probab=98.73  E-value=2.1e-08  Score=85.85  Aligned_cols=72  Identities=21%  Similarity=0.239  Sum_probs=44.4

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHH--hhcCCeEEEEecCCCC--CH-HH-HHHcCCCccceeEeCCCCHHHHHH
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEA--QKLGGYCAYLDVENAL--DP-SL-AEAMGIDAENLLIAQPDSAENLLS  188 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~--~~~g~~v~~~~~e~~~--~~-~~-~~~~g~~~~~l~~~~~~~~ee~~~  188 (264)
                      -+++|+++.|.||||||||||+..++...  .+..+.+ +++.....  .. .+ ...+++.+++..+....++.+.+.
T Consensus        22 ~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~~~~~~G~i-~~~g~~~~~~~~~~~~~~~i~~v~q~~~~~~~~t~~~~~~   99 (243)
T TIGR01978        22 TVKKGEIHAIMGPNGSGKSTLSKTIAGHPSYEVTSGTI-LFKGQDLLELEPDERARAGLFLAFQYPEEIPGVSNLEFLR   99 (243)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhCCCCCCCCcceE-EECCEecCCCCHHHhhccceEeeeccccccCCcCHHHHHH
Confidence            47899999999999999999998888763  2344544 44433211  11 11 223566666655554455555443

SufC is part of the SUF system, shown in E. coli to consist of six proteins and believed to act in Fe-S cluster formation during oxidative stress. SufC forms a complex with SufB and SufD. SufC belongs to the ATP-binding cassette transporter family (pfam00005) but is no longer thought to be part of a transporter. The complex is reported as cytosolic (PubMed:12554644) or associated with the membrane (PubMed:11943156). The SUF system also includes a cysteine desulfurase (SufS, enhanced by SufE) and a probable iron-sulfur cluster assembly scaffold protein, SufA.

>PRK11288 araG L-arabinose transporter ATP-binding protein; Provisional

Probab=98.73  E-value=6.2e-08  Score=91.68  Aligned_cols=37  Identities=19%  Similarity=0.387  Sum_probs=30.8

Q ss_pred             CCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEE
Q 024705          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAY  153 (264)
Q Consensus       117 l~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~  153 (264)
                      +++|+++.|.||||||||||+..++....+..+.+.|
T Consensus       276 i~~Ge~~~iiG~NGsGKSTLlk~l~G~~~p~~G~i~~  312 (501)
T PRK11288        276 VRAGEIVGLFGLVGAGRSELMKLLYGATRRTAGQVYL  312 (501)
T ss_pred             EeCCcEEEEEcCCCCCHHHHHHHHcCCCcCCCceEEE
Confidence            6899999999999999999999988766555565544

>PRK10261 glutathione transporter ATP-binding protein; Provisional

Probab=98.73  E-value=2.9e-08  Score=96.32  Aligned_cols=38  Identities=29%  Similarity=0.536  Sum_probs=31.1

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEE
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAY  153 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~  153 (264)
                      -+++|+++.|.||||||||||+..++....+..+.+.+
T Consensus        38 ~v~~Ge~~~lvG~nGsGKSTLl~~l~Gll~p~~G~i~~   75 (623)
T PRK10261         38 SLQRGETLAIVGESGSGKSVTALALMRLLEQAGGLVQC   75 (623)
T ss_pred             EECCCCEEEEECCCCChHHHHHHHHHcCCCCCCeEEEE
Confidence            47899999999999999999999998776555555543

>PRK10762 D-ribose transporter ATP binding protein; Provisional

Probab=98.72  E-value=7.2e-08  Score=91.27  Aligned_cols=38  Identities=26%  Similarity=0.428  Sum_probs=30.7

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEE
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAY  153 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~  153 (264)
                      -+++|+++.|.||||||||||+..++....+..+.+.|
T Consensus       274 ~i~~Ge~~~liG~NGsGKSTLl~~l~G~~~p~~G~I~~  311 (501)
T PRK10762        274 TLRKGEILGVSGLMGAGRTELMKVLYGALPRTSGYVTL  311 (501)
T ss_pred             EEcCCcEEEEecCCCCCHHHHHHHHhCCCCCCceEEEE
Confidence            36899999999999999999998888765555555544

>COG4175 ProV ABC-type proline/glycine betaine transport system, ATPase component [Amino acid transport and metabolism]

Probab=98.72  E-value=3.6e-08  Score=85.92  Aligned_cols=129  Identities=13%  Similarity=0.116  Sum_probs=79.1

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCC-C-----HHHHHHcCCCccceeEeCCCCHHHHH--
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENAL-D-----PSLAEAMGIDAENLLIAQPDSAENLL--  187 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~-~-----~~~~~~~g~~~~~l~~~~~~~~ee~~--  187 (264)
                      -++.|++.+|.|-+|||||||+.++-..+.+..+++++-..+... .     ..|.+.+++..|++-+.+..++.+..  
T Consensus        50 ~v~~GeIfViMGLSGSGKSTLvR~~NrLiept~G~ilv~g~di~~~~~~~Lr~~Rr~~~sMVFQ~FaLlPhrtVl~Nv~f  129 (386)
T COG4175          50 DVEEGEIFVIMGLSGSGKSTLVRLLNRLIEPTRGEILVDGKDIAKLSAAELRELRRKKISMVFQSFALLPHRTVLENVAF  129 (386)
T ss_pred             eecCCeEEEEEecCCCCHHHHHHHHhccCCCCCceEEECCcchhcCCHHHHHHHHhhhhhhhhhhhccccchhHhhhhhc
Confidence            377999999999999999998888766665556665543333221 1     13566677777776555544332221  


Q ss_pred             -------------HHHHHHh-----------------------------hcCCccEEEEcCccccccccccCCCcCCCCc
Q 024705          188 -------------SVVDTLT-----------------------------KSGSIDVIVVDSVAALIPKCEIGVPINGMYS  225 (264)
Q Consensus       188 -------------~~i~~~~-----------------------------~~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~  225 (264)
                                   +.....+                             -..++++++.|..-             +.++
T Consensus       130 GLev~Gv~~~er~~~a~~~l~~VgL~~~~~~yp~eLSGGMqQRVGLARAla~~~~IlLMDEaF-------------SALD  196 (386)
T COG4175         130 GLEVQGVPKAEREERALEALELVGLEGYADKYPNELSGGMQQRVGLARALANDPDILLMDEAF-------------SALD  196 (386)
T ss_pred             ceeecCCCHHHHHHHHHHHHHHcCchhhhhcCcccccchHHHHHHHHHHHccCCCEEEecCch-------------hhcC
Confidence                         1111110                             01345566555422             2233


Q ss_pred             HHHHHHHHHHHHHHHHHHhccCcEEEEEcccchHh
Q 024705          226 DAQSRIMTQALRKIHYSLCQSHTLIIFLNQVKVLL  260 (264)
Q Consensus       226 ~~q~r~i~~~L~~l~~~l~~~g~tVi~i~h~~~~~  260 (264)
                      +--..++...|.+|.   ++.+.|||+|+|+.++.
T Consensus       197 PLIR~~mQdeLl~Lq---~~l~KTIvFitHDLdEA  228 (386)
T COG4175         197 PLIRTEMQDELLELQ---AKLKKTIVFITHDLDEA  228 (386)
T ss_pred             hHHHHHHHHHHHHHH---HHhCCeEEEEecCHHHH
Confidence            344445667777887   77889999999998764

>PRK14249 phosphate ABC transporter ATP-binding protein; Provisional

Probab=98.72  E-value=1.2e-07  Score=81.59  Aligned_cols=30  Identities=27%  Similarity=0.411  Sum_probs=26.6

Q ss_pred             CCCCcEEEEEecCCCChHHHHHHHHHHHhh
Q 024705          117 LPKGRIVEIYGREASGKTTLALHVIKEAQK  146 (264)
Q Consensus       117 l~~G~~~~I~G~~GsGKTtl~~~l~~~~~~  146 (264)
                      +.+|++++|.||||+|||||+..++....+
T Consensus        27 i~~G~~~~i~G~nGsGKSTLl~~l~Gl~~~   56 (251)
T PRK14249         27 FPERQITAIIGPSGCGKSTLLRALNRMNDI   56 (251)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhcccCc
Confidence            679999999999999999999988876554

>COG4107 PhnK ABC-type phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=98.72  E-value=2.6e-07  Score=74.35  Aligned_cols=43  Identities=28%  Similarity=0.331  Sum_probs=38.4

Q ss_pred             CCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCC
Q 024705          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENA  159 (264)
Q Consensus       117 l~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~  159 (264)
                      +.||++..|.|++|||||||+.++...+.+..+.+.|...+..
T Consensus        29 l~PGeVLgiVGESGSGKtTLL~~is~rl~p~~G~v~Y~~r~~~   71 (258)
T COG4107          29 LYPGEVLGIVGESGSGKTTLLKCISGRLTPDAGTVTYRMRDGQ   71 (258)
T ss_pred             ecCCcEEEEEecCCCcHHhHHHHHhcccCCCCCeEEEEcCCCC
Confidence            6799999999999999999999999999988888988775544

>TIGR02323 CP_lyasePhnK phosphonate C-P lyase system protein PhnK

Probab=98.72  E-value=1.5e-07  Score=81.13  Aligned_cols=38  Identities=29%  Similarity=0.367  Sum_probs=31.2

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEE
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAY  153 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~  153 (264)
                      -+++|++++|.||||+|||||+..++....+..+.+.+
T Consensus        25 ~i~~Ge~~~i~G~nGsGKSTLl~~l~G~~~~~~G~i~~   62 (253)
T TIGR02323        25 DLYPGEVLGIVGESGSGKSTLLGCLAGRLAPDHGTATY   62 (253)
T ss_pred             EEeCCcEEEEECCCCCCHHHHHHHHhCCCCCCCcEEEE
Confidence            47899999999999999999998888766555555544

Members of this family are the PhnK protein of C-P lyase systems for utilization of phosphonates. These systems resemble phosphonatase-based systems in having a three component ABC transporter, where TIGR01097 is the permease, TIGR01098 is the phosphonates binding protein, and TIGR02315 is the ATP-binding cassette (ABC) protein. They differ, however, in having, typically, ten or more additional genes, many of which are believed to form a membrane-associated complex. This protein (PhnK) and the adjacent-encoded PhnL resemble transporter ATP-binding proteins but are suggested, based on mutatgenesis studies, to be part of this complex rather than part of a transporter per se.

>PRK14253 phosphate ABC transporter ATP-binding protein; Provisional

Probab=98.72  E-value=1.9e-07  Score=80.30  Aligned_cols=30  Identities=20%  Similarity=0.379  Sum_probs=26.4

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHh
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQ  145 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~  145 (264)
                      -+.+|+++.|.||||+|||||+..++....
T Consensus        25 ~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~   54 (249)
T PRK14253         25 PIPARQVTALIGPSGCGKSTLLRCLNRMND   54 (249)
T ss_pred             EecCCCEEEEECCCCCCHHHHHHHHHhhcc
Confidence            477999999999999999999998887554

>PRK14248 phosphate ABC transporter ATP-binding protein; Provisional

Probab=98.72  E-value=1.4e-07  Score=82.21  Aligned_cols=29  Identities=17%  Similarity=0.326  Sum_probs=25.8

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHH
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEA  144 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~  144 (264)
                      -+.+|+++.|.|+||+|||||+..++...
T Consensus        43 ~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   71 (268)
T PRK14248         43 DIEKHAVTALIGPSGCGKSTFLRSINRMN   71 (268)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHHhcc
Confidence            36799999999999999999998888754

>PRK10744 pstB phosphate transporter ATP-binding protein; Provisional

Probab=98.72  E-value=1.4e-07  Score=81.76  Aligned_cols=30  Identities=20%  Similarity=0.333  Sum_probs=26.7

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHh
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQ  145 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~  145 (264)
                      -+++|+++.|.||||+|||||+..++....
T Consensus        35 ~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~   64 (260)
T PRK10744         35 DIAKNQVTAFIGPSGCGKSTLLRTFNRMYE   64 (260)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhcccc
Confidence            478999999999999999999999887653

>COG1134 TagH ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]

Probab=98.71  E-value=1.4e-07  Score=79.66  Aligned_cols=132  Identities=18%  Similarity=0.256  Sum_probs=73.3

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEE-------EecCCCCCH---------HHHHHcCCCcccee---
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAY-------LDVENALDP---------SLAEAMGIDAENLL---  176 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~-------~~~e~~~~~---------~~~~~~g~~~~~l~---  176 (264)
                      -+++|+.+.|.|+||||||||+..++....+..+++..       ++....+.+         .+..-+|+..+.+.   
T Consensus        49 ~i~~Ge~vGiiG~NGaGKSTLlkliaGi~~Pt~G~v~v~G~v~~li~lg~Gf~pelTGreNi~l~~~~~G~~~~ei~~~~  128 (249)
T COG1134          49 EIYKGERVGIIGHNGAGKSTLLKLIAGIYKPTSGKVKVTGKVAPLIELGAGFDPELTGRENIYLRGLILGLTRKEIDEKV  128 (249)
T ss_pred             EEeCCCEEEEECCCCCcHHHHHHHHhCccCCCCceEEEcceEehhhhcccCCCcccchHHHHHHHHHHhCccHHHHHHHH
Confidence            47899999999999999999888887777665554331       222111211         11222343322110   


Q ss_pred             ------------EeCC---CCHHHHHHHHHHHhhcCCccEEEEcCccccccccccCCCcCCCCcHHHHHHHHHHHHHHHH
Q 024705          177 ------------IAQP---DSAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHY  241 (264)
Q Consensus       177 ------------~~~~---~~~ee~~~~i~~~~~~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r~i~~~L~~l~~  241 (264)
                                  +..|   .+.--.....-......+|+++++|...+.-.. .           -+.+ ....+.++  
T Consensus       129 ~eIieFaELG~fi~~PvktYSSGM~aRLaFsia~~~~pdILllDEvlavGD~-~-----------F~~K-~~~rl~e~--  193 (249)
T COG1134         129 DEIIEFAELGDFIDQPVKTYSSGMYARLAFSVATHVEPDILLLDEVLAVGDA-A-----------FQEK-CLERLNEL--  193 (249)
T ss_pred             HHHHHHHHHHHHhhCchhhccHHHHHHHHHhhhhhcCCCEEEEehhhhcCCH-H-----------HHHH-HHHHHHHH--
Confidence                        0000   000001111112223458999999998877631 1           1112 12233333  


Q ss_pred             HHhccCcEEEEEcccchHhhhcC
Q 024705          242 SLCQSHTLIIFLNQVKVLLLKHF  264 (264)
Q Consensus       242 ~l~~~g~tVi~i~h~~~~~~~~~  264 (264)
                        .+.+.++|+++|....+.+.|
T Consensus       194 --~~~~~tiv~VSHd~~~I~~~C  214 (249)
T COG1134         194 --VEKNKTIVLVSHDLGAIKQYC  214 (249)
T ss_pred             --HHcCCEEEEEECCHHHHHHhc
Confidence              455799999999999988776

>PRK14274 phosphate ABC transporter ATP-binding protein; Provisional

Probab=98.71  E-value=1.8e-07  Score=81.04  Aligned_cols=29  Identities=24%  Similarity=0.400  Sum_probs=26.2

Q ss_pred             CCCCcEEEEEecCCCChHHHHHHHHHHHh
Q 024705          117 LPKGRIVEIYGREASGKTTLALHVIKEAQ  145 (264)
Q Consensus       117 l~~G~~~~I~G~~GsGKTtl~~~l~~~~~  145 (264)
                      +++|+++.|.||||+|||||+..++....
T Consensus        35 i~~Ge~~~l~G~nGsGKSTLl~~l~G~~~   63 (259)
T PRK14274         35 IPENEVTAIIGPSGCGKSTFIKTLNLMIQ   63 (259)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHHhhcc
Confidence            77999999999999999999998887654

>PRK14269 phosphate ABC transporter ATP-binding protein; Provisional

Probab=98.71  E-value=1.6e-07  Score=80.65  Aligned_cols=61  Identities=15%  Similarity=0.294  Sum_probs=38.5

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHh---hcCCeEEEEecCCCCC---HHHHHHcCCCccceeE
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQ---KLGGYCAYLDVENALD---PSLAEAMGIDAENLLI  177 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~---~~g~~v~~~~~e~~~~---~~~~~~~g~~~~~l~~  177 (264)
                      -+.+|+++.|.||||+|||||+..++....   +..+.+ +++.+....   ....+.+++.+++..+
T Consensus        24 ~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~~~~~~~G~i-~~~g~~i~~~~~~~~~~~i~~~~q~~~l   90 (246)
T PRK14269         24 QIEQNKITALIGASGCGKSTFLRCFNRMNDKIAKIDGLV-EIEGKDVKNQDVVALRKNVGMVFQQPNV   90 (246)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhcccCCCCCCceEE-EECCEecccCCHHHHhhhEEEEecCCcc
Confidence            367999999999999999999988887543   234444 444322111   1233456666555433

>PRK14270 phosphate ABC transporter ATP-binding protein; Provisional

Probab=98.71  E-value=1.8e-07  Score=80.54  Aligned_cols=62  Identities=19%  Similarity=0.236  Sum_probs=40.0

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhh-----cCCeEEEEecCCCC----CH-HHHHHcCCCccceeEe
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQK-----LGGYCAYLDVENAL----DP-SLAEAMGIDAENLLIA  178 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~-----~g~~v~~~~~e~~~----~~-~~~~~~g~~~~~l~~~  178 (264)
                      -+++|+++.|.|+||+|||||+..++....+     ..+.+. ++.+...    .. ...+.+++.+++..++
T Consensus        26 ~i~~Ge~~~i~G~nGsGKSTLl~~l~G~~~~~~~~~~~G~i~-~~g~~i~~~~~~~~~~~~~i~~~~q~~~~~   97 (251)
T PRK14270         26 PIYENKITALIGPSGCGKSTFLRCLNRMNDLISNVKIEGEVL-LDGKNIYDKDVDVVELRKRVGMVFQKPNPF   97 (251)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHHhccCcccCCCCccEEE-ECCEecccccccHHHHHhheEEEecCCCcC
Confidence            3679999999999999999999998876542     344444 4432211    11 2344567666654433

>cd03290 ABCC_SUR1_N The SUR domain 1

Probab=98.70  E-value=1.5e-07  Score=79.41  Aligned_cols=38  Identities=32%  Similarity=0.601  Sum_probs=30.9

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEE
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAY  153 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~  153 (264)
                      -+++|+++.|.||||+|||||+..++....+..+.+.+
T Consensus        23 ~i~~Ge~~~i~G~nGsGKSTLl~~i~G~~~~~~G~i~~   60 (218)
T cd03290          23 RIPTGQLTMIVGQVGCGKSSLLLAILGEMQTLEGKVHW   60 (218)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhccCCCCCCeEEE
Confidence            36799999999999999999998888776555555543

The sulfonylurea receptor SUR is an ATP transporter of the ABCC/MRP family with tandem ATPase binding domains. Unlike other ABC proteins, it has no intrinsic transport function, neither active nor passive, but associates with the potassium channel proteins Kir6.1 or Kir6.2 to form the ATP-sensitive potassium (K(ATP)) channel. Within the channel complex, SUR serves as a regulatory subunit that fine-tunes the gating of Kir6.x in response to alterations in cellular metabolism. It constitutes a major pharmaceutical target as it binds numerous drugs, K(ATP) channel openers and blockers, capable of up- or down-regulating channel activity.

>COG2274 SunT ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]

Probab=98.70  E-value=5.8e-08  Score=94.71  Aligned_cols=61  Identities=28%  Similarity=0.324  Sum_probs=46.2

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCC-C-HHHHHHcCCCcccee
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENAL-D-PSLAEAMGIDAENLL  176 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~-~-~~~~~~~g~~~~~l~  176 (264)
                      -+++|+.+.|.|++|||||||++.+..-..+..|.+.+-+.+... + ...++.+|+.+++..
T Consensus       495 ~I~~Ge~vaIvG~SGsGKSTL~KLL~gly~p~~G~I~~dg~dl~~i~~~~lR~~ig~V~Q~~~  557 (709)
T COG2274         495 EIPPGEKVAIVGRSGSGKSTLLKLLLGLYKPQQGRILLDGVDLNDIDLASLRRQVGYVLQDPF  557 (709)
T ss_pred             EeCCCCEEEEECCCCCCHHHHHHHHhcCCCCCCceEEECCEeHHhcCHHHHHhheeEEcccch
Confidence            589999999999999999999998888777777766654433322 2 256777888877544

>PRK13549 xylose transporter ATP-binding subunit; Provisional

Probab=98.70  E-value=1e-07  Score=90.35  Aligned_cols=39  Identities=23%  Similarity=0.254  Sum_probs=30.8

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhh-cCCeEEEE
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQK-LGGYCAYL  154 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~-~g~~v~~~  154 (264)
                      -+++|+++.|.||||||||||+..++....+ ..+.+.|.
T Consensus       284 ~i~~Ge~~~l~G~NGsGKSTLlk~i~Gl~~~~~~G~i~~~  323 (506)
T PRK13549        284 SLRRGEILGIAGLVGAGRTELVQCLFGAYPGRWEGEIFID  323 (506)
T ss_pred             EEcCCcEEEEeCCCCCCHHHHHHHHhCCCCCCCCcEEEEC
Confidence            3789999999999999999999888876542 45555443

>PRK14268 phosphate ABC transporter ATP-binding protein; Provisional

Probab=98.69  E-value=1.1e-07  Score=82.39  Aligned_cols=68  Identities=18%  Similarity=0.256  Sum_probs=42.0

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhh-----cCCeEEEEecCCCC----CH-HHHHHcCCCccceeEeCCCCHHH
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQK-----LGGYCAYLDVENAL----DP-SLAEAMGIDAENLLIAQPDSAEN  185 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~-----~g~~v~~~~~e~~~----~~-~~~~~~g~~~~~l~~~~~~~~ee  185 (264)
                      -+++|+++.|.|+||+|||||+..++.....     ..+.+. ++.....    .. .+.+.+++.+++..++. .++.+
T Consensus        34 ~i~~Ge~~~i~G~nGsGKSTLl~~i~Gl~~~~~~~~~~G~i~-~~g~~i~~~~~~~~~~~~~i~~v~q~~~~~~-~tv~e  111 (258)
T PRK14268         34 QIPKNSVTALIGPSGCGKSTFIRCLNRMNDLIKNCRIEGKVS-IEGEDIYEPDVDVVELRKNVGMVFQKPNPFP-MSIYD  111 (258)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhcCCCcccCCCcceEEE-ECCEEcccccchHHHHhhhEEEEecCCccCc-ccHHH
Confidence            4789999999999999999999888875432     244444 4332211    11 23345677666544443 34443

>PRK14238 phosphate transporter ATP-binding protein; Provisional

Probab=98.69  E-value=2e-07  Score=81.37  Aligned_cols=30  Identities=17%  Similarity=0.322  Sum_probs=26.7

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHh
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQ  145 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~  145 (264)
                      -+++|+++.|.|+||+|||||+..++....
T Consensus        46 ~i~~Ge~~~I~G~nGsGKSTLl~~i~Gl~~   75 (271)
T PRK14238         46 DIHENEVTAIIGPSGCGKSTYIKTLNRMVE   75 (271)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHHhhcc
Confidence            378999999999999999999999888654

>TIGR03269 met_CoM_red_A2 methyl coenzyme M reductase system, component A2

Probab=98.69  E-value=9.3e-08  Score=90.91  Aligned_cols=71  Identities=20%  Similarity=0.172  Sum_probs=44.0

Q ss_pred             CCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEE-ecCC---C-CC--H--HHHHHcCCCccceeEeCCCCHHHHH
Q 024705          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYL-DVEN---A-LD--P--SLAEAMGIDAENLLIAQPDSAENLL  187 (264)
Q Consensus       117 l~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~-~~e~---~-~~--~--~~~~~~g~~~~~l~~~~~~~~ee~~  187 (264)
                      +++|+++.|.||||||||||+..++....+..+.+.|- ..+.   . ..  .  .+.+.+|+.+++..+....++.+.+
T Consensus       307 i~~Ge~~~l~G~NGsGKSTLl~~l~Gl~~p~~G~i~~~~g~~~~~~~~~~~~~~~~~~~~i~~v~q~~~l~~~~tv~e~l  386 (520)
T TIGR03269       307 VKEGEIFGIVGTSGAGKTTLSKIIAGVLEPTSGEVNVRVGDEWVDMTKPGPDGRGRAKRYIGILHQEYDLYPHRTVLDNL  386 (520)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhCCCCCCCeEEEEecCCccccccccchhhHHHHhhhEEEEccCcccCCCCcHHHHH
Confidence            78999999999999999999988887665555555442 2210   1 11  1  1234577766665444444444433

The enzyme that catalyzes the final step in methanogenesis, methyl coenzyme M reductase, contains alpha, beta, and gamma chains. In older literature, the complex of alpha, beta, and gamma chains was termed component C, while this single chain protein was termed methyl coenzyme M reductase system component A2.

>PRK14262 phosphate ABC transporter ATP-binding protein; Provisional

Probab=98.69  E-value=1.7e-07  Score=80.67  Aligned_cols=30  Identities=30%  Similarity=0.375  Sum_probs=26.3

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHh
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQ  145 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~  145 (264)
                      -+.+|+++.|.||||+|||||+..++....
T Consensus        25 ~i~~Ge~~~i~G~nGsGKSTLl~~i~Gl~~   54 (250)
T PRK14262         25 KIFKNQITAIIGPSGCGKTTLLRSINRMND   54 (250)
T ss_pred             eecCCCEEEEECCCCCCHHHHHHHHhcccc
Confidence            478999999999999999999988886543

>PRK14239 phosphate transporter ATP-binding protein; Provisional

Probab=98.69  E-value=1.9e-07  Score=80.49  Aligned_cols=28  Identities=25%  Similarity=0.348  Sum_probs=25.2

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHH
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKE  143 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~  143 (264)
                      -+++|+++.|.||||+|||||+..++..
T Consensus        27 ~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl   54 (252)
T PRK14239         27 DFYPNEITALIGPSGSGKSTLLRSINRM   54 (252)
T ss_pred             EEcCCcEEEEECCCCCCHHHHHHHHhcc
Confidence            3779999999999999999999888765

>PRK13546 teichoic acids export protein ATP-binding subunit; Provisional

Probab=98.68  E-value=3.8e-07  Score=79.30  Aligned_cols=37  Identities=22%  Similarity=0.240  Sum_probs=30.3

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEE
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCA  152 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~  152 (264)
                      -+++|+++.|.||||+|||||+..++....+..|.+.
T Consensus        46 ~i~~Ge~~~liG~NGsGKSTLlk~L~Gl~~p~~G~I~   82 (264)
T PRK13546         46 KAYEGDVIGLVGINGSGKSTLSNIIGGSLSPTVGKVD   82 (264)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhCCcCCCceEEE
Confidence            3779999999999999999999999887655555443

>PRK14272 phosphate ABC transporter ATP-binding protein; Provisional

Probab=98.68  E-value=1.9e-07  Score=80.39  Aligned_cols=30  Identities=20%  Similarity=0.379  Sum_probs=26.5

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHh
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQ  145 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~  145 (264)
                      -+.+|+++.|.||||+|||||+..++....
T Consensus        26 ~i~~Ge~~~i~G~nGsGKSTLl~~i~G~~~   55 (252)
T PRK14272         26 DVQRGTVNALIGPSGCGKTTFLRAINRMHD   55 (252)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhccCC
Confidence            477999999999999999999988887654

>PRK14254 phosphate ABC transporter ATP-binding protein; Provisional

Probab=98.68  E-value=1.6e-07  Score=82.51  Aligned_cols=30  Identities=17%  Similarity=0.420  Sum_probs=26.2

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHh
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQ  145 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~  145 (264)
                      -+.+|++++|.||||+|||||+..++....
T Consensus        61 ~i~~Ge~~~I~G~nGsGKSTLl~~l~Gl~~   90 (285)
T PRK14254         61 DIPENQVTAMIGPSGCGKSTFLRCINRMND   90 (285)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhccCC
Confidence            377999999999999999999888877653

>cd03248 ABCC_TAP TAP, the Transporter Associated with Antigen Processing; TAP is essential for peptide delivery from the cytosol into the lumen of the endoplasmic reticulum (ER), where these peptides are loaded on major histocompatibility complex (MHC) I molecules

Probab=98.67  E-value=2.3e-07  Score=78.56  Aligned_cols=38  Identities=26%  Similarity=0.342  Sum_probs=30.7

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEE
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAY  153 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~  153 (264)
                      -+++|+++.|.||||+|||||+..++....+..+.+.+
T Consensus        36 ~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~~~~G~i~~   73 (226)
T cd03248          36 TLHPGEVTALVGPSGSGKSTVVALLENFYQPQGGQVLL   73 (226)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhcCcCCCCcEEEE
Confidence            47899999999999999999999888766555555433

Loaded MHC I leave the ER and display their antigenic cargo on the cell surface to cytotoxic T cells. Subsequently, virus-infected or malignantly transformed cells can be eliminated. TAP belongs to the large family of ATP-binding cassette (ABC) transporters, which translocate a vast variety of solutes across membranes.

>PRK14246 phosphate ABC transporter ATP-binding protein; Provisional

Probab=98.67  E-value=2.3e-07  Score=80.38  Aligned_cols=33  Identities=27%  Similarity=0.368  Sum_probs=28.0

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcC
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLG  148 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g  148 (264)
                      -+.+|+++.|.|+||+|||||+..++....+..
T Consensus        32 ~i~~Ge~~~i~G~nGsGKSTLl~~iaG~~~~~~   64 (257)
T PRK14246         32 KIPNNSIFGIMGPSGSGKSTLLKVLNRLIEIYD   64 (257)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhCCCCCCc
Confidence            367999999999999999999998887665444

>TIGR01257 rim_protein retinal-specific rim ABC transporter

Probab=98.67  E-value=9.8e-08  Score=101.89  Aligned_cols=72  Identities=11%  Similarity=0.140  Sum_probs=46.8

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCH-HHHHHcCCCccceeEeCCCCHHHHH
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP-SLAEAMGIDAENLLIAQPDSAENLL  187 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~-~~~~~~g~~~~~l~~~~~~~~ee~~  187 (264)
                      .+.+|+++.|.||||+|||||+..++....+..|.+.+...+..... ...+.+|+.+++..+....++.+.+
T Consensus       952 ~I~~Gei~aLLG~NGAGKSTLLkiLaGLl~PtsG~I~i~G~dI~~~~~~~r~~IG~~pQ~~~L~~~LTV~E~L 1024 (2272)
T TIGR01257       952 TFYENQITAFLGHNGAGKTTTLSILTGLLPPTSGTVLVGGKDIETNLDAVRQSLGMCPQHNILFHHLTVAEHI 1024 (2272)
T ss_pred             EEcCCcEEEEECCCCChHHHHHHHHhcCCCCCceEEEECCEECcchHHHHhhcEEEEecCCcCCCCCCHHHHH
Confidence            47899999999999999999888887776666666544332222111 2334577777765444444544433

This model describes the photoreceptor protein (rim protein) in eukaryotes. It is the member of ABC transporter superfamily. Rim protein is a membrane glycoprotein which is localized in the photoreceptor outer segment discs. Mutation/s in its genetic loci is implicated in the recessive Stargardt's disease.

>PRK14265 phosphate ABC transporter ATP-binding protein; Provisional

Probab=98.67  E-value=2.1e-07  Score=81.29  Aligned_cols=28  Identities=25%  Similarity=0.433  Sum_probs=25.1

Q ss_pred             CCCCcEEEEEecCCCChHHHHHHHHHHH
Q 024705          117 LPKGRIVEIYGREASGKTTLALHVIKEA  144 (264)
Q Consensus       117 l~~G~~~~I~G~~GsGKTtl~~~l~~~~  144 (264)
                      +.+|+++.|.||||+|||||+..++...
T Consensus        43 i~~Ge~~~IiG~nGsGKSTLl~~l~Gl~   70 (274)
T PRK14265         43 IPAKKIIAFIGPSGCGKSTLLRCFNRMN   70 (274)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhccc
Confidence            6799999999999999999998887654

>PRK14245 phosphate ABC transporter ATP-binding protein; Provisional

Probab=98.67  E-value=3.9e-07  Score=78.47  Aligned_cols=28  Identities=18%  Similarity=0.278  Sum_probs=25.0

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHH
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKE  143 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~  143 (264)
                      -+++|+++.|.||||+|||||+..++..
T Consensus        25 ~i~~Ge~~~i~G~nGsGKSTLl~~i~Gl   52 (250)
T PRK14245         25 EIEEKSVVAFIGPSGCGKSTFLRLFNRM   52 (250)
T ss_pred             EEeCCCEEEEECCCCCCHHHHHHHHhhh
Confidence            3779999999999999999999888764

>cd03283 ABC_MutS-like MutS-like homolog in eukaryotes

Probab=98.67  E-value=3e-07  Score=76.63  Aligned_cols=28  Identities=25%  Similarity=0.256  Sum_probs=24.3

Q ss_pred             CCCCcEEEEEecCCCChHHHHHHHHHHH
Q 024705          117 LPKGRIVEIYGREASGKTTLALHVIKEA  144 (264)
Q Consensus       117 l~~G~~~~I~G~~GsGKTtl~~~l~~~~  144 (264)
                      +..|++++|.||||+|||||+..++...
T Consensus        22 l~~g~~~~ltGpNg~GKSTllr~i~~~~   49 (199)
T cd03283          22 MEKKNGILITGSNMSGKSTFLRTIGVNV   49 (199)
T ss_pred             EcCCcEEEEECCCCCChHHHHHHHHHHH
Confidence            3457999999999999999999998755

The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal domain with a conserved ATPase activity that belongs to the ATP binding cassette (ABC) superfamily. MutS homologs (MSH) have been identified in most prokaryotic and all eukaryotic organisms examined. Prokaryotes have two homologs (MutS1 and MutS2), whereas seven MSH proteins (MSH1 to MSH7) have been identified in eukaryotes. The homodimer MutS1 and heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily involved in mitotic mismatch repair, whereas MSH4-MSH5 is involved in resolution of Holliday junctions during meiosis. All members of the MutS family contain the highly conserved Walker A/B ATPase domain, and many share a common mechanism of action. MutS1, MSH2-MSH3, MSH2-MSH6, and MSH4-MSH5 dimerize to form slid

>TIGR01618 phage_P_loop phage nucleotide-binding protein

Probab=98.67  E-value=2e-07  Score=78.57  Aligned_cols=129  Identities=14%  Similarity=0.104  Sum_probs=72.7

Q ss_pred             CCCC-CcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCHHHHHHcCCC-ccceeEeCCCCHHHHHHHHHHH
Q 024705          116 GLPK-GRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGID-AENLLIAQPDSAENLLSVVDTL  193 (264)
Q Consensus       116 Gl~~-G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~~~~~~~g~~-~~~l~~~~~~~~ee~~~~i~~~  193 (264)
                      .+++ ...++|+|+||+||||++..+.       ++.++++.+......    .|.. .+-+.+..+.+.+.+.+.+..+
T Consensus         7 ~~~~~~~~~liyG~~G~GKtt~a~~~~-------~~~~~~~~d~~~~~l----~g~~~~~v~~~d~~~~~~~~~d~l~~~   75 (220)
T TIGR01618         7 NIKRIPNMYLIYGKPGTGKTSTIKYLP-------GKTLVLSFDMSSKVL----IGDENVDIADHDDMPPIQAMVEFYVMQ   75 (220)
T ss_pred             ccCCCCcEEEEECCCCCCHHHHHHhcC-------CCCEEEeccccchhc----cCCCCCceeecCCCCCHHHHHHHHHHH
Confidence            4444 5779999999999999988762       457777777653221    1111 1111122344556666655433


Q ss_pred             h-hcCCccEEEEcCcccccccc----ccCCCcC--CCCcHHHHHHHHHHHHHHHHHHhccCcEEEEEcccch
Q 024705          194 T-KSGSIDVIVVDSVAALIPKC----EIGVPIN--GMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVKV  258 (264)
Q Consensus       194 ~-~~~~~~~vvIDsl~~~~~~~----~~~~~~~--~~~~~~q~r~i~~~L~~l~~~l~~~g~tVi~i~h~~~  258 (264)
                      - ...+++.||||++..+....    ...+..+  .......   +...+..+...+.+.|.+||+++|...
T Consensus        76 ~~~~~~ydtVVIDsI~~l~~~~~~~~~r~~k~~~~~~~~yg~---~~~~fl~~l~~L~~~g~nII~tAhe~~  144 (220)
T TIGR01618        76 NIQAVKYDNIVIDNISALQNLWLENIGRAAKNGQPELQHYQK---LDLWFLDLLTVLKESNKNIYATAWELT  144 (220)
T ss_pred             HhccccCCEEEEecHHHHHHHHHHHHhhhcCCCCcccccHHH---HHHHHHHHHHHHHhCCCcEEEEEeecc
Confidence            2 12578999999999876300    1111110  1111111   223333344444678999999999854

This model represents an uncharacterized family of proteins from a number of phage of Gram-positive bacteria. This protein contains a P-loop motif, G/A-X-X-G-X-G-K-T near its amino end. The function of this protein is unknown.

>cd03289 ABCC_CFTR2 The CFTR subfamily domain 2

Probab=98.67  E-value=2.1e-07  Score=81.41  Aligned_cols=59  Identities=22%  Similarity=0.315  Sum_probs=40.1

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCC--C-HHHHHHcCCCcccee
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENAL--D-PSLAEAMGIDAENLL  176 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~--~-~~~~~~~g~~~~~l~  176 (264)
                      -+++|+++.|.||+|+|||||+..++.... ..+. ++++.....  . ..+.+.+++.+++..
T Consensus        26 ~I~~Ge~~~IvG~nGsGKSTLl~~L~gl~~-~~G~-I~i~g~~i~~~~~~~lr~~i~~v~q~~~   87 (275)
T cd03289          26 SISPGQRVGLLGRTGSGKSTLLSAFLRLLN-TEGD-IQIDGVSWNSVPLQKWRKAFGVIPQKVF   87 (275)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhhhcC-CCcE-EEECCEEhhhCCHHHHhhhEEEECCCcc
Confidence            377999999999999999999988887765 4544 455543221  1 134455676665543

The cystic fibrosis transmembrane regulator (CFTR), the product of the gene mutated in patients with cystic fibrosis, has adapted the ABC transporter structural motif to form a tightly regulated anion channel at the apical surface of many epithelia. Use of the term assembly of a functional ion channel implies the coming together of subunits or at least smaller not-yet functional components of the active whole. In fact, on the basis of current knowledge only the CFTR polypeptide itself is required to form an ATP- and protein kinase A-dependent low-conductance chloride channel of the type present in the apical membrane of many epithelial cells. CFTR displays the typical organization (IM-ABC)2 and carries a characteristic hydrophilic R-domain that separates IM1-ABC1 from IM2-ABC2.

>PRK14236 phosphate transporter ATP-binding protein; Provisional

Probab=98.66  E-value=2.3e-07  Score=80.94  Aligned_cols=30  Identities=27%  Similarity=0.438  Sum_probs=26.4

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHh
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQ  145 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~  145 (264)
                      -+++|+++.|.||||+|||||+..++....
T Consensus        47 ~i~~Ge~~~I~G~nGsGKSTLl~~laGl~~   76 (272)
T PRK14236         47 RIPKNRVTAFIGPSGCGKSTLLRCFNRMND   76 (272)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHHhcCC
Confidence            478999999999999999999988887543

>PRK14251 phosphate ABC transporter ATP-binding protein; Provisional

Probab=98.66  E-value=2.3e-07  Score=79.86  Aligned_cols=30  Identities=13%  Similarity=0.278  Sum_probs=26.6

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHh
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQ  145 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~  145 (264)
                      -+.+|+++.|.|+||+|||||+..++....
T Consensus        26 ~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~   55 (251)
T PRK14251         26 DFEEKELTALIGPSGCGKSTFLRCLNRMND   55 (251)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhhccc
Confidence            378999999999999999999988887654

>PRK14260 phosphate ABC transporter ATP-binding protein; Provisional

Probab=98.66  E-value=3.7e-07  Score=79.07  Aligned_cols=30  Identities=17%  Similarity=0.367  Sum_probs=26.5

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHh
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQ  145 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~  145 (264)
                      -+.+|+++.|.|+||+|||||+..++....
T Consensus        29 ~i~~Ge~~~l~G~nGsGKSTLlk~l~Gl~~   58 (259)
T PRK14260         29 DIYRNKVTAIIGPSGCGKSTFIKTLNRISE   58 (259)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHHhhcC
Confidence            377999999999999999999988887654

>PRK14243 phosphate transporter ATP-binding protein; Provisional

Probab=98.66  E-value=3.4e-07  Score=79.59  Aligned_cols=29  Identities=24%  Similarity=0.406  Sum_probs=25.8

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHH
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEA  144 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~  144 (264)
                      -+++|+++.|.|+||+|||||+..++...
T Consensus        32 ~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   60 (264)
T PRK14243         32 DIPKNQITAFIGPSGCGKSTILRCFNRLN   60 (264)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHHhhh
Confidence            47799999999999999999999888654

>PRK14235 phosphate transporter ATP-binding protein; Provisional

Probab=98.66  E-value=1.8e-07  Score=81.50  Aligned_cols=62  Identities=19%  Similarity=0.260  Sum_probs=40.3

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhh-----cCCeEEEEecCCCC----CH-HHHHHcCCCccceeEe
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQK-----LGGYCAYLDVENAL----DP-SLAEAMGIDAENLLIA  178 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~-----~g~~v~~~~~e~~~----~~-~~~~~~g~~~~~l~~~  178 (264)
                      -+++|+++.|.||||+|||||+..++....+     ..|.+ +++.+...    .. .+...+++.++...++
T Consensus        41 ~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~~~~~~~~~G~I-~~~g~~i~~~~~~~~~~~~~i~~v~q~~~~~  112 (267)
T PRK14235         41 DIPEKTVTAFIGPSGCGKSTFLRCLNRMNDTIDGCRVTGKI-TLDGEDIYDPRLDVVELRARVGMVFQKPNPF  112 (267)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHHhhcccccCCCCceEE-EECCEECcccccchHHHhhceEEEecCCCCC
Confidence            4789999999999999999999888876643     34554 44432211    11 2334566666654433

>COG0444 DppD ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]

Probab=98.66  E-value=1.4e-08  Score=88.79  Aligned_cols=30  Identities=37%  Similarity=0.509  Sum_probs=27.5

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHh
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQ  145 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~  145 (264)
                      .+.+|+++.|+|++|||||+++..++..+-
T Consensus        27 ~i~~GE~lgiVGESGsGKS~~~~aim~llp   56 (316)
T COG0444          27 ELKKGEILGIVGESGSGKSVLAKAIMGLLP   56 (316)
T ss_pred             EEcCCcEEEEEcCCCCCHHHHHHHHHhccC
Confidence            478999999999999999999999998775

>PRK14237 phosphate transporter ATP-binding protein; Provisional

Probab=98.65  E-value=3e-07  Score=80.03  Aligned_cols=30  Identities=23%  Similarity=0.357  Sum_probs=26.4

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHh
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQ  145 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~  145 (264)
                      -+.+|+++.|.||||+|||||+..++....
T Consensus        42 ~i~~Ge~~~I~G~nGsGKSTLl~~l~Gl~~   71 (267)
T PRK14237         42 QFEKNKITALIGPSGSGKSTYLRSLNRMND   71 (267)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHHhccC
Confidence            477999999999999999999998887653

>PRK14244 phosphate ABC transporter ATP-binding protein; Provisional

Probab=98.65  E-value=3.1e-07  Score=79.12  Aligned_cols=30  Identities=17%  Similarity=0.246  Sum_probs=26.3

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHh
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQ  145 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~  145 (264)
                      -+.+|+++.|.|+||+|||||+..++....
T Consensus        27 ~i~~Ge~~~I~G~nGsGKSTLl~~i~G~~~   56 (251)
T PRK14244         27 DIYKREVTAFIGPSGCGKSTFLRCFNRMND   56 (251)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHHhhcc
Confidence            377999999999999999999998887653

>PRK15134 microcin C ABC transporter ATP-binding protein YejF; Provisional

Probab=98.65  E-value=1.8e-07  Score=89.21  Aligned_cols=37  Identities=24%  Similarity=0.382  Sum_probs=29.6

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEE
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAY  153 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~  153 (264)
                      -+++|+++.|.||||||||||+..++... +..|.+.|
T Consensus       308 ~i~~Ge~~~i~G~nGsGKSTLlk~l~Gl~-~~~G~i~~  344 (529)
T PRK15134        308 TLRPGETLGLVGESGSGKSTTGLALLRLI-NSQGEIWF  344 (529)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhCcC-CCCcEEEE
Confidence            37799999999999999999998888765 44555443

>TIGR02868 CydC thiol reductant ABC exporter, CydC subunit

Probab=98.65  E-value=1.2e-07  Score=90.18  Aligned_cols=62  Identities=29%  Similarity=0.380  Sum_probs=42.1

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCC--CCHHHHHHcCCCccceeEe
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENA--LDPSLAEAMGIDAENLLIA  178 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~--~~~~~~~~~g~~~~~l~~~  178 (264)
                      -+++|+.+.|.||+|||||||+..++....+..|.+. ++...-  ....+.+.+++.+|+..++
T Consensus       357 ~i~~G~~vaIvG~SGsGKSTLl~lL~g~~~p~~G~I~-i~g~~i~~~~~~lr~~i~~V~Q~~~lF  420 (529)
T TIGR02868       357 DLPPGERVAILGPSGSGKSTLLMLLTGLLDPLQGEVT-LDGVSVSSLQDELRRRISVFAQDAHLF  420 (529)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhcCCCCCCcEEE-ECCEEhhhHHHHHHhheEEEccCcccc
Confidence            3789999999999999999999888876666555554 443111  1224455677776655433

The gene pair cydCD encodes an ABC-family transporter in which each gene contains an N-terminal membrane-spanning domain (pfam00664) and a C-terminal ATP-binding domain (pfam00005). In E. coli these genes were discovered as mutants which caused the terminal heme-copper oxidase complex cytochrome bd to fail to assemble. Recent work has shown that the transporter is involved in export of redox-active thiol compounds such as cysteine and glutathione. The linkage to assembly of the cytochrome bd complex is further supported by the conserved operon structure found outside the gammaproteobacteria (cydABCD) containing both the transporter and oxidase genes components. The genes used as the seed members for this model are all either found in the gammproteobacterial context or the CydABCD context. All members of this family scoring above trusted at the time of its creation were from genomes which encode a cytochrome bd complex.

>PRK14241 phosphate transporter ATP-binding protein; Provisional

Probab=98.65  E-value=1.7e-07  Score=81.06  Aligned_cols=30  Identities=13%  Similarity=0.261  Sum_probs=26.5

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHh
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQ  145 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~  145 (264)
                      -+++|+++.|.||||||||||+..++....
T Consensus        26 ~i~~Ge~~~i~G~nGsGKSTLl~~laGl~~   55 (258)
T PRK14241         26 NIEPRSVTAFIGPSGCGKSTVLRTLNRMHE   55 (258)
T ss_pred             EEcCCcEEEEECCCCCCHHHHHHHHhccCC
Confidence            478999999999999999999988887654

>PRK11176 lipid transporter ATP-binding/permease protein; Provisional

Probab=98.64  E-value=2.2e-07  Score=89.47  Aligned_cols=63  Identities=22%  Similarity=0.283  Sum_probs=44.5

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCC-CC-HHHHHHcCCCccceeEe
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENA-LD-PSLAEAMGIDAENLLIA  178 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~-~~-~~~~~~~g~~~~~l~~~  178 (264)
                      -+++|+.++|.|++|||||||+..++....+..|.+.+-..+.. .. ..+.+.+++.+|+..+.
T Consensus       365 ~i~~G~~~aIvG~sGsGKSTLl~ll~gl~~p~~G~I~i~g~~i~~~~~~~~~~~i~~v~Q~~~lf  429 (582)
T PRK11176        365 KIPAGKTVALVGRSGSGKSTIANLLTRFYDIDEGEILLDGHDLRDYTLASLRNQVALVSQNVHLF  429 (582)
T ss_pred             EeCCCCEEEEECCCCCCHHHHHHHHHhccCCCCceEEECCEEhhhcCHHHHHhhceEEccCceee
Confidence            37899999999999999999999998877776666544322211 11 24566688877765443

>COG4133 CcmA ABC-type transport system involved in cytochrome c biogenesis, ATPase component [Posttranslational modification, protein turnover, chaperones]

Probab=98.64  E-value=2e-07  Score=75.67  Aligned_cols=39  Identities=26%  Similarity=0.288  Sum_probs=33.3

Q ss_pred             CCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEe
Q 024705          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLD  155 (264)
Q Consensus       117 l~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~  155 (264)
                      +.+|+.+.|.||||+|||||++.++.-+.+..+.|.|-+
T Consensus        25 l~~Ge~~~i~G~NG~GKTtLLRilaGLl~p~~G~v~~~~   63 (209)
T COG4133          25 LNAGEALQITGPNGAGKTTLLRILAGLLRPDAGEVYWQG   63 (209)
T ss_pred             EcCCCEEEEECCCCCcHHHHHHHHHcccCCCCCeEEecC
Confidence            569999999999999999999998888877777765543

>PRK14271 phosphate ABC transporter ATP-binding protein; Provisional

Probab=98.64  E-value=3.1e-07  Score=80.42  Aligned_cols=30  Identities=27%  Similarity=0.465  Sum_probs=26.6

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHh
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQ  145 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~  145 (264)
                      -+++|+++.|.||||+|||||+..++....
T Consensus        43 ~i~~Ge~~~I~G~nGsGKSTLl~~l~Gl~~   72 (276)
T PRK14271         43 GFPARAVTSLMGPTGSGKTTFLRTLNRMND   72 (276)
T ss_pred             EEcCCcEEEEECCCCCCHHHHHHHHhccCC
Confidence            377999999999999999999999887654

>PRK14266 phosphate ABC transporter ATP-binding protein; Provisional

Probab=98.64  E-value=3.9e-07  Score=78.41  Aligned_cols=29  Identities=21%  Similarity=0.432  Sum_probs=25.8

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHH
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEA  144 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~  144 (264)
                      -+++|+++.|.||||+|||||+..++...
T Consensus        25 ~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   53 (250)
T PRK14266         25 DIPKNSVTALIGPSGCGKSTFIRTLNRMN   53 (250)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHHhhh
Confidence            47799999999999999999999888754

>PF01695 IstB_IS21: IstB-like ATP binding protein; InterPro: IPR002611 Proteins in this entry contain an ATP/GTP binding P-loop motif

Probab=98.64  E-value=2.2e-07  Score=76.01  Aligned_cols=115  Identities=23%  Similarity=0.277  Sum_probs=65.3

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCHHHHHHcCCCccceeEeCCCCHHHHHHHHHHHhh
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTK  195 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~~~~~~~g~~~~~l~~~~~~~~ee~~~~i~~~~~  195 (264)
                      -++.+..++|.||+|+|||+|+..++..+...|.+|.|+....     ....+...      ......++..   ..+  
T Consensus        43 ~~~~~~~l~l~G~~G~GKThLa~ai~~~~~~~g~~v~f~~~~~-----L~~~l~~~------~~~~~~~~~~---~~l--  106 (178)
T PF01695_consen   43 FIENGENLILYGPPGTGKTHLAVAIANEAIRKGYSVLFITASD-----LLDELKQS------RSDGSYEELL---KRL--  106 (178)
T ss_dssp             S-SC--EEEEEESTTSSHHHHHHHHHHHHHHTT--EEEEEHHH-----HHHHHHCC------HCCTTHCHHH---HHH--
T ss_pred             CcccCeEEEEEhhHhHHHHHHHHHHHHHhccCCcceeEeecCc-----eecccccc------ccccchhhhc---Ccc--
Confidence            4567888999999999999999999999999999999998543     22212111      0112233333   333  


Q ss_pred             cCCccEEEEcCccccccccccCCCcCCCCcHHHHHHHHHHHHHHHHHHhccCcEEEEEcccchHhhhc
Q 024705          196 SGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVKVLLLKH  263 (264)
Q Consensus       196 ~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r~i~~~L~~l~~~l~~~g~tVi~i~h~~~~~~~~  263 (264)
                       .+++++|||.+...... +           ...    ..+.++.....+.+.|||.+|...+++.+.
T Consensus       107 -~~~dlLilDDlG~~~~~-~-----------~~~----~~l~~ii~~R~~~~~tIiTSN~~~~~l~~~  157 (178)
T PF01695_consen  107 -KRVDLLILDDLGYEPLS-E-----------WEA----ELLFEIIDERYERKPTIITSNLSPSELEEV  157 (178)
T ss_dssp             -HTSSCEEEETCTSS----H-----------HHH----HCTHHHHHHHHHT-EEEEEESS-HHHHHT-
T ss_pred             -ccccEecccccceeeec-c-----------ccc----ccchhhhhHhhcccCeEeeCCCchhhHhhc
Confidence             37899999998754321 1           111    233444433334456777777666666543

They are found associated with IS21 family insertion sequences []. Functionally they have not been characterised, but they may be involved in transposition [].; GO: 0005524 ATP binding; PDB: 3EC2_A 3ECC_A 2W58_A 2QGZ_A.

>PRK14275 phosphate ABC transporter ATP-binding protein; Provisional

Probab=98.64  E-value=3.1e-07  Score=80.81  Aligned_cols=29  Identities=17%  Similarity=0.266  Sum_probs=25.9

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHH
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEA  144 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~  144 (264)
                      -+.+|+++.|.||||+|||||+..++...
T Consensus        61 ~i~~Ge~~~l~G~nGsGKSTLl~~L~Gl~   89 (286)
T PRK14275         61 DILSKYVTAIIGPSGCGKSTFLRAINRMN   89 (286)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhccc
Confidence            47899999999999999999998888753

>PRK11174 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed

Probab=98.63  E-value=1.9e-07  Score=90.01  Aligned_cols=59  Identities=19%  Similarity=0.230  Sum_probs=42.5

Q ss_pred             CCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCC-C--CCHHHHHHcCCCccceeE
Q 024705          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVEN-A--LDPSLAEAMGIDAENLLI  177 (264)
Q Consensus       117 l~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~-~--~~~~~~~~~g~~~~~l~~  177 (264)
                      +++|+.+.|.||+|||||||+..++... +..|.+. ++... .  ....+.+.+++.+|+..+
T Consensus       373 i~~G~~vaIvG~SGsGKSTL~~lL~g~~-p~~G~I~-i~g~~i~~~~~~~lr~~i~~v~Q~~~L  434 (588)
T PRK11174        373 LPAGQRIALVGPSGAGKTSLLNALLGFL-PYQGSLK-INGIELRELDPESWRKHLSWVGQNPQL  434 (588)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhcCC-CCCcEEE-ECCEecccCCHHHHHhheEEecCCCcC
Confidence            7899999999999999999999888877 6665554 44321 1  112456678887776543

>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=98.63  E-value=2.6e-07  Score=70.86  Aligned_cols=115  Identities=21%  Similarity=0.234  Sum_probs=66.6

Q ss_pred             EEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCHHHHHHcCCCccceeEeCCCCHHHHHHHHHHHhhcCCccEE
Q 024705          123 VEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTKSGSIDVI  202 (264)
Q Consensus       123 ~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~~~~~~~g~~~~~l~~~~~~~~ee~~~~i~~~~~~~~~~~v  202 (264)
                      ++|.||||+|||+++..++..+   +..++.++.......               ........+...+........+.++
T Consensus         1 ill~G~~G~GKT~l~~~la~~l---~~~~~~i~~~~~~~~---------------~~~~~~~~i~~~~~~~~~~~~~~vl   62 (132)
T PF00004_consen    1 ILLHGPPGTGKTTLARALAQYL---GFPFIEIDGSELISS---------------YAGDSEQKIRDFFKKAKKSAKPCVL   62 (132)
T ss_dssp             EEEESSTTSSHHHHHHHHHHHT---TSEEEEEETTHHHTS---------------STTHHHHHHHHHHHHHHHTSTSEEE
T ss_pred             CEEECcCCCCeeHHHHHHHhhc---ccccccccccccccc---------------cccccccccccccccccccccceee
Confidence            5799999999999999998865   566766764321100               0011223333444443222238999


Q ss_pred             EEcCccccccccccCCCcCCCCcHHHHHHHHHHHHHHHHHHhc-cCcEEEEEcccchHhh
Q 024705          203 VVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQ-SHTLIIFLNQVKVLLL  261 (264)
Q Consensus       203 vIDsl~~~~~~~~~~~~~~~~~~~~q~r~i~~~L~~l~~~l~~-~g~tVi~i~h~~~~~~  261 (264)
                      +||.+..+.+..  .    ........+.+...+..+...... .++.||++++..+.+.
T Consensus        63 ~iDe~d~l~~~~--~----~~~~~~~~~~~~~L~~~l~~~~~~~~~~~vI~ttn~~~~i~  116 (132)
T PF00004_consen   63 FIDEIDKLFPKS--Q----PSSSSFEQRLLNQLLSLLDNPSSKNSRVIVIATTNSPDKID  116 (132)
T ss_dssp             EEETGGGTSHHC--S----TSSSHHHHHHHHHHHHHHHTTTTTSSSEEEEEEESSGGGSC
T ss_pred             eeccchhccccc--c----cccccccccccceeeecccccccccccceeEEeeCChhhCC
Confidence            999999998632  1    112223333333444444322222 4588998888766654

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 ....

>PRK09580 sufC cysteine desulfurase ATPase component; Reviewed

Probab=98.63  E-value=2.8e-07  Score=79.18  Aligned_cols=40  Identities=25%  Similarity=0.375  Sum_probs=30.4

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHH--hhcCCeEEEEec
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEA--QKLGGYCAYLDV  156 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~--~~~g~~v~~~~~  156 (264)
                      -+.+|+++.|.||||+|||||+..++...  .+..+.+ +++.
T Consensus        23 ~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~~~~~~G~i-~~~g   64 (248)
T PRK09580         23 EVRPGEVHAIMGPNGSGKSTLSATLAGREDYEVTGGTV-EFKG   64 (248)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHcCCccCCCCceEE-EECC
Confidence            47899999999999999999998888764  2334444 4443

>PRK09183 transposase/IS protein; Provisional

Probab=98.63  E-value=7.1e-07  Score=77.40  Aligned_cols=42  Identities=21%  Similarity=0.256  Sum_probs=37.4

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecC
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVE  157 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e  157 (264)
                      -+++|+.++|+||||+|||+|+..++..+...|.+|.|++..
T Consensus        98 ~i~~~~~v~l~Gp~GtGKThLa~al~~~a~~~G~~v~~~~~~  139 (259)
T PRK09183         98 FIERNENIVLLGPSGVGKTHLAIALGYEAVRAGIKVRFTTAA  139 (259)
T ss_pred             chhcCCeEEEEeCCCCCHHHHHHHHHHHHHHcCCeEEEEeHH
Confidence            378899999999999999999999988888889899998743

>PRK14261 phosphate ABC transporter ATP-binding protein; Provisional

Probab=98.63  E-value=2.8e-07  Score=79.46  Aligned_cols=28  Identities=29%  Similarity=0.500  Sum_probs=25.1

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHH
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKE  143 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~  143 (264)
                      -+++|++++|.||||+|||||+..++..
T Consensus        28 ~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl   55 (253)
T PRK14261         28 SIPKNRVTALIGPSGCGKSTLLRCFNRM   55 (253)
T ss_pred             EECCCcEEEEECCCCCCHHHHHHHHhcc
Confidence            3779999999999999999998888764

>PRK14263 phosphate ABC transporter ATP-binding protein; Provisional

Probab=98.62  E-value=2.3e-07  Score=80.56  Aligned_cols=30  Identities=20%  Similarity=0.297  Sum_probs=26.5

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHh
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQ  145 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~  145 (264)
                      -+++|+++.|.|+||+|||||+..++....
T Consensus        30 ~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~   59 (261)
T PRK14263         30 PIRKNEITGFIGPSGCGKSTVLRSLNRMND   59 (261)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHHcccc
Confidence            478999999999999999999988877654

>PRK13545 tagH teichoic acids export protein ATP-binding subunit; Provisional

Probab=98.62  E-value=3.3e-07  Score=86.14  Aligned_cols=37  Identities=32%  Similarity=0.427  Sum_probs=30.6

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEE
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCA  152 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~  152 (264)
                      -+++|++++|.||||+|||||+..++....+..|.+.
T Consensus        46 sI~~GEivgIiGpNGSGKSTLLkiLaGLl~P~sGeI~   82 (549)
T PRK13545         46 EVPEGEIVGIIGLNGSGKSTLSNLIAGVTMPNKGTVD   82 (549)
T ss_pred             EEeCCCEEEEEcCCCCCHHHHHHHHhCCCCCCceEEE
Confidence            4789999999999999999999998886655555544

>COG0488 Uup ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]

Probab=98.61  E-value=3.8e-07  Score=86.27  Aligned_cols=46  Identities=30%  Similarity=0.383  Sum_probs=36.3

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcC--------CeEEEEecCCCCC
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLG--------GYCAYLDVENALD  161 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g--------~~v~~~~~e~~~~  161 (264)
                      .+.+|+.++|+|+||+|||||+..++....+..        .++.|+..+....
T Consensus        25 ~~~~G~riGLvG~NGaGKSTLLkilaG~~~~~~G~i~~~~~~~v~~l~Q~~~~~   78 (530)
T COG0488          25 TLNPGERIGLVGRNGAGKSTLLKILAGELEPDSGEVTRPKGLRVGYLSQEPPLD   78 (530)
T ss_pred             eeCCCCEEEEECCCCCCHHHHHHHHcCCCcCCCCeEeecCCceEEEeCCCCCcC
Confidence            478999999999999999999999988765432        3577777665544

>PRK14256 phosphate ABC transporter ATP-binding protein; Provisional

Probab=98.61  E-value=2.1e-07  Score=80.17  Aligned_cols=29  Identities=21%  Similarity=0.417  Sum_probs=26.0

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHH
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEA  144 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~  144 (264)
                      -+++|+++.|.|+||||||||+..++...
T Consensus        26 ~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   54 (252)
T PRK14256         26 DFPENSVTAIIGPSGCGKSTVLRSINRMH   54 (252)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHHhcc
Confidence            37799999999999999999998888765

>PRK14252 phosphate ABC transporter ATP-binding protein; Provisional

Probab=98.61  E-value=4.6e-07  Score=78.77  Aligned_cols=29  Identities=14%  Similarity=0.268  Sum_probs=25.9

Q ss_pred             CCCCcEEEEEecCCCChHHHHHHHHHHHh
Q 024705          117 LPKGRIVEIYGREASGKTTLALHVIKEAQ  145 (264)
Q Consensus       117 l~~G~~~~I~G~~GsGKTtl~~~l~~~~~  145 (264)
                      +.+|+++.|.|+||+|||||+..++....
T Consensus        39 i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~   67 (265)
T PRK14252         39 VHEKQVTALIGPSGCGKSTFLRCFNRMHD   67 (265)
T ss_pred             EcCCcEEEEECCCCCCHHHHHHHHhcccC
Confidence            77999999999999999999988877554

>TIGR02633 xylG D-xylose ABC transporter, ATP-binding protein

Probab=98.61  E-value=1.5e-07  Score=89.11  Aligned_cols=38  Identities=21%  Similarity=0.282  Sum_probs=29.6

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhh--cCCeEEE
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQK--LGGYCAY  153 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~--~g~~v~~  153 (264)
                      -+++|+++.|.||||||||||+..++....+  ..+.+.|
T Consensus        23 ~i~~Ge~~~liG~nGsGKSTLl~~i~G~~~~~~~~G~i~~   62 (500)
T TIGR02633        23 EVRPGECVGLCGENGAGKSTLMKILSGVYPHGTWDGEIYW   62 (500)
T ss_pred             EEeCCcEEEEECCCCCCHHHHHHHHhCCCCCCCCCeEEEE
Confidence            4789999999999999999998888875533  2444433

Several bacterial species have enzymes xylose isomerase and xylulokinase enzymes for xylose utilization. Members of this protein family are the ATP-binding cassette (ABC) subunit of the known or predicted high-affinity xylose ABC transporter for xylose import. These genes, which closely resemble other sugar transport ABC transporter genes, typically are encoded near xylose utilization enzymes and regulatory proteins. Note that this form of the transporter contains two copies of the ABC transporter domain (pfam00005).

>PRK14264 phosphate ABC transporter ATP-binding protein; Provisional

Probab=98.61  E-value=3.7e-07  Score=81.04  Aligned_cols=29  Identities=17%  Similarity=0.376  Sum_probs=25.9

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHH
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEA  144 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~  144 (264)
                      -+.+|+++.|.|+||+|||||+..++...
T Consensus        67 ~i~~Ge~~~IvG~nGsGKSTLl~~L~Gl~   95 (305)
T PRK14264         67 DIPEKSVTALIGPSGCGKSTFLRCLNRMN   95 (305)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhccc
Confidence            36799999999999999999998888755

>PRK08084 DNA replication initiation factor; Provisional

Probab=98.61  E-value=5.9e-07  Score=76.78  Aligned_cols=76  Identities=17%  Similarity=0.277  Sum_probs=51.6

Q ss_pred             HHHHhcCCccccccccccCCCCCCccccCcHHHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEe
Q 024705           76 QLANDFGKESMLSLKRFFGSRRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLD  155 (264)
Q Consensus        76 ~l~~~~~~~~~~~~~~~~~~~~~~~i~tG~~~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~  155 (264)
                      |+..+++.....+..++....+...+    ..+..+..   .+.+..++|+||+|+|||+|+..++..+...|.++.|++
T Consensus         8 Ql~l~~~~~~~~~fd~f~~~~n~~a~----~~l~~~~~---~~~~~~l~l~Gp~G~GKThLl~a~~~~~~~~~~~v~y~~   80 (235)
T PRK08084          8 QLSLPLYLPDDETFASFYPGDNDSLL----AALQNALR---QEHSGYIYLWSREGAGRSHLLHAACAELSQRGRAVGYVP   80 (235)
T ss_pred             ceecCCCCCCcCCccccccCccHHHH----HHHHHHHh---CCCCCeEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEE
Confidence            56666665555555555533222222    33555543   123457899999999999999999998888889999998


Q ss_pred             cCC
Q 024705          156 VEN  158 (264)
Q Consensus       156 ~e~  158 (264)
                      .+.
T Consensus        81 ~~~   83 (235)
T PRK08084         81 LDK   83 (235)
T ss_pred             HHH
Confidence            653

>PRK08181 transposase; Validated

Probab=98.61  E-value=6.7e-07  Score=77.80  Aligned_cols=78  Identities=18%  Similarity=0.268  Sum_probs=53.2

Q ss_pred             CCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCHHHHHHcCCCccceeEeCCCCHHHHHHHHHHHhhc
Q 024705          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTKS  196 (264)
Q Consensus       117 l~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~~~~~~~g~~~~~l~~~~~~~~ee~~~~i~~~~~~  196 (264)
                      +..+..++|+||+|+|||+|+..++..++..|.+|+|++..+-.......     .      ...+.++.+   ..+   
T Consensus       103 ~~~~~nlll~Gp~GtGKTHLa~Aia~~a~~~g~~v~f~~~~~L~~~l~~a-----~------~~~~~~~~l---~~l---  165 (269)
T PRK08181        103 LAKGANLLLFGPPGGGKSHLAAAIGLALIENGWRVLFTRTTDLVQKLQVA-----R------RELQLESAI---AKL---  165 (269)
T ss_pred             HhcCceEEEEecCCCcHHHHHHHHHHHHHHcCCceeeeeHHHHHHHHHHH-----H------hCCcHHHHH---HHH---
Confidence            45778899999999999999999999999899999998853311111000     0      011223332   222   


Q ss_pred             CCccEEEEcCccccc
Q 024705          197 GSIDVIVVDSVAALI  211 (264)
Q Consensus       197 ~~~~~vvIDsl~~~~  211 (264)
                      .+++++|||.+....
T Consensus       166 ~~~dLLIIDDlg~~~  180 (269)
T PRK08181        166 DKFDLLILDDLAYVT  180 (269)
T ss_pred             hcCCEEEEecccccc
Confidence            478999999997654

>PRK06893 DNA replication initiation factor; Validated

Probab=98.60  E-value=5.3e-07  Score=76.78  Aligned_cols=37  Identities=22%  Similarity=0.256  Sum_probs=33.3

Q ss_pred             cEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecC
Q 024705          121 RIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVE  157 (264)
Q Consensus       121 ~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e  157 (264)
                      ..++|+||||+|||+|+..++..+...+.++.|++.+
T Consensus        40 ~~l~l~G~~G~GKThL~~ai~~~~~~~~~~~~y~~~~   76 (229)
T PRK06893         40 PFFYIWGGKSSGKSHLLKAVSNHYLLNQRTAIYIPLS   76 (229)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHHHHcCCCeEEeeHH
Confidence            4678999999999999999999998888899998864

>PRK13409 putative ATPase RIL; Provisional

Probab=98.60  E-value=1.9e-07  Score=89.90  Aligned_cols=36  Identities=25%  Similarity=0.218  Sum_probs=29.9

Q ss_pred             CCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEE
Q 024705          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCA  152 (264)
Q Consensus       117 l~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~  152 (264)
                      +++|+++.|.||||+|||||+..++....+..|.+.
T Consensus        96 i~~Gev~gLvG~NGaGKSTLlkiL~G~l~p~~G~i~  131 (590)
T PRK13409         96 PKEGKVTGILGPNGIGKTTAVKILSGELIPNLGDYE  131 (590)
T ss_pred             CCCCCEEEEECCCCCCHHHHHHHHhCCccCCCcccc
Confidence            679999999999999999998888876665555553

>PRK15439 autoinducer 2 ABC transporter ATP-binding protein LsrA; Provisional

Probab=98.59  E-value=4.7e-08  Score=92.71  Aligned_cols=39  Identities=23%  Similarity=0.275  Sum_probs=31.2

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEE
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYL  154 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~  154 (264)
                      -+++|+++.|.||||||||||+..++....+..+.+.+.
T Consensus       285 ~i~~Ge~~~l~G~NGsGKSTLl~~i~Gl~~p~~G~i~~~  323 (510)
T PRK15439        285 EVRAGEILGLAGVVGAGRTELAETLYGLRPARGGRIMLN  323 (510)
T ss_pred             EEcCCcEEEEECCCCCCHHHHHHHHcCCCCCCCcEEEEC
Confidence            368999999999999999999988887655555555443

>cd03288 ABCC_SUR2 The SUR domain 2

Probab=98.59  E-value=5.9e-07  Score=77.71  Aligned_cols=38  Identities=29%  Similarity=0.442  Sum_probs=30.9

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEE
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAY  153 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~  153 (264)
                      -+++|++++|.|+||+|||||+..++....+..+.+.+
T Consensus        43 ~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~~~~G~i~i   80 (257)
T cd03288          43 YIKPGQKVGICGRTGSGKSSLSLAFFRMVDIFDGKIVI   80 (257)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHHcccCCCCCeEEE
Confidence            37799999999999999999999988866555555443

The sulfonylurea receptor SUR is an ATP binding cassette (ABC) protein of the ABCC/MRP family. Unlike other ABC proteins, it has no intrinsic transport function, neither active nor passive, but associates with the potassium channel proteins Kir6.1 or Kir6.2 to form the ATP-sensitive potassium (K(ATP)) channel. Within the channel complex, SUR serves as a regulatory subunit that fine-tunes the gating of Kir6.x in response to alterations in cellular metabolism. It constitutes a major pharmaceutical target as it binds numerous drugs, K(ATP) channel openers and blockers, capable of up- or down-regulating channel activity.

>COG4674 Uncharacterized ABC-type transport system, ATPase component [General function prediction only]

Probab=98.59  E-value=1.6e-07  Score=76.86  Aligned_cols=76  Identities=16%  Similarity=0.130  Sum_probs=48.1

Q ss_pred             CcHHHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEe-cCCCCCH-HHHHH--cCCCccceeEeC
Q 024705          104 GSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLD-VENALDP-SLAEA--MGIDAENLLIAQ  179 (264)
Q Consensus       104 G~~~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~-~e~~~~~-~~~~~--~g~~~~~l~~~~  179 (264)
                      |+.+|..+-=  -+.+|++-+|+||||+||||++-.+.....+..++|.|-+ .+...-+ .+..+  +|-..|...++.
T Consensus        17 GF~Aln~ls~--~v~~Gelr~lIGpNGAGKTT~mD~ItGKtrp~~G~v~f~g~~dl~~~~e~~IAr~GIGRKFQ~PtVfe   94 (249)
T COG4674          17 GFKALNDLSF--SVDPGELRVLIGPNGAGKTTLMDVITGKTRPQEGEVLFDGDTDLTKLPEHRIARAGIGRKFQKPTVFE   94 (249)
T ss_pred             ceeeeeeeEE--EecCCeEEEEECCCCCCceeeeeeecccCCCCcceEEEcCchhhccCCHHHHHHhccCccccCCeehh
Confidence            4555555532  5789999999999999999998888887766666665544 3333222 23333  444455444444


Q ss_pred             CC
Q 024705          180 PD  181 (264)
Q Consensus       180 ~~  181 (264)
                      ..
T Consensus        95 ~l   96 (249)
T COG4674          95 NL   96 (249)
T ss_pred             hc
Confidence            33

>PF00448 SRP54: SRP54-type protein, GTPase domain; InterPro: IPR000897 The signal recognition particle (SRP) is a multimeric protein, which along with its conjugate receptor (SR), is involved in targeting secretory proteins to the rough endoplasmic reticulum (RER) membrane in eukaryotes, or to the plasma membrane in prokaryotes [, ]

Probab=98.59  E-value=9.5e-07  Score=73.41  Aligned_cols=88  Identities=14%  Similarity=0.246  Sum_probs=59.0

Q ss_pred             cEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCH------HHHHHcCCCccceeEeCCCCHHHHH-HHHHHH
Q 024705          121 RIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP------SLAEAMGIDAENLLIAQPDSAENLL-SVVDTL  193 (264)
Q Consensus       121 ~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~------~~~~~~g~~~~~l~~~~~~~~ee~~-~~i~~~  193 (264)
                      .++.++||+|+||||.+..+++....++.+|.+++.|.....      .+++.+|++.-..  ....+..++. +.++..
T Consensus         2 ~vi~lvGptGvGKTTt~aKLAa~~~~~~~~v~lis~D~~R~ga~eQL~~~a~~l~vp~~~~--~~~~~~~~~~~~~l~~~   79 (196)
T PF00448_consen    2 KVIALVGPTGVGKTTTIAKLAARLKLKGKKVALISADTYRIGAVEQLKTYAEILGVPFYVA--RTESDPAEIAREALEKF   79 (196)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHHHHHTT--EEEEEESTSSTHHHHHHHHHHHHHTEEEEES--STTSCHHHHHHHHHHHH
T ss_pred             EEEEEECCCCCchHhHHHHHHHHHhhccccceeecCCCCCccHHHHHHHHHHHhccccchh--hcchhhHHHHHHHHHHH
Confidence            578999999999999999999999988999999998865442      3566677653221  1122333444 334433


Q ss_pred             hhcCCccEEEEcCccccc
Q 024705          194 TKSGSIDVIVVDSVAALI  211 (264)
Q Consensus       194 ~~~~~~~~vvIDsl~~~~  211 (264)
                       ...+.++|+||+.....
T Consensus        80 -~~~~~D~vlIDT~Gr~~   96 (196)
T PF00448_consen   80 -RKKGYDLVLIDTAGRSP   96 (196)
T ss_dssp             -HHTTSSEEEEEE-SSSS
T ss_pred             -hhcCCCEEEEecCCcch
Confidence             44679999999866443

SRP recognises the signal sequence of the nascent polypeptide on the ribosome, retards its elongation, and docks the SRP-ribosome-polypeptide complex to the RER membrane via the SR receptor. Eukaryotic SRP consists of six polypeptides (SRP9, SRP14, SRP19, SRP54, SRP68 and SRP72) and a single 300 nucleotide 7S RNA molecule. The RNA component catalyses the interaction of SRP with its SR receptor []. In higher eukaryotes, the SRP complex consists of the Alu domain and the S domain linked by the SRP RNA. The Alu domain consists of a heterodimer of SRP9 and SRP14 bound to the 5' and 3' terminal sequences of SRP RNA. This domain is necessary for retarding the elongation of the nascent polypeptide chain, which gives SRP time to dock the ribosome-polypeptide complex to the RER membrane. In archaea, the SRP complex contains 7S RNA like its eukaryotic counterpart, yet only includes two of the six protein subunits found in the eukarytic complex: SRP19 and SRP54 []. This entry represents the GTPase domain of the 54 kDa SRP54 component, a GTP-binding protein that interacts with the signal sequence when it emerges from the ribosome. SRP54 of the signal recognition particle has a three-domain structure: an N-terminal helical bundle domain, a GTPase domain, and the M-domain that binds the 7s RNA and also binds the signal sequence. The extreme C-terminal region is glycine-rich and lower in complexity and poorly conserved between species. The GTPase domain is evolutionary related to P-loop NTPase domains found in a variety of other proteins []. These proteins include Escherichia coli and Bacillus subtilis ffh protein (P48), which seems to be the prokaryotic counterpart of SRP54; signal recognition particle receptor alpha subunit (docking protein), an integral membrane GTP-binding protein which ensures, in conjunction with SRP, the correct targeting of nascent secretory proteins to the endoplasmic reticulum membrane; bacterial FtsY protein, which is believed to play a similar role to that of the docking protein in eukaryotes; the pilA protein from Neisseria gonorrhoeae, the homologue of ftsY; and bacterial flagellar biosynthesis protein flhF.; GO: 0005525 GTP binding, 0006614 SRP-dependent cotranslational protein targeting to membrane; PDB: 2OG2_A 3B9Q_A 3DM9_B 3DMD_B 3E70_C 3DM5_B 2XXA_C 2J28_9 1ZU5_B 1ZU4_A ....

>TIGR01842 type_I_sec_PrtD type I secretion system ABC transporter, PrtD family

Probab=98.59  E-value=3.7e-07  Score=87.27  Aligned_cols=62  Identities=19%  Similarity=0.244  Sum_probs=41.9

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCC--CCHHHHHHcCCCccceeE
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENA--LDPSLAEAMGIDAENLLI  177 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~--~~~~~~~~~g~~~~~l~~  177 (264)
                      -+++|+.+.|.||+|||||||+..++....+..|.+.+-..+..  ....+.+.+++.+++..+
T Consensus       340 ~i~~G~~~~ivG~sGsGKSTL~~ll~g~~~~~~G~i~~~g~~i~~~~~~~~~~~i~~v~q~~~l  403 (544)
T TIGR01842       340 RLQAGEALAIIGPSGSGKSTLARLIVGIWPPTSGSVRLDGADLKQWDRETFGKHIGYLPQDVEL  403 (544)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhCCCCCCCceEEECCEehhhCCHHHHhhheEEecCCccc
Confidence            37899999999999999999999998877666665544222111  111344556766665443

Type I protein secretion is a system in some Gram-negative bacteria to export proteins (often proteases) across both inner and outer membranes to the extracellular medium. This is one of three proteins of the type I secretion apparatus. Targeted proteins are not cleaved at the N-terminus, but rather carry signals located toward the extreme C-terminus to direct type I secretion.

>COG0488 Uup ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]

Probab=98.58  E-value=6.7e-07  Score=84.66  Aligned_cols=129  Identities=14%  Similarity=0.149  Sum_probs=80.0

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhc--------CCeEEEEecCCCCC---H---H----------------HH
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKL--------GGYCAYLDVENALD---P---S----------------LA  165 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~--------g~~v~~~~~e~~~~---~---~----------------~~  165 (264)
                      .+.+|+-+.|+||||+|||||+..++....+.        +-++.||+.+...-   .   .                ..
T Consensus       344 ~i~~g~riaiiG~NG~GKSTLlk~l~g~~~~~~G~v~~g~~v~igyf~Q~~~~l~~~~t~~d~l~~~~~~~~e~~~r~~L  423 (530)
T COG0488         344 RIDRGDRIAIVGPNGAGKSTLLKLLAGELGPLSGTVKVGETVKIGYFDQHRDELDPDKTVLEELSEGFPDGDEQEVRAYL  423 (530)
T ss_pred             EecCCCEEEEECCCCCCHHHHHHHHhhhcccCCceEEeCCceEEEEEEehhhhcCccCcHHHHHHhhCccccHHHHHHHH
Confidence            57899999999999999999999987766432        24477887655211   0   0                11


Q ss_pred             HHcCCCccce-eEeCCCCHHHHHHHHHHHhhcCCccEEEEcCccccccccccCCCcCCCCcHHHHHHHHHHHHHHHHHHh
Q 024705          166 EAMGIDAENL-LIAQPDSAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLC  244 (264)
Q Consensus       166 ~~~g~~~~~l-~~~~~~~~ee~~~~i~~~~~~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r~i~~~L~~l~~~l~  244 (264)
                      .++++..+.. ..+...+.-|-....-..+--.++.++++|..++-+..                    ..+..|...+.
T Consensus       424 ~~f~F~~~~~~~~v~~LSGGEk~Rl~La~ll~~~pNvLiLDEPTNhLDi--------------------~s~~aLe~aL~  483 (530)
T COG0488         424 GRFGFTGEDQEKPVGVLSGGEKARLLLAKLLLQPPNLLLLDEPTNHLDI--------------------ESLEALEEALL  483 (530)
T ss_pred             HHcCCChHHHhCchhhcCHhHHHHHHHHHHhccCCCEEEEcCCCccCCH--------------------HHHHHHHHHHH
Confidence            1223332221 11112233333333333333468999999998887631                    12333344448


Q ss_pred             ccCcEEEEEcccchHhhhcC
Q 024705          245 QSHTLIIFLNQVKVLLLKHF  264 (264)
Q Consensus       245 ~~g~tVi~i~h~~~~~~~~~  264 (264)
                      ++.-|||+|||++..++..|
T Consensus       484 ~f~Gtvl~VSHDr~Fl~~va  503 (530)
T COG0488         484 DFEGTVLLVSHDRYFLDRVA  503 (530)
T ss_pred             hCCCeEEEEeCCHHHHHhhc
Confidence            88999999999999887643

>PRK15134 microcin C ABC transporter ATP-binding protein YejF; Provisional

Probab=98.58  E-value=7.7e-08  Score=91.66  Aligned_cols=30  Identities=23%  Similarity=0.460  Sum_probs=26.7

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHh
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQ  145 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~  145 (264)
                      -+.+|+++.|.||||||||||+..++....
T Consensus        31 ~i~~Ge~~~iiG~nGsGKSTLl~~i~G~~~   60 (529)
T PRK15134         31 QIEAGETLALVGESGSGKSVTALSILRLLP   60 (529)
T ss_pred             EEeCCCEEEEECCCCCcHHHHHHHHhcCCC
Confidence            477999999999999999999988887664

>TIGR02857 CydD thiol reductant ABC exporter, CydD subunit

Probab=98.58  E-value=3e-07  Score=87.54  Aligned_cols=63  Identities=22%  Similarity=0.249  Sum_probs=43.9

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCC-CC-HHHHHHcCCCccceeEe
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENA-LD-PSLAEAMGIDAENLLIA  178 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~-~~-~~~~~~~g~~~~~l~~~  178 (264)
                      -+++|+.+.|.||+|+|||||+..++....+..|.+.+-+.+.. .. ..+.+.+++.+|+..++
T Consensus       344 ~i~~G~~~~ivG~sGsGKSTL~~ll~g~~~~~~G~I~~~g~~i~~~~~~~lr~~i~~v~Q~~~lf  408 (529)
T TIGR02857       344 TVPPGERVALVGPSGAGKSTLLNLLLGFVDPTEGSIAVNGVPLADADADSWRDQIAWVPQHPFLF  408 (529)
T ss_pred             EECCCCEEEEECCCCCCHHHHHHHHhcCCCCCCcEEEECCEehhhCCHHHHHhheEEEcCCCccc
Confidence            47899999999999999999998888877666666544332221 11 24556677777665443

Unfortunately, the gene symbol nomenclature adopted based on this operon in B. subtilis assigns cydC to the third gene in the operon where this gene is actually homologous to the E. coli cydD gene. We have chosen to name all homologs in this family in accordance with the precedence of publication of the E. coli name, CydD

>PRK06526 transposase; Provisional

Probab=98.57  E-value=2.7e-07  Score=79.78  Aligned_cols=41  Identities=22%  Similarity=0.195  Sum_probs=36.0

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEec
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDV  156 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~  156 (264)
                      -+..+..++|+||||+|||+++..++..++..|.+|.|++.
T Consensus        94 fi~~~~nlll~Gp~GtGKThLa~al~~~a~~~g~~v~f~t~  134 (254)
T PRK06526         94 FVTGKENVVFLGPPGTGKTHLAIGLGIRACQAGHRVLFATA  134 (254)
T ss_pred             hhhcCceEEEEeCCCCchHHHHHHHHHHHHHCCCchhhhhH
Confidence            35677889999999999999999999999988988888654

>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=98.57  E-value=7.6e-07  Score=68.72  Aligned_cols=79  Identities=24%  Similarity=0.370  Sum_probs=51.5

Q ss_pred             CCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCHHHHH-HcCCCccceeEeCCCCHHHHHHHHHHHhhcC
Q 024705          119 KGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAE-AMGIDAENLLIAQPDSAENLLSVVDTLTKSG  197 (264)
Q Consensus       119 ~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~~~~~-~~g~~~~~l~~~~~~~~ee~~~~i~~~~~~~  197 (264)
                      .+..++|+||+|+|||+++..++..+...+..+++++........... ..+..              ............
T Consensus        18 ~~~~v~i~G~~G~GKT~l~~~i~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~--------------~~~~~~~~~~~~   83 (151)
T cd00009          18 PPKNLLLYGPPGTGKTTLARAIANELFRPGAPFLYLNASDLLEGLVVAELFGHF--------------LVRLLFELAEKA   83 (151)
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHHhhcCCCCeEEEehhhhhhhhHHHHHhhhh--------------hHhHHHHhhccC
Confidence            467899999999999999999999887777888888765433321110 00000              111112222335


Q ss_pred             CccEEEEcCccccc
Q 024705          198 SIDVIVVDSVAALI  211 (264)
Q Consensus       198 ~~~~vvIDsl~~~~  211 (264)
                      +..++++|.+..+.
T Consensus        84 ~~~~lilDe~~~~~   97 (151)
T cd00009          84 KPGVLFIDEIDSLS   97 (151)
T ss_pred             CCeEEEEeChhhhh
Confidence            67899999998773

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.

>PRK10938 putative molybdenum transport ATP-binding protein ModF; Provisional

Probab=98.56  E-value=4.5e-07  Score=85.60  Aligned_cols=38  Identities=18%  Similarity=0.279  Sum_probs=29.5

Q ss_pred             CCCCcEEEEEecCCCChHHHHHHHHHHHhh-cCCeEEEE
Q 024705          117 LPKGRIVEIYGREASGKTTLALHVIKEAQK-LGGYCAYL  154 (264)
Q Consensus       117 l~~G~~~~I~G~~GsGKTtl~~~l~~~~~~-~g~~v~~~  154 (264)
                      +++|+++.|.||||||||||+..++..... ..+.+.|.
T Consensus       283 i~~Ge~~~i~G~NGsGKSTLl~~l~G~~~~~~~G~i~~~  321 (490)
T PRK10938        283 VNPGEHWQIVGPNGAGKSTLLSLITGDHPQGYSNDLTLF  321 (490)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHcCCCCcccCCeEEEe
Confidence            789999999999999999999998874322 24555443

>PRK14255 phosphate ABC transporter ATP-binding protein; Provisional

Probab=98.56  E-value=6.4e-07  Score=77.17  Aligned_cols=29  Identities=17%  Similarity=0.296  Sum_probs=25.5

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHH
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEA  144 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~  144 (264)
                      -+.+|+++.|.||||+|||||+..++...
T Consensus        27 ~i~~Ge~~~l~G~nGsGKSTLl~~l~Gl~   55 (252)
T PRK14255         27 DFNQNEITALIGPSGCGKSTYLRTLNRMN   55 (252)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhccc
Confidence            37799999999999999999988887743

>CHL00131 ycf16 sulfate ABC transporter protein; Validated

Probab=98.56  E-value=4.6e-07  Score=78.00  Aligned_cols=38  Identities=32%  Similarity=0.470  Sum_probs=29.1

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHH--hhcCCeEEE
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEA--QKLGGYCAY  153 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~--~~~g~~v~~  153 (264)
                      -+.+|+++.|.|+||+|||||+..++...  .+..+.+.+
T Consensus        29 ~i~~Ge~~~i~G~nGsGKSTLl~~i~Gl~~~~~~~G~i~~   68 (252)
T CHL00131         29 SINKGEIHAIMGPNGSGKSTLSKVIAGHPAYKILEGDILF   68 (252)
T ss_pred             EEcCCcEEEEECCCCCCHHHHHHHHcCCCcCcCCCceEEE
Confidence            47899999999999999999998887742  233444433

>PRK13657 cyclic beta-1,2-glucan ABC transporter; Provisional

Probab=98.56  E-value=3.7e-07  Score=88.10  Aligned_cols=59  Identities=20%  Similarity=0.228  Sum_probs=41.1

Q ss_pred             CCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCC-C--CCHHHHHHcCCCcccee
Q 024705          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVEN-A--LDPSLAEAMGIDAENLL  176 (264)
Q Consensus       117 l~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~-~--~~~~~~~~~g~~~~~l~  176 (264)
                      +++|+.++|.|++|+|||||+..++....+..|.+. ++... .  ....+.+.+++.+|+..
T Consensus       358 i~~G~~v~IvG~sGsGKSTLl~lL~gl~~p~~G~I~-i~g~~i~~~~~~~~r~~i~~v~Q~~~  419 (588)
T PRK13657        358 AKPGQTVAIVGPTGAGKSTLINLLQRVFDPQSGRIL-IDGTDIRTVTRASLRRNIAVVFQDAG  419 (588)
T ss_pred             ECCCCEEEEECCCCCCHHHHHHHHhcCcCCCCCEEE-ECCEEhhhCCHHHHHhheEEEecCcc
Confidence            679999999999999999999888877766555544 44321 1  11245566777666543

>PRK15064 ABC transporter ATP-binding protein; Provisional

Probab=98.55  E-value=3.3e-07  Score=87.33  Aligned_cols=36  Identities=17%  Similarity=0.220  Sum_probs=29.3

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeE
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYC  151 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v  151 (264)
                      -+.+|+++.|.||||||||||+..++....+..+.+
T Consensus        23 ~i~~Ge~~~liG~NGsGKSTLl~~l~Gl~~p~~G~i   58 (530)
T PRK15064         23 KFGGGNRYGLIGANGCGKSTFMKILGGDLEPSAGNV   58 (530)
T ss_pred             EECCCCEEEEECCCCCCHHHHHHHHhCCCCCCCceE
Confidence            478999999999999999999998887665444433

>TIGR02633 xylG D-xylose ABC transporter, ATP-binding protein

Probab=98.55  E-value=1.6e-07  Score=88.80  Aligned_cols=37  Identities=22%  Similarity=0.342  Sum_probs=29.7

Q ss_pred             CCCCcEEEEEecCCCChHHHHHHHHHHHhh-cCCeEEE
Q 024705          117 LPKGRIVEIYGREASGKTTLALHVIKEAQK-LGGYCAY  153 (264)
Q Consensus       117 l~~G~~~~I~G~~GsGKTtl~~~l~~~~~~-~g~~v~~  153 (264)
                      +.+|+++.|.||||||||||+..++....+ ..+.+.+
T Consensus       283 i~~Ge~~~l~G~NGsGKSTLl~~l~G~~~p~~~G~i~~  320 (500)
T TIGR02633       283 LRRGEILGVAGLVGAGRTELVQALFGAYPGKFEGNVFI  320 (500)
T ss_pred             EeCCcEEEEeCCCCCCHHHHHHHHhCCCCCCCCeEEEE
Confidence            789999999999999999998888876543 3555544

Several bacterial species have enzymes xylose isomerase and xylulokinase enzymes for xylose utilization. Members of this protein family are the ATP-binding cassette (ABC) subunit of the known or predicted high-affinity xylose ABC transporter for xylose import. These genes, which closely resemble other sugar transport ABC transporter genes, typically are encoded near xylose utilization enzymes and regulatory proteins. Note that this form of the transporter contains two copies of the ABC transporter domain (pfam00005).

>PRK10789 putative multidrug transporter membrane\ATP-binding components; Provisional

Probab=98.55  E-value=4.5e-07  Score=87.16  Aligned_cols=63  Identities=19%  Similarity=0.252  Sum_probs=42.9

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCC--CCHHHHHHcCCCccceeEe
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENA--LDPSLAEAMGIDAENLLIA  178 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~--~~~~~~~~~g~~~~~l~~~  178 (264)
                      -+++|+.+.|.||+|||||||+..++....+..|.+.+-..+..  ....+.+.+++.+++..++
T Consensus       337 ~i~~G~~~~ivG~sGsGKSTLl~ll~g~~~p~~G~i~~~g~~~~~~~~~~~~~~i~~v~q~~~lf  401 (569)
T PRK10789        337 TLKPGQMLGICGPTGSGKSTLLSLIQRHFDVSEGDIRFHDIPLTKLQLDSWRSRLAVVSQTPFLF  401 (569)
T ss_pred             EECCCCEEEEECCCCCCHHHHHHHHhcccCCCCCEEEECCEEHhhCCHHHHHhheEEEccCCeec
Confidence            37899999999999999999998888877666666654322211  1123455567666655443

>TIGR03499 FlhF flagellar biosynthetic protein FlhF

Probab=98.55  E-value=6.2e-07  Score=78.73  Aligned_cols=82  Identities=20%  Similarity=0.307  Sum_probs=58.9

Q ss_pred             CCCcEEEEEecCCCChHHHHHHHHHHHhhc-C-CeEEEEecCCCCCH------HHHHHcCCCccceeEeCCCCHHHHHHH
Q 024705          118 PKGRIVEIYGREASGKTTLALHVIKEAQKL-G-GYCAYLDVENALDP------SLAEAMGIDAENLLIAQPDSAENLLSV  189 (264)
Q Consensus       118 ~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~-g-~~v~~~~~e~~~~~------~~~~~~g~~~~~l~~~~~~~~ee~~~~  189 (264)
                      +.|.++.|+||+|+||||++..++..+... | .+|.+++.|.....      .+++.+|++...     ..+..++...
T Consensus       192 ~~~~vi~~vGptGvGKTTt~~kLa~~~~~~~g~~~V~li~~D~~r~~a~eql~~~~~~~~~p~~~-----~~~~~~l~~~  266 (282)
T TIGR03499       192 EQGGVIALVGPTGVGKTTTLAKLAARFVLEHGNKKVALITTDTYRIGAVEQLKTYAKILGVPVKV-----ARDPKELRKA  266 (282)
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHHHHcCCCeEEEEECCccchhHHHHHHHHHHHhCCceec-----cCCHHHHHHH
Confidence            467899999999999999999999988876 4 79999998864321      234445654322     2345566555


Q ss_pred             HHHHhhcCCccEEEEcCc
Q 024705          190 VDTLTKSGSIDVIVVDSV  207 (264)
Q Consensus       190 i~~~~~~~~~~~vvIDsl  207 (264)
                      +..+   .+.++|+||..
T Consensus       267 l~~~---~~~d~vliDt~  281 (282)
T TIGR03499       267 LDRL---RDKDLILIDTA  281 (282)
T ss_pred             HHHc---cCCCEEEEeCC
Confidence            5554   45899999974

>PRK10790 putative multidrug transporter membrane\ATP-binding components; Provisional

Probab=98.54  E-value=4.5e-07  Score=87.53  Aligned_cols=63  Identities=17%  Similarity=0.202  Sum_probs=44.7

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCC--CHHHHHHcCCCccceeEe
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENAL--DPSLAEAMGIDAENLLIA  178 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~--~~~~~~~~g~~~~~l~~~  178 (264)
                      -+++|+.++|.|++|||||||+..++....+.+|.+.+-+.+...  ...+.+.+++.+|+..++
T Consensus       363 ~i~~Ge~iaIvG~SGsGKSTLl~lL~gl~~p~~G~I~idg~~i~~~~~~~l~~~i~~v~Q~~~lF  427 (592)
T PRK10790        363 SVPSRGFVALVGHTGSGKSTLASLLMGYYPLTEGEIRLDGRPLSSLSHSVLRQGVAMVQQDPVVL  427 (592)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhcccCCCCceEEECCEEhhhCCHHHHHhheEEEccCCccc
Confidence            378999999999999999999999888777766665443322221  124566777777765444

>PLN03211 ABC transporter G-25; Provisional

Probab=98.54  E-value=3.6e-07  Score=89.14  Aligned_cols=72  Identities=18%  Similarity=0.229  Sum_probs=44.7

Q ss_pred             CCCCCCcEEEEEecCCCChHHHHHHHHHHHhhc--CCeEEEEecCCCCCHHHHHHcCCCccceeEeCCCCHHHHHH
Q 024705          115 GGLPKGRIVEIYGREASGKTTLALHVIKEAQKL--GGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLS  188 (264)
Q Consensus       115 gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~--g~~v~~~~~e~~~~~~~~~~~g~~~~~l~~~~~~~~ee~~~  188 (264)
                      +-+++|+++.|.||||+|||||+..++....+.  .|.+ +++.... .....+.+|+.+|+..+....++.|.+.
T Consensus        89 ~~i~~Ge~~aI~GpnGaGKSTLL~iLaG~~~~~~~sG~I-~inG~~~-~~~~~~~i~yv~Q~~~l~~~lTV~E~l~  162 (659)
T PLN03211         89 GMASPGEILAVLGPSGSGKSTLLNALAGRIQGNNFTGTI-LANNRKP-TKQILKRTGFVTQDDILYPHLTVRETLV  162 (659)
T ss_pred             EEEECCEEEEEECCCCCCHHHHHHHHhCCCCCCceeEEE-EECCEEC-chhhccceEEECcccccCCcCCHHHHHH
Confidence            468999999999999999999988887755432  3444 4443221 1222334666666554444445554443

>TIGR02204 MsbA_rel ABC transporter, permease/ATP-binding protein

Probab=98.53  E-value=5.9e-07  Score=86.42  Aligned_cols=61  Identities=21%  Similarity=0.307  Sum_probs=43.0

Q ss_pred             CCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCC-CC-HHHHHHcCCCccceeE
Q 024705          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENA-LD-PSLAEAMGIDAENLLI  177 (264)
Q Consensus       117 l~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~-~~-~~~~~~~g~~~~~l~~  177 (264)
                      +++|+.++|.|++|+|||||+..++....+..|.+.+-+.+.. .. ..+.+.+++.+|+..+
T Consensus       363 i~~Ge~i~IvG~sGsGKSTLlklL~gl~~p~~G~I~i~g~~i~~~~~~~~~~~i~~~~Q~~~l  425 (576)
T TIGR02204       363 VRPGETVALVGPSGAGKSTLFQLLLRFYDPQSGRILLDGVDLRQLDPAELRARMALVPQDPVL  425 (576)
T ss_pred             ecCCCEEEEECCCCCCHHHHHHHHHhccCCCCCEEEECCEEHHhcCHHHHHHhceEEccCCcc
Confidence            7899999999999999999999998887766665544332211 11 2345567777765443

This protein is related to a Proteobacterial ATP transporter that exports lipid A and to eukaryotic P-glycoproteins.

>TIGR03375 type_I_sec_LssB type I secretion system ATPase, LssB family

Probab=98.53  E-value=3.5e-07  Score=89.95  Aligned_cols=60  Identities=25%  Similarity=0.237  Sum_probs=41.0

Q ss_pred             CCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCC--CCHHHHHHcCCCcccee
Q 024705          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENA--LDPSLAEAMGIDAENLL  176 (264)
Q Consensus       117 l~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~--~~~~~~~~~g~~~~~l~  176 (264)
                      +++|+.+.|.|++|||||||+..++....+..|.+.+-+.+..  ....+.+.+++.+|+..
T Consensus       488 i~~G~~iaIvG~sGsGKSTLlklL~gl~~p~~G~I~idg~~l~~~~~~~lr~~i~~v~Q~~~  549 (694)
T TIGR03375       488 IRPGEKVAIIGRIGSGKSTLLKLLLGLYQPTEGSVLLDGVDIRQIDPADLRRNIGYVPQDPR  549 (694)
T ss_pred             ECCCCEEEEECCCCCCHHHHHHHHhcCCCCCCceEEECCEEhhhCCHHHHHhccEEECCChh
Confidence            7899999999999999999998888777666665544322211  11245556776666543

Type I protein secretion is a system in some Gram-negative bacteria to export proteins (often proteases) across both inner and outer membranes to the extracellular medium. This is one of three proteins of the type I secretion apparatus. Targeted proteins are not cleaved at the N-terminus, but rather carry signals located toward the extreme C-terminus to direct type I secretion. This model is related to models TIGR01842 and TIGR01846, and to bacteriocin ABC transporters that cleave their substrates during export.

>TIGR01193 bacteriocin_ABC ABC-type bacteriocin transporter

Probab=98.52  E-value=3.3e-07  Score=90.29  Aligned_cols=61  Identities=21%  Similarity=0.141  Sum_probs=42.5

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCC-C--CCHHHHHHcCCCccceeE
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVEN-A--LDPSLAEAMGIDAENLLI  177 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~-~--~~~~~~~~~g~~~~~l~~  177 (264)
                      -+++|+.+.|.||+|||||||+..++....+..|.+. ++... .  ....+.+.+|+.+|+..+
T Consensus       496 ~i~~G~~vaIvG~SGsGKSTLlklL~gl~~p~~G~I~-idg~~i~~~~~~~lr~~i~~v~Q~~~l  559 (708)
T TIGR01193       496 TIKMNSKTTIVGMSGSGKSTLAKLLVGFFQARSGEIL-LNGFSLKDIDRHTLRQFINYLPQEPYI  559 (708)
T ss_pred             EECCCCEEEEECCCCCCHHHHHHHHhccCCCCCcEEE-ECCEEHHHcCHHHHHHheEEEecCcee
Confidence            3789999999999999999999888887766666554 44321 1  112455667777765443

This model describes ABC-type bacteriocin transporter. The amino terminal domain (pfam03412) processes the N-terminal leader peptide from the bacteriocin while C-terminal domains resemble ABC transporter membrane protein and ATP-binding cassette domain. In general, bacteriocins are agents which are responsible for killing or inhibiting the closely related species or even different strains of the same species. Bacteriocins are usually encoded by bacterial plasmids. Bacteriocins are named after the species and hence in literature one encounters various names e.g., leucocin from Leuconostic geldium; pedicocin from Pedicoccus acidilactici; sakacin from Lactobacillus sake etc.

>cd03243 ABC_MutS_homologs The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch

Probab=98.52  E-value=6.2e-07  Score=74.77  Aligned_cols=26  Identities=27%  Similarity=0.365  Sum_probs=22.9

Q ss_pred             CCcEEEEEecCCCChHHHHHHHHHHH
Q 024705          119 KGRIVEIYGREASGKTTLALHVIKEA  144 (264)
Q Consensus       119 ~G~~~~I~G~~GsGKTtl~~~l~~~~  144 (264)
                      +|+.++|+||||+|||||+..++...
T Consensus        28 ~~~~~~l~G~Ng~GKStll~~i~~~~   53 (202)
T cd03243          28 SGRLLLITGPNMGGKSTYLRSIGLAV   53 (202)
T ss_pred             CCeEEEEECCCCCccHHHHHHHHHHH
Confidence            45999999999999999999998544

Members of the MutS family also possess a conserved ATPase activity that belongs to the ATP binding cassette (ABC) superfamily. MutS homologs (MSH) have been identified in most prokaryotic and all eukaryotic organisms examined. Prokaryotes have two homologs (MutS1 and MutS2), whereas seven MSH proteins (MSH1 to MSH7) have been identified in eukaryotes. The homodimer MutS1 and heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily involved in mitotic mismatch repair, whereas MSH4-MSH5 is involved in resolution of Holliday junctions during meiosis. All members of the MutS family contain the highly conserved Walker A/B ATPase domain, and many share a common mechanism of action. MutS1, MSH2-MSH3, MSH2-MSH6, and MSH4-MSH5 dimerize to form sliding clamps, and recognition of specific DNA stru

>PRK05642 DNA replication initiation factor; Validated

Probab=98.51  E-value=1.7e-06  Score=73.94  Aligned_cols=134  Identities=14%  Similarity=0.235  Sum_probs=76.8

Q ss_pred             HHHHhcCCccccccccccCCCCCCccccCcHHHHHHhc-CCCCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEE
Q 024705           76 QLANDFGKESMLSLKRFFGSRRGPVISTGSLKLDLALG-IGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYL  154 (264)
Q Consensus        76 ~l~~~~~~~~~~~~~~~~~~~~~~~i~tG~~~LD~~l~-~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~  154 (264)
                      |+..++......+..++....+    ..-...++.+.. .++. ....+.|+||+|+|||+|+..++..+...+.+|+|+
T Consensus         5 Ql~l~~~~~~~~tfdnF~~~~~----~~a~~~~~~~~~~~~~~-~~~~l~l~G~~G~GKTHLl~a~~~~~~~~~~~v~y~   79 (234)
T PRK05642          5 QLPLGVRLRDDATFANYYPGAN----AAALGYVERLCEADAGW-TESLIYLWGKDGVGRSHLLQAACLRFEQRGEPAVYL   79 (234)
T ss_pred             ccccCCCCCCcccccccCcCCh----HHHHHHHHHHhhccccC-CCCeEEEECCCCCCHHHHHHHHHHHHHhCCCcEEEe
Confidence            5555666555555555543221    111222333222 0122 235688999999999999999988887778899999


Q ss_pred             ecCCCCCHHHHHHcCCCccceeEeCCCCHHHHHHHHHHHhhcCCccEEEEcCccccccccccCCCcCCCCcHHHHHHHHH
Q 024705          155 DVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQ  234 (264)
Q Consensus       155 ~~e~~~~~~~~~~~g~~~~~l~~~~~~~~ee~~~~i~~~~~~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r~i~~  234 (264)
                      +.+.-...                    ..++.+.+      .++++++||.+.......            ...    .
T Consensus        80 ~~~~~~~~--------------------~~~~~~~~------~~~d~LiiDDi~~~~~~~------------~~~----~  117 (234)
T PRK05642         80 PLAELLDR--------------------GPELLDNL------EQYELVCLDDLDVIAGKA------------DWE----E  117 (234)
T ss_pred             eHHHHHhh--------------------hHHHHHhh------hhCCEEEEechhhhcCCh------------HHH----H
Confidence            86431100                    12222222      256899999998665311            111    2


Q ss_pred             HHHHHHHHHhccCcEEEEEccc
Q 024705          235 ALRKIHYSLCQSHTLIIFLNQV  256 (264)
Q Consensus       235 ~L~~l~~~l~~~g~tVi~i~h~  256 (264)
                      .|..+-+.+.+.|..+|+++..
T Consensus       118 ~Lf~l~n~~~~~g~~ilits~~  139 (234)
T PRK05642        118 ALFHLFNRLRDSGRRLLLAASK  139 (234)
T ss_pred             HHHHHHHHHHhcCCEEEEeCCC
Confidence            3444444446777888877764

>PRK10982 galactose/methyl galaxtoside transporter ATP-binding protein; Provisional

Probab=98.51  E-value=1e-06  Score=83.20  Aligned_cols=37  Identities=24%  Similarity=0.306  Sum_probs=30.2

Q ss_pred             CCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEE
Q 024705          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAY  153 (264)
Q Consensus       117 l~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~  153 (264)
                      +++|+++.|.||||||||||+..++....+..+.+.+
T Consensus       271 i~~Ge~~~l~G~nGsGKSTLl~~l~Gl~~p~~G~i~~  307 (491)
T PRK10982        271 LHKGEILGIAGLVGAKRTDIVETLFGIREKSAGTITL  307 (491)
T ss_pred             EeCCcEEEEecCCCCCHHHHHHHHcCCCcCCccEEEE
Confidence            7899999999999999999998888765555555544

>KOG0058 consensus Peptide exporter, ABC superfamily [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.51  E-value=8.3e-07  Score=84.91  Aligned_cols=60  Identities=20%  Similarity=0.305  Sum_probs=40.8

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCC-CCH-HHHHHcCCCccce
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENA-LDP-SLAEAMGIDAENL  175 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~-~~~-~~~~~~g~~~~~l  175 (264)
                      -++||+.+.+.||+|+||||++..+..-..+.+|+++.-..+.. .+. .+.+.+|+..|+.
T Consensus       490 ti~pGe~vALVGPSGsGKSTiasLL~rfY~PtsG~IllDG~~i~~~~~~~lr~~Ig~V~QEP  551 (716)
T KOG0058|consen  490 TIRPGEVVALVGPSGSGKSTIASLLLRFYDPTSGRILLDGVPISDINHKYLRRKIGLVGQEP  551 (716)
T ss_pred             eeCCCCEEEEECCCCCCHHHHHHHHHHhcCCCCCeEEECCeehhhcCHHHHHHHeeeeeccc
Confidence            58999999999999999999877777766677776654332221 111 3445666665543

>COG4172 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]

Probab=98.51  E-value=9.7e-07  Score=79.46  Aligned_cols=128  Identities=17%  Similarity=0.268  Sum_probs=76.4

Q ss_pred             CCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCH------HHHHHcCCCccce---------------
Q 024705          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP------SLAEAMGIDAENL---------------  175 (264)
Q Consensus       117 l~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~------~~~~~~g~~~~~l---------------  175 (264)
                      +.+|+.+.|.|++|||||||...+....... +.+ +|..+.-...      ...+++-+..++.               
T Consensus       310 L~~gqTlGlVGESGSGKsTlG~allrL~~s~-G~I-~F~G~~i~~~~~~~mrplR~~mQvVFQDPygSLsPRmtV~qII~  387 (534)
T COG4172         310 LRRGQTLGLVGESGSGKSTLGLALLRLIPSQ-GEI-RFDGQDIDGLSRKEMRPLRRRMQVVFQDPYGSLSPRMTVGQIIE  387 (534)
T ss_pred             ecCCCeEEEEecCCCCcchHHHHHHhhcCcC-ceE-EECCccccccChhhhhhhhhhceEEEeCCCCCCCcccCHHHHhh
Confidence            6789999999999999999999988866544 444 4443322111      1122232222211               


Q ss_pred             ---eEeCC-CCH--------------------------------HHHHHHHHHHhhcCCccEEEEcCccccccccccCCC
Q 024705          176 ---LIAQP-DSA--------------------------------ENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVP  219 (264)
Q Consensus       176 ---~~~~~-~~~--------------------------------ee~~~~i~~~~~~~~~~~vvIDsl~~~~~~~~~~~~  219 (264)
                         .+.++ .+.                                .+-+.+.+.++  -+|.+|++|..++-..+      
T Consensus       388 EGL~vh~~~ls~~eR~~rv~~aL~EVGLDp~~r~RYPhEFSGGQRQRIAIARAli--LkP~~i~LDEPTSALD~------  459 (534)
T COG4172         388 EGLRVHEPKLSAAERDQRVIEALEEVGLDPATRNRYPHEFSGGQRQRIAIARALI--LKPELILLDEPTSALDR------  459 (534)
T ss_pred             hhhhhcCCCCCHHHHHHHHHHHHHHcCCChhHhhcCCcccCcchhhHHHHHHHHh--cCCcEEEecCCchHhhH------
Confidence               11110 011                                11222233332  46788889877765521      


Q ss_pred             cCCCCcHHHHHHHHHHHHHHHHHHhccCcEEEEEcccchHhhhcC
Q 024705          220 INGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVKVLLLKHF  264 (264)
Q Consensus       220 ~~~~~~~~q~r~i~~~L~~l~~~l~~~g~tVi~i~h~~~~~~~~~  264 (264)
                             .-+..+...|++|.   +++|.+-++|+|+..-+-..|
T Consensus       460 -------SVQaQvv~LLr~LQ---~k~~LsYLFISHDL~VvrAl~  494 (534)
T COG4172         460 -------SVQAQVLDLLRDLQ---QKHGLSYLFISHDLAVVRALC  494 (534)
T ss_pred             -------HHHHHHHHHHHHHH---HHhCCeEEEEeccHHHHHHhh
Confidence                   23334667888888   899999999999988776544

>TIGR01192 chvA glucan exporter ATP-binding protein

Probab=98.51  E-value=5.7e-07  Score=86.76  Aligned_cols=61  Identities=21%  Similarity=0.193  Sum_probs=41.3

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCC---CCHHHHHHcCCCccceeE
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENA---LDPSLAEAMGIDAENLLI  177 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~---~~~~~~~~~g~~~~~l~~  177 (264)
                      -+++|+.+.|.||+|+|||||+..++....+..|.+. ++....   ....+.+.+++.+|+..+
T Consensus       357 ~i~~G~~~~ivG~sGsGKSTL~~ll~g~~~~~~G~i~-~~g~~~~~~~~~~~~~~i~~v~q~~~l  420 (585)
T TIGR01192       357 EAKAGQTVAIVGPTGAGKTTLINLLQRVYDPTVGQIL-IDGIDINTVTRESLRKSIATVFQDAGL  420 (585)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHccCCCCCCCEEE-ECCEEhhhCCHHHHHhheEEEccCCcc
Confidence            3789999999999999999999888877666566554 433211   112345566766665443

This model describes glucan exporter ATP binding protein in bacteria. It belongs to the larger ABC transporter superfamily with the characteristic ATP binding motif. The In general, this protein is in some ways implicated in osmoregulation and suggested to participate in the export of glucan from the cytoplasm to periplasm. The cyclic beta-1,2-glucan in the bactrerial periplasmic space is suggested to confer the property of high osmolority. It has also been demonstrated that mutants in this loci have lost functions of virulence and motility. It is unclear as to how virulence and osmoadaptaion are related.

>PRK12726 flagellar biosynthesis regulator FlhF; Provisional

Probab=98.51  E-value=8.8e-07  Score=80.01  Aligned_cols=90  Identities=20%  Similarity=0.294  Sum_probs=66.6

Q ss_pred             CCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCH------HHHHHcCCCccceeEeCCCCHHHHHHHH
Q 024705          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP------SLAEAMGIDAENLLIAQPDSAENLLSVV  190 (264)
Q Consensus       117 l~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~------~~~~~~g~~~~~l~~~~~~~~ee~~~~i  190 (264)
                      +.+|.++.|+||+|+||||++..++..+...|.+|.+++.|.....      .+++.+|++.     ....++.++...+
T Consensus       203 ~~~~~ii~lvGptGvGKTTt~akLA~~l~~~g~~V~lItaDtyR~gAveQLk~yae~lgvpv-----~~~~dp~dL~~al  277 (407)
T PRK12726        203 LSNHRIISLIGQTGVGKTTTLVKLGWQLLKQNRTVGFITTDTFRSGAVEQFQGYADKLDVEL-----IVATSPAELEEAV  277 (407)
T ss_pred             ecCCeEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEeCCccCccHHHHHHHHhhcCCCCE-----EecCCHHHHHHHH
Confidence            5679999999999999999999999988888999999998865431      2344445432     1234567776666


Q ss_pred             HHHhhcCCccEEEEcCccccc
Q 024705          191 DTLTKSGSIDVIVVDSVAALI  211 (264)
Q Consensus       191 ~~~~~~~~~~~vvIDsl~~~~  211 (264)
                      ..+....+.++|+||......
T Consensus       278 ~~l~~~~~~D~VLIDTAGr~~  298 (407)
T PRK12726        278 QYMTYVNCVDHILIDTVGRNY  298 (407)
T ss_pred             HHHHhcCCCCEEEEECCCCCc
Confidence            665433578999999887654

>TIGR03797 NHPM_micro_ABC2 NHPM bacteriocin system ABC transporter, ATP-binding protein

Probab=98.51  E-value=3.3e-07  Score=90.02  Aligned_cols=63  Identities=25%  Similarity=0.319  Sum_probs=46.2

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCC-CC-HHHHHHcCCCccceeEe
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENA-LD-PSLAEAMGIDAENLLIA  178 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~-~~-~~~~~~~g~~~~~l~~~  178 (264)
                      -+++|+.+.|.|++|||||||+..++....+..|.+.+-+.+.. .+ ..+.+.+|+.+|+..++
T Consensus       475 ~i~~Ge~vaIvG~sGsGKSTLlklL~gl~~p~~G~I~idg~~i~~~~~~~lr~~i~~v~Q~~~lf  539 (686)
T TIGR03797       475 QIEPGEFVAIVGPSGSGKSTLLRLLLGFETPESGSVFYDGQDLAGLDVQAVRRQLGVVLQNGRLM  539 (686)
T ss_pred             EECCCCEEEEECCCCCCHHHHHHHHhCCCCCCCCEEEECCEEcCcCCHHHHHhccEEEccCCccC
Confidence            37899999999999999999999988887777776654333322 12 25667788888876554

Members of this protein family are ABC transporter ATP-binding subunits, part of a three-gene putative bacteriocin transport operon. The other subunits include another ATP-binding subunit (TIGR03796), which has an N-terminal propeptide cleavage domain, and an HlyD homolog (TIGR03794). In a number of genomes, a conserved propeptide sequence with a classic Gly-Gly motif

>TIGR03796 NHPM_micro_ABC1 NHPM bacteriocin system ABC transporter, peptidase/ATP-binding protein

Probab=98.50  E-value=2.5e-07  Score=91.24  Aligned_cols=63  Identities=22%  Similarity=0.319  Sum_probs=44.7

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCC-CC-HHHHHHcCCCccceeEe
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENA-LD-PSLAEAMGIDAENLLIA  178 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~-~~-~~~~~~~g~~~~~l~~~  178 (264)
                      -+++|+.+.|.||+|||||||+..++....+..|.+.+-+.+.. .+ ..+.+.+|+.+|+..++
T Consensus       501 ~i~~Ge~vaIvG~sGsGKSTLlklL~gl~~p~~G~I~idg~~i~~~~~~~lr~~i~~v~Q~~~lf  565 (710)
T TIGR03796       501 TLQPGQRVALVGGSGSGKSTIAKLVAGLYQPWSGEILFDGIPREEIPREVLANSVAMVDQDIFLF  565 (710)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhcCCCCCCcEEEECCEeHHHCCHHHHHhheeEEecCChhh
Confidence            37899999999999999999998888877666665544322221 11 24667788887765443

This protein describes an multidomain ABC transporter subunit that is one of three protein families associated with some regularity with a distinctive family of putative bacteriocins. It includes a bacteriocin-processing peptidase domain at the N-terminus. Model TIGR03793 describes a conserved propeptide region for this bacteriocin family, unusual because it shows obvious homology a region of the enzyme nitrile hydratase up to the classic Gly-Gly cleavage motif. This family is therefore predicted to be a subunit of a bacteriocin processing and export system characteristic to this system that we designate NHPM, Nitrile Hydratase Propeptide Microcin.

>COG4136 ABC-type uncharacterized transport system, ATPase component [General function prediction only]

Probab=98.50  E-value=7e-07  Score=70.19  Aligned_cols=60  Identities=23%  Similarity=0.279  Sum_probs=37.9

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcC--CeEEEEe-cCCCCCHHHHHHcCCCccce
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLG--GYCAYLD-VENALDPSLAEAMGIDAENL  175 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g--~~v~~~~-~e~~~~~~~~~~~g~~~~~l  175 (264)
                      -+.+|+++-+.||+|||||||..-++..+...-  ..-++++ .....-+...+.+|+..++-
T Consensus        24 Tia~GeivtlMGPSGcGKSTLls~~~G~La~~F~~~G~~~l~~~~l~~lPa~qRq~GiLFQD~   86 (213)
T COG4136          24 TIAKGEIVTLMGPSGCGKSTLLSWMIGALAGQFSCTGELWLNEQRLDMLPAAQRQIGILFQDA   86 (213)
T ss_pred             EecCCcEEEEECCCCccHHHHHHHHHhhcccCcceeeEEEECCeeccccchhhhheeeeeccc
Confidence            478999999999999999998877777665431  1123333 22222223445577766543

>PRK15177 Vi polysaccharide export ATP-binding protein VexC; Provisional

Probab=98.50  E-value=1.4e-06  Score=73.39  Aligned_cols=37  Identities=22%  Similarity=0.087  Sum_probs=30.6

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEE
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCA  152 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~  152 (264)
                      -+++|+++.|.||||+|||||+..++....+..+.+.
T Consensus         9 ~i~~Ge~~~l~G~NGsGKSTLlk~i~Gl~~~~sG~i~   45 (213)
T PRK15177          9 VMGYHEHIGILAAPGSGKTTLTRLLCGLDAPDEGDFI   45 (213)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhCCccCCCCCEE
Confidence            3789999999999999999999888876655555554

>PRK10636 putative ABC transporter ATP-binding protein; Provisional

Probab=98.50  E-value=1.4e-06  Score=84.94  Aligned_cols=36  Identities=28%  Similarity=0.415  Sum_probs=29.7

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeE
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYC  151 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v  151 (264)
                      .+.+|+.++|.||||||||||+..++....+..|.+
T Consensus        23 ~i~~Ge~v~LvG~NGsGKSTLLkiL~G~~~pd~G~I   58 (638)
T PRK10636         23 TINPGQKVGLVGKNGCGKSTLLALLKNEISADGGSY   58 (638)
T ss_pred             EECCCCEEEEECCCCCCHHHHHHHHhCCCCCCCceE
Confidence            478999999999999999999999888655544444

>TIGR01846 type_I_sec_HlyB type I secretion system ABC transporter, HlyB family

Probab=98.49  E-value=7.4e-07  Score=87.66  Aligned_cols=62  Identities=24%  Similarity=0.293  Sum_probs=43.3

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCC-CC-HHHHHHcCCCccceeE
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENA-LD-PSLAEAMGIDAENLLI  177 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~-~~-~~~~~~~g~~~~~l~~  177 (264)
                      -+++|+.+.|.|++|||||||+..++....+..|.+.+-+.+.. .+ ..+.+.+++.+++..+
T Consensus       479 ~i~~G~~vaivG~sGsGKSTL~~ll~g~~~p~~G~I~idg~~i~~~~~~~~r~~i~~v~q~~~l  542 (694)
T TIGR01846       479 DIKPGEFIGIVGPSGSGKSTLTKLLQRLYTPQHGQVLVDGVDLAIADPAWLRRQMGVVLQENVL  542 (694)
T ss_pred             EECCCCEEEEECCCCCCHHHHHHHHhcCCCCCCceEEECCEehhhCCHHHHHHhCeEEccCCee
Confidence            37899999999999999999998888877666666544332221 11 2455667777765443

Type I protein secretion is a system in some Gram-negative bacteria to export proteins (often proteases) across both inner and outer membranes to the extracellular medium. This is one of three proteins of the type I secretion apparatus. Targeted proteins are not cleaved at the N-terminus, but rather carry signals located toward the extreme C-terminus to direct type I secretion.

>PTZ00265 multidrug resistance protein (mdr1); Provisional

Probab=98.49  E-value=1.1e-06  Score=92.35  Aligned_cols=71  Identities=17%  Similarity=0.232  Sum_probs=47.6

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecC-CC-CCH-HHHHHcCCCccceeEeCCCCHHHHH
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVE-NA-LDP-SLAEAMGIDAENLLIAQPDSAENLL  187 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e-~~-~~~-~~~~~~g~~~~~l~~~~~~~~ee~~  187 (264)
                      -+++|+.+.|.||+|||||||+..++....+..|.+.+-+.. .. ... .+.+.+|+.+|+..++. .++.+.+
T Consensus       407 ~i~~Ge~vaIvG~SGsGKSTLl~lL~gl~~p~~G~I~i~~g~~i~~~~~~~lr~~Ig~V~Q~~~LF~-~TI~eNI  480 (1466)
T PTZ00265        407 TLTEGKTYAFVGESGCGKSTILKLIERLYDPTEGDIIINDSHNLKDINLKWWRSKIGVVSQDPLLFS-NSIKNNI  480 (1466)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHHHhccCCCCeEEEeCCcchhhCCHHHHHHhccEecccccchh-ccHHHHH
Confidence            478999999999999999999888888776666666543322 11 122 34566888877755543 2444333

>PRK10636 putative ABC transporter ATP-binding protein; Provisional

Probab=98.49  E-value=1.2e-06  Score=85.24  Aligned_cols=34  Identities=29%  Similarity=0.474  Sum_probs=28.5

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCC
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGG  149 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~  149 (264)
                      -+.+|+++.|.||||||||||+..++....+..|
T Consensus       334 ~i~~Ge~~~l~G~NGsGKSTLlk~l~G~~~p~~G  367 (638)
T PRK10636        334 NLVPGSRIGLLGRNGAGKSTLIKLLAGELAPVSG  367 (638)
T ss_pred             EECCCCEEEEECCCCCCHHHHHHHHhCCCCCCCC
Confidence            4789999999999999999999998876654333

>PRK08727 hypothetical protein; Validated

Probab=98.49  E-value=2.3e-06  Score=73.06  Aligned_cols=131  Identities=18%  Similarity=0.263  Sum_probs=76.4

Q ss_pred             HHHHhcCCccccccccccCCCCCCccccCcHHHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEe
Q 024705           76 QLANDFGKESMLSLKRFFGSRRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLD  155 (264)
Q Consensus        76 ~l~~~~~~~~~~~~~~~~~~~~~~~i~tG~~~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~  155 (264)
                      |+..+++.....+..++..... ..    ...+-.+.. |.  ....++|+||+|+|||+|+..++..+...|.++.|++
T Consensus         5 Ql~l~~~~~~~~~f~~f~~~~~-n~----~~~~~~~~~-~~--~~~~l~l~G~~G~GKThL~~a~~~~~~~~~~~~~y~~   76 (233)
T PRK08727          5 QLPLALRYPSDQRFDSYIAAPD-GL----LAQLQALAA-GQ--SSDWLYLSGPAGTGKTHLALALCAAAEQAGRSSAYLP   76 (233)
T ss_pred             CccccCCCCCcCChhhccCCcH-HH----HHHHHHHHh-cc--CCCeEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEEe
Confidence            5555666555555555542211 11    111222222 22  3456999999999999999999999888888999998


Q ss_pred             cCCCCCHHHHHHcCCCccceeEeCCCCHHHHHHHHHHHhhcCCccEEEEcCccccccccccCCCcCCCCcHHHHHHHHHH
Q 024705          156 VENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQA  235 (264)
Q Consensus       156 ~e~~~~~~~~~~~g~~~~~l~~~~~~~~ee~~~~i~~~~~~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r~i~~~  235 (264)
                      .+...                       ..+...+..+   .++++++||.+..+....            ....    .
T Consensus        77 ~~~~~-----------------------~~~~~~~~~l---~~~dlLiIDDi~~l~~~~------------~~~~----~  114 (233)
T PRK08727         77 LQAAA-----------------------GRLRDALEAL---EGRSLVALDGLESIAGQR------------EDEV----A  114 (233)
T ss_pred             HHHhh-----------------------hhHHHHHHHH---hcCCEEEEeCcccccCCh------------HHHH----H
Confidence            53211                       1111222222   467899999987665210            1112    2


Q ss_pred             HHHHHHHHhccCcEEEEEccc
Q 024705          236 LRKIHYSLCQSHTLIIFLNQV  256 (264)
Q Consensus       236 L~~l~~~l~~~g~tVi~i~h~  256 (264)
                      +..+....++.+..||++++.
T Consensus       115 lf~l~n~~~~~~~~vI~ts~~  135 (233)
T PRK08727        115 LFDFHNRARAAGITLLYTARQ  135 (233)
T ss_pred             HHHHHHHHHHcCCeEEEECCC
Confidence            233444446667888887763

>PRK12724 flagellar biosynthesis regulator FlhF; Provisional

Probab=98.49  E-value=2.6e-06  Score=78.04  Aligned_cols=84  Identities=18%  Similarity=0.253  Sum_probs=56.4

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHH-hhcCCeEEEEecCCCCCH------HHHHHcCCCccceeEeCCCCHHHHHH
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEA-QKLGGYCAYLDVENALDP------SLAEAMGIDAENLLIAQPDSAENLLS  188 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~-~~~g~~v~~~~~e~~~~~------~~~~~~g~~~~~l~~~~~~~~ee~~~  188 (264)
                      |..++.+++++||+|+||||++.+++... ...|.+|.+++.|.....      .+++.+|++...     .....++..
T Consensus       219 g~~~~~vi~lvGptGvGKTTtaaKLA~~~~~~~G~~V~Lit~Dt~R~aA~eQLk~yAe~lgvp~~~-----~~~~~~l~~  293 (432)
T PRK12724        219 GKNQRKVVFFVGPTGSGKTTSIAKLAAKYFLHMGKSVSLYTTDNYRIAAIEQLKRYADTMGMPFYP-----VKDIKKFKE  293 (432)
T ss_pred             ccCCCeEEEEECCCCCCHHHHHHHHHHHHHHhcCCeEEEecccchhhhHHHHHHHHHHhcCCCeee-----hHHHHHHHH
Confidence            34567899999999999999999999866 567889999998873322      234555654311     111222222


Q ss_pred             HHHHHhhcCCccEEEEcCcc
Q 024705          189 VVDTLTKSGSIDVIVVDSVA  208 (264)
Q Consensus       189 ~i~~~~~~~~~~~vvIDsl~  208 (264)
                      .    +...+.++|+||+..
T Consensus       294 ~----l~~~~~D~VLIDTaG  309 (432)
T PRK12724        294 T----LARDGSELILIDTAG  309 (432)
T ss_pred             H----HHhCCCCEEEEeCCC
Confidence            2    234688999999843

>PRK08903 DnaA regulatory inactivator Hda; Validated

Probab=98.48  E-value=1.7e-06  Score=73.40  Aligned_cols=76  Identities=22%  Similarity=0.385  Sum_probs=51.1

Q ss_pred             HHHHhcCCccccccccccCCCCCCccccCcHHHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEe
Q 024705           76 QLANDFGKESMLSLKRFFGSRRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLD  155 (264)
Q Consensus        76 ~l~~~~~~~~~~~~~~~~~~~~~~~i~tG~~~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~  155 (264)
                      |+..++...+..++.++....+...+    ..+..+..  |...+..++|+||+|+|||+|+..++..+...+..+.|++
T Consensus         4 ql~~~~~~~~~~~~d~f~~~~~~~~~----~~l~~~~~--~~~~~~~~~l~G~~G~GKT~La~ai~~~~~~~~~~~~~i~   77 (227)
T PRK08903          4 QLTLDLGPPPPPTFDNFVAGENAELV----ARLRELAA--GPVADRFFYLWGEAGSGRSHLLQALVADASYGGRNARYLD   77 (227)
T ss_pred             ccccCCCCCChhhhcccccCCcHHHH----HHHHHHHh--ccCCCCeEEEECCCCCCHHHHHHHHHHHHHhCCCcEEEEe
Confidence            55556666655555554422222211    22344433  3466788999999999999999999998878888899988


Q ss_pred             cC
Q 024705          156 VE  157 (264)
Q Consensus       156 ~e  157 (264)
                      ..
T Consensus        78 ~~   79 (227)
T PRK08903         78 AA   79 (227)
T ss_pred             hH
Confidence            53

>cd03115 SRP The signal recognition particle (SRP) mediates the transport to or across the plasma membrane in bacteria and the endoplasmic reticulum in eukaryotes

Probab=98.48  E-value=4.7e-06  Score=67.55  Aligned_cols=87  Identities=17%  Similarity=0.224  Sum_probs=56.1

Q ss_pred             EEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCHH--H----HHHcCCCccceeEeCCCCHHHHHHHHHHHhh
Q 024705          122 IVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPS--L----AEAMGIDAENLLIAQPDSAENLLSVVDTLTK  195 (264)
Q Consensus       122 ~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~~--~----~~~~g~~~~~l~~~~~~~~ee~~~~i~~~~~  195 (264)
                      ++++.|++|+||||++..++..+...|.++++++.+......  .    ++..|++..  ....+.++.++.........
T Consensus         2 ~~~~~G~~G~GKTt~~~~la~~~~~~g~~v~~i~~D~~~~~~~~~l~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~   79 (173)
T cd03115           2 VILLVGLQGVGKTTTAAKLALYLKKKGKKVLLVAADTYRPAAIEQLRVLGEQVGVPVF--EEGEGKDPVSIAKRAIEHAR   79 (173)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCChHHHHHHHHhcccCCeEEE--ecCCCCCHHHHHHHHHHHHH
Confidence            678999999999999999999988888999999988643321  1    222232211  11122344444432222233


Q ss_pred             cCCccEEEEcCcccc
Q 024705          196 SGSIDVIVVDSVAAL  210 (264)
Q Consensus       196 ~~~~~~vvIDsl~~~  210 (264)
                      ..+.++++||.....
T Consensus        80 ~~~~d~viiDt~g~~   94 (173)
T cd03115          80 EENFDVVIVDTAGRL   94 (173)
T ss_pred             hCCCCEEEEECcccc
Confidence            467889999987654

SRP recognizes N-terminal sighnal sequences of newly synthesized polypeptides at the ribosome. The SRP-polypeptide complex is then targeted to the membrane by an interaction between SRP and its cognated receptor (SR). In mammals, SRP consists of six protein subunits and a 7SL RNA. One of these subunits is a 54 kd protein (SRP54), which is a GTP-binding protein that interacts with the signal sequence when it emerges from the ribosome. SRP54 is a multidomain protein that consists of an N-terminal domain, followed by a central G (GTPase) domain and a C-terminal M domain.

>TIGR02203 MsbA_lipidA lipid A export permease/ATP-binding protein MsbA

Probab=98.48  E-value=9e-07  Score=85.02  Aligned_cols=60  Identities=22%  Similarity=0.253  Sum_probs=42.0

Q ss_pred             CCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCC--CCHHHHHHcCCCcccee
Q 024705          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENA--LDPSLAEAMGIDAENLL  176 (264)
Q Consensus       117 l~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~--~~~~~~~~~g~~~~~l~  176 (264)
                      +++|+.+.|.|++|+|||||+..++....+..|.+.+-+.+..  ....+.+.+++.+|+..
T Consensus       355 i~~G~~v~IvG~sGsGKSTLl~lL~gl~~~~~G~I~i~g~~i~~~~~~~~~~~i~~v~Q~~~  416 (571)
T TIGR02203       355 IEPGETVALVGRSGSGKSTLVNLIPRFYEPDSGQILLDGHDLADYTLASLRRQVALVSQDVV  416 (571)
T ss_pred             ecCCCEEEEECCCCCCHHHHHHHHHhccCCCCCeEEECCEeHHhcCHHHHHhhceEEccCcc
Confidence            6799999999999999999999988877766666654332221  11234556676666543

This family consists of a single polypeptide chain transporter in the ATP-binding cassette (ABC) transporter family, MsbA, which exports lipid A. It may also act in multidrug resistance. Lipid A, a part of lipopolysaccharide, is found in the outer leaflet of the outer membrane of most Gram-negative bacteria. Members of this family are restricted to the Proteobacteria (although lipid A is more broadly distributed) and often are clustered with lipid A biosynthesis genes.

>PRK10416 signal recognition particle-docking protein FtsY; Provisional

Probab=98.48  E-value=5.6e-06  Score=73.86  Aligned_cols=92  Identities=18%  Similarity=0.223  Sum_probs=60.2

Q ss_pred             CCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCC----H--HHHHHcCCCccceeEeCCCCHHHHHHHHH
Q 024705          118 PKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALD----P--SLAEAMGIDAENLLIAQPDSAENLLSVVD  191 (264)
Q Consensus       118 ~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~----~--~~~~~~g~~~~~l~~~~~~~~ee~~~~i~  191 (264)
                      .+|.++.++||||+||||++..++..+...|++|++++.+....    +  .++.+.+++.-... ...++.....+.+.
T Consensus       112 ~~~~vi~lvGpnGsGKTTt~~kLA~~l~~~g~~V~Li~~D~~r~~a~eql~~~a~~~~i~~~~~~-~~~dpa~~v~~~l~  190 (318)
T PRK10416        112 KKPFVILVVGVNGVGKTTTIGKLAHKYKAQGKKVLLAAGDTFRAAAIEQLQVWGERVGVPVIAQK-EGADPASVAFDAIQ  190 (318)
T ss_pred             CCCeEEEEECCCCCcHHHHHHHHHHHHHhcCCeEEEEecCccchhhHHHHHHHHHHcCceEEEeC-CCCCHHHHHHHHHH
Confidence            46899999999999999999999999988899999998875322    1  24455554321100 11122222222232


Q ss_pred             HHhhcCCccEEEEcCccccc
Q 024705          192 TLTKSGSIDVIVVDSVAALI  211 (264)
Q Consensus       192 ~~~~~~~~~~vvIDsl~~~~  211 (264)
                      .. ...+.++|+||+.....
T Consensus       191 ~~-~~~~~D~ViIDTaGr~~  209 (318)
T PRK10416        191 AA-KARGIDVLIIDTAGRLH  209 (318)
T ss_pred             HH-HhCCCCEEEEeCCCCCc
Confidence            22 23678999999887654

>COG4148 ModC ABC-type molybdate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=98.48  E-value=8.6e-08  Score=82.31  Aligned_cols=138  Identities=18%  Similarity=0.289  Sum_probs=81.5

Q ss_pred             CcHHHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEE-----EEecCCCCC-HHHHHHcCCCccceeE
Q 024705          104 GSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCA-----YLDVENALD-PSLAEAMGIDAENLLI  177 (264)
Q Consensus       104 G~~~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~-----~~~~e~~~~-~~~~~~~g~~~~~l~~  177 (264)
                      |--+||.-+.   ++...++.|.|++|+||||+...++....+..+.+.     ++|.+.... +.-.+++|+..|+-.+
T Consensus        11 G~~~l~a~~~---~p~~GvTAlFG~SGsGKTslin~IaGL~rPdeG~I~lngr~L~Ds~k~i~lp~~~RriGYVFQDARL   87 (352)
T COG4148          11 GNFALDANFT---LPARGITALFGPSGSGKTSLINMIAGLTRPDEGRIELNGRVLVDAEKGIFLPPEKRRIGYVFQDARL   87 (352)
T ss_pred             CceEEEEecc---CCCCceEEEecCCCCChhhHHHHHhccCCccccEEEECCEEeecccCCcccChhhheeeeEeecccc
Confidence            3344454442   444489999999999999976666665544443332     333333322 2446678988875443


Q ss_pred             eCCCC-------------H---HHHHHH------------------------HHHHhhcCCccEEEEcCccccccccccC
Q 024705          178 AQPDS-------------A---ENLLSV------------------------VDTLTKSGSIDVIVVDSVAALIPKCEIG  217 (264)
Q Consensus       178 ~~~~~-------------~---ee~~~~------------------------i~~~~~~~~~~~vvIDsl~~~~~~~~~~  217 (264)
                      ++..+             .   +++...                        -+.+.  ..|+++..|..-+-.      
T Consensus        88 FpH~tVrgNL~YG~~~~~~~~fd~iv~lLGI~hLL~R~P~~LSGGEkQRVAIGRALL--t~P~LLLmDEPLaSL------  159 (352)
T COG4148          88 FPHYTVRGNLRYGMWKSMRAQFDQLVALLGIEHLLDRYPGTLSGGEKQRVAIGRALL--TAPELLLMDEPLASL------  159 (352)
T ss_pred             ccceEEecchhhhhcccchHhHHHHHHHhCcHHHHhhCCCccCcchhhHHHHHHHHh--cCCCeeeecCchhhc------
Confidence            33221             1   111111                        11111  356777777544333      


Q ss_pred             CCcCCCCcHHHHHHHHHHHHHHHHHHhccCcEEEEEcccchHhhh
Q 024705          218 VPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVKVLLLK  262 (264)
Q Consensus       218 ~~~~~~~~~~q~r~i~~~L~~l~~~l~~~g~tVi~i~h~~~~~~~  262 (264)
                             +....+++...|.+|.   ++.+++|+.+||-..++..
T Consensus       160 -------D~~RK~EilpylERL~---~e~~IPIlYVSHS~~Ev~R  194 (352)
T COG4148         160 -------DLPRKREILPYLERLR---DEINIPILYVSHSLDEVLR  194 (352)
T ss_pred             -------ccchhhHHHHHHHHHH---HhcCCCEEEEecCHHHHHh
Confidence                   2234456777888887   8999999999999888754

>TIGR03719 ABC_ABC_ChvD ATP-binding cassette protein, ChvD family

Probab=98.47  E-value=3.6e-07  Score=87.58  Aligned_cols=36  Identities=19%  Similarity=0.311  Sum_probs=29.4

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeE
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYC  151 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v  151 (264)
                      -+++|+++.|.||||||||||+..++....+..|.+
T Consensus        27 ~i~~Ge~~~liG~NGsGKSTLl~~i~G~~~p~~G~i   62 (552)
T TIGR03719        27 SFFPGAKIGVLGLNGAGKSTLLRIMAGVDKEFNGEA   62 (552)
T ss_pred             EECCCCEEEEECCCCCCHHHHHHHHhCCCCCCCceE
Confidence            478999999999999999999998887655444433

Members of this protein family have two copies of the ABC transporter ATP-binding cassette, but are found outside the common ABC transporter operon structure that features integral membrane permease proteins and substrate-binding proteins encoded next to the ATP-binding cassette (ABC domain) protein. The member protein ChvD from Agrobacterium tumefaciens was identified as both a candidate to interact with VirB8, based on yeast two-hybrid analysis, and as an apparent regulator of VirG. The general function of this protein family is unknown.

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

Probab=98.47  E-value=1.2e-06  Score=80.49  Aligned_cols=126  Identities=18%  Similarity=0.181  Sum_probs=70.5

Q ss_pred             CCCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCHHHHHHcCCCccceeEeCCCCHHHHHHHHHHHh
Q 024705          115 GGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLT  194 (264)
Q Consensus       115 gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~~~~~~~g~~~~~l~~~~~~~~ee~~~~i~~~~  194 (264)
                      -|++++.-++|+||||+|||+++..++...   +...+.+...    ......+|-            .+..+..+-...
T Consensus       174 ~Gl~~pkgvLL~GppGTGKT~LAkalA~~l---~~~fi~i~~s----~l~~k~~ge------------~~~~lr~lf~~A  234 (398)
T PTZ00454        174 IGIDPPRGVLLYGPPGTGKTMLAKAVAHHT---TATFIRVVGS----EFVQKYLGE------------GPRMVRDVFRLA  234 (398)
T ss_pred             cCCCCCceEEEECCCCCCHHHHHHHHHHhc---CCCEEEEehH----HHHHHhcch------------hHHHHHHHHHHH
Confidence            478888899999999999999999988754   2222222210    111111111            111122222223


Q ss_pred             hcCCccEEEEcCccccccccccCCCcCCCCcHHHHHHHHHHHHHHHHHHhccCcEEEEEcccchHhhh
Q 024705          195 KSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVKVLLLK  262 (264)
Q Consensus       195 ~~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r~i~~~L~~l~~~l~~~g~tVi~i~h~~~~~~~  262 (264)
                      ....+.+++||.+..+... ..+..  ...+...++.+...+..+...-...++.||+++|.-+.++.
T Consensus       235 ~~~~P~ILfIDEID~i~~~-r~~~~--~~~d~~~~r~l~~LL~~ld~~~~~~~v~VI~aTN~~d~LDp  299 (398)
T PTZ00454        235 RENAPSIIFIDEVDSIATK-RFDAQ--TGADREVQRILLELLNQMDGFDQTTNVKVIMATNRADTLDP  299 (398)
T ss_pred             HhcCCeEEEEECHhhhccc-ccccc--CCccHHHHHHHHHHHHHhhccCCCCCEEEEEecCCchhCCH
Confidence            3467899999999988742 21111  11122333445555555543323457889998886666543

>PRK10535 macrolide transporter ATP-binding /permease protein; Provisional

Probab=98.47  E-value=1e-06  Score=86.01  Aligned_cols=63  Identities=21%  Similarity=0.231  Sum_probs=41.7

Q ss_pred             CCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCC--H-HH----HHHcCCCccceeEeCC
Q 024705          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALD--P-SL----AEAMGIDAENLLIAQP  180 (264)
Q Consensus       117 l~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~--~-~~----~~~~g~~~~~l~~~~~  180 (264)
                      +++|+++.|.||||+|||||+..++....+..+.+. ++.+....  . .+    .+.+++.+++..+++.
T Consensus        31 i~~Ge~~~l~G~nGsGKSTLl~~i~Gl~~~~~G~i~-~~g~~i~~~~~~~~~~~~~~~i~~v~q~~~l~~~  100 (648)
T PRK10535         31 IYAGEMVAIVGASGSGKSTLMNILGCLDKPTSGTYR-VAGQDVATLDADALAQLRREHFGFIFQRYHLLSH  100 (648)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhcCCCCCCeEEE-ECCEEcCcCCHHHHHHHHhccEEEEeCCcccCCC
Confidence            779999999999999999999998887655555554 44332211  1 22    2346666665544433

>COG4988 CydD ABC-type transport system involved in cytochrome bd biosynthesis, ATPase and permease components [Energy production and conversion / Posttranslational modification, protein turnover, chaperones]

Probab=98.46  E-value=1.2e-06  Score=81.98  Aligned_cols=63  Identities=13%  Similarity=0.155  Sum_probs=44.4

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCC--CCHHHHHHcCCCccceeEe
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENA--LDPSLAEAMGIDAENLLIA  178 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~--~~~~~~~~~g~~~~~l~~~  178 (264)
                      -+++|+.+.|+|++||||||++..++.-..+..+.+.+-+.+..  ....+.+.+.+.+++.+++
T Consensus       343 t~~~g~~talvG~SGaGKSTLl~lL~G~~~~~~G~I~vng~~l~~l~~~~~~k~i~~v~Q~p~lf  407 (559)
T COG4988         343 TIKAGQLTALVGASGAGKSTLLNLLLGFLAPTQGEIRVNGIDLRDLSPEAWRKQISWVSQNPYLF  407 (559)
T ss_pred             EecCCcEEEEECCCCCCHHHHHHHHhCcCCCCCceEEECCccccccCHHHHHhHeeeeCCCCccc
Confidence            37899999999999999999888887776655555555443322  2235677777777665444

>COG0396 sufC Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=98.46  E-value=7.6e-07  Score=74.53  Aligned_cols=27  Identities=33%  Similarity=0.598  Sum_probs=25.0

Q ss_pred             CCCCcEEEEEecCCCChHHHHHHHHHH
Q 024705          117 LPKGRIVEIYGREASGKTTLALHVIKE  143 (264)
Q Consensus       117 l~~G~~~~I~G~~GsGKTtl~~~l~~~  143 (264)
                      +.+|+++.|.||||||||||+..++..
T Consensus        27 v~~GEvhaiMGPNGsGKSTLa~~i~G~   53 (251)
T COG0396          27 VKEGEVHAIMGPNGSGKSTLAYTIMGH   53 (251)
T ss_pred             EcCCcEEEEECCCCCCHHHHHHHHhCC
Confidence            679999999999999999999998874

>cd03227 ABC_Class2 ABC-type Class 2 contains systems involved in cellular processes other than transport

Probab=98.46  E-value=2.3e-06  Score=68.81  Aligned_cols=116  Identities=14%  Similarity=0.144  Sum_probs=65.5

Q ss_pred             CCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCHHHHHHcCC--Cccce---e-EeC-CCCHHHHHHHHH
Q 024705          119 KGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGI--DAENL---L-IAQ-PDSAENLLSVVD  191 (264)
Q Consensus       119 ~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~~~~~~~g~--~~~~l---~-~~~-~~~~ee~~~~i~  191 (264)
                      .+.+++|+||||+|||+++..+.........+...-+ +.        ..|.  ....+   . ... .....+.....+
T Consensus        20 ~~~~~~i~G~NgsGKS~~l~~i~~~~~~~~~~~~~~~-~~--------~~g~~~~~~~~~~i~~~~~lS~G~~~~~~la~   90 (162)
T cd03227          20 EGSLTIITGPNGSGKSTILDAIGLALGGAQSATRRRS-GV--------KAGCIVAAVSAELIFTRLQLSGGEKELSALAL   90 (162)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHHHhcchhhhccC-cc--------cCCCcceeeEEEEehheeeccccHHHHHHHHH
Confidence            3479999999999999999998776665432222200 00        0111  00010   0 001 111234444444


Q ss_pred             HHhhc--CCccEEEEcCccccccccccCCCcCCCCcHHHHHHHHHHHHHHHHHHhccCcEEEEEcccchHh
Q 024705          192 TLTKS--GSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVKVLL  260 (264)
Q Consensus       192 ~~~~~--~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r~i~~~L~~l~~~l~~~g~tVi~i~h~~~~~  260 (264)
                      .+...  .+++++++|++..-...             .....+...+.+..   ++ ++++|+++|..+..
T Consensus        91 ~L~~~~~~~~~llllDEp~~gld~-------------~~~~~l~~~l~~~~---~~-~~~vii~TH~~~~~  144 (162)
T cd03227          91 ILALASLKPRPLYILDEIDRGLDP-------------RDGQALAEAILEHL---VK-GAQVIVITHLPELA  144 (162)
T ss_pred             HHHhcCCCCCCEEEEeCCCCCCCH-------------HHHHHHHHHHHHHH---hc-CCEEEEEcCCHHHH
Confidence            44332  37899999988766531             22333445555543   55 89999999987654

These families are characterised by the fact that the ABC subunit is made up of duplicated, fused ABC modules (ABC2). No known transmembrane proteins or domains are associated with these proteins.

>PRK11147 ABC transporter ATPase component; Reviewed

Probab=98.45  E-value=1.8e-07  Score=90.95  Aligned_cols=36  Identities=25%  Similarity=0.369  Sum_probs=29.2

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeE
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYC  151 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v  151 (264)
                      -+.+|+++.|.||||||||||+..++....+..|.+
T Consensus       341 ~i~~Ge~~~l~G~NGsGKSTLlk~l~G~~~p~~G~i  376 (635)
T PRK11147        341 QVQRGDKIALIGPNGCGKTTLLKLMLGQLQADSGRI  376 (635)
T ss_pred             EEcCCCEEEEECCCCCcHHHHHHHHhCCCCCCCcEE
Confidence            378999999999999999999988887654444443

>PRK11819 putative ABC transporter ATP-binding protein; Reviewed

Probab=98.45  E-value=2.2e-07  Score=89.03  Aligned_cols=36  Identities=36%  Similarity=0.479  Sum_probs=29.5

Q ss_pred             CCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEE
Q 024705          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCA  152 (264)
Q Consensus       117 l~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~  152 (264)
                      +.+|+++.|.||||||||||+..++....+..|.+.
T Consensus       347 i~~Ge~~~l~G~NGsGKSTLl~~i~G~~~p~~G~i~  382 (556)
T PRK11819        347 LPPGGIVGIIGPNGAGKSTLFKMITGQEQPDSGTIK  382 (556)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhCCCCCCCeEEE
Confidence            789999999999999999999988876544455443

>PRK14257 phosphate ABC transporter ATP-binding protein; Provisional

Probab=98.44  E-value=1.5e-06  Score=78.06  Aligned_cols=30  Identities=13%  Similarity=0.334  Sum_probs=26.5

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHh
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQ  145 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~  145 (264)
                      -+++|++++|.||+|||||||+..++....
T Consensus       104 ~I~~Ge~v~IvG~~GsGKSTLl~~L~g~~~  133 (329)
T PRK14257        104 DIKRNKVTAFIGPSGCGKSTFLRNLNQLND  133 (329)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhcccc
Confidence            478999999999999999999998887653

>TIGR00955 3a01204 The Eye Pigment Precursor Transporter (EPP) Family protein

Probab=98.44  E-value=2.6e-07  Score=89.57  Aligned_cols=74  Identities=18%  Similarity=0.154  Sum_probs=49.1

Q ss_pred             CCCCCCcEEEEEecCCCChHHHHHHHHHHHhhc--CCeEEEEecCCCCCHHHHHHcCCCccceeEeCCCCHHHHHH
Q 024705          115 GGLPKGRIVEIYGREASGKTTLALHVIKEAQKL--GGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLS  188 (264)
Q Consensus       115 gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~--g~~v~~~~~e~~~~~~~~~~~g~~~~~l~~~~~~~~ee~~~  188 (264)
                      +-+++|++++|.||||+|||||+..++......  ..+-++++..........+.+|+.+|+..+....++.|.+.
T Consensus        46 ~~i~~Ge~~aI~G~sGsGKSTLL~~L~g~~~~~~~~~G~i~~~g~~~~~~~~~~~i~yv~Q~~~~~~~lTV~e~l~  121 (617)
T TIGR00955        46 GVAKPGELLAVMGSSGAGKTTLMNALAFRSPKGVKGSGSVLLNGMPIDAKEMRAISAYVQQDDLFIPTLTVREHLM  121 (617)
T ss_pred             EEEeCCeEEEEECCCCCCHHHHHHHHhCCCCCCCcceeEEEECCEECCHHHHhhhceeeccccccCccCcHHHHHH
Confidence            478999999999999999999998888755332  12334555443222344556788777665555555555443

>PRK12377 putative replication protein; Provisional

Probab=98.44  E-value=1.8e-06  Score=74.27  Aligned_cols=75  Identities=20%  Similarity=0.284  Sum_probs=50.6

Q ss_pred             cEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCHHHHHHcCCCccceeEeCCCCHHHHHHHHHHHhhcCCcc
Q 024705          121 RIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTKSGSID  200 (264)
Q Consensus       121 ~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~~~~~~~g~~~~~l~~~~~~~~ee~~~~i~~~~~~~~~~  200 (264)
                      ..++|+||||+|||+|+..++..+...|..|+|++..+-..... ...  +       ...+..+   .++.+   ..++
T Consensus       102 ~~l~l~G~~GtGKThLa~AIa~~l~~~g~~v~~i~~~~l~~~l~-~~~--~-------~~~~~~~---~l~~l---~~~d  165 (248)
T PRK12377        102 TNFVFSGKPGTGKNHLAAAIGNRLLAKGRSVIVVTVPDVMSRLH-ESY--D-------NGQSGEK---FLQEL---CKVD  165 (248)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHHHHcCCCeEEEEHHHHHHHHH-HHH--h-------ccchHHH---HHHHh---cCCC
Confidence            56899999999999999999999998898999988643222111 110  0       0111122   23332   5899


Q ss_pred             EEEEcCccccc
Q 024705          201 VIVVDSVAALI  211 (264)
Q Consensus       201 ~vvIDsl~~~~  211 (264)
                      ++|||.+....
T Consensus       166 LLiIDDlg~~~  176 (248)
T PRK12377        166 LLVLDEIGIQR  176 (248)
T ss_pred             EEEEcCCCCCC
Confidence            99999997654

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

Probab=98.44  E-value=1.8e-06  Score=79.92  Aligned_cols=125  Identities=18%  Similarity=0.183  Sum_probs=70.6

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCHHHHHHcCCCccceeEeCCCCHHHHHHHHHHHhh
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTK  195 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~~~~~~~g~~~~~l~~~~~~~~ee~~~~i~~~~~  195 (264)
                      |+.++.-++|+||||+|||+++..++....   ...+.+....    .....+|           . ....+..+-....
T Consensus       213 gi~~p~gVLL~GPPGTGKT~LAraIA~el~---~~fi~V~~se----L~~k~~G-----------e-~~~~vr~lF~~A~  273 (438)
T PTZ00361        213 GIKPPKGVILYGPPGTGKTLLAKAVANETS---ATFLRVVGSE----LIQKYLG-----------D-GPKLVRELFRVAE  273 (438)
T ss_pred             CCCCCcEEEEECCCCCCHHHHHHHHHHhhC---CCEEEEecch----hhhhhcc-----------h-HHHHHHHHHHHHH
Confidence            677888899999999999999999988653   2222222111    0000011           0 1112222222233


Q ss_pred             cCCccEEEEcCccccccccccCCCcCCCCcHHHHHHHHHHHHHHHHHHhccCcEEEEEcccchHhhh
Q 024705          196 SGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVKVLLLK  262 (264)
Q Consensus       196 ~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r~i~~~L~~l~~~l~~~g~tVi~i~h~~~~~~~  262 (264)
                      ...+.+++||.+..+..... ....  ......++.+...|..+.......++.||+++|..+.++.
T Consensus       274 ~~~P~ILfIDEID~l~~kR~-~~~s--gg~~e~qr~ll~LL~~Ldg~~~~~~V~VI~ATNr~d~LDp  337 (438)
T PTZ00361        274 ENAPSIVFIDEIDAIGTKRY-DATS--GGEKEIQRTMLELLNQLDGFDSRGDVKVIMATNRIESLDP  337 (438)
T ss_pred             hCCCcEEeHHHHHHHhccCC-CCCC--cccHHHHHHHHHHHHHHhhhcccCCeEEEEecCChHHhhH
Confidence            45788999999998874211 1111  1111234445556666544434568899999987666653

>PLN03073 ABC transporter F family; Provisional

Probab=98.44  E-value=1.7e-06  Score=85.01  Aligned_cols=41  Identities=27%  Similarity=0.259  Sum_probs=33.8

Q ss_pred             CCCCcEEEEEecCCCChHHHHHHHHHHH---hhcCCeEEEEecC
Q 024705          117 LPKGRIVEIYGREASGKTTLALHVIKEA---QKLGGYCAYLDVE  157 (264)
Q Consensus       117 l~~G~~~~I~G~~GsGKTtl~~~l~~~~---~~~g~~v~~~~~e  157 (264)
                      +.+|+.++|+||||||||||+..++...   .+.++.+.|+..+
T Consensus       200 i~~Ge~~gLvG~NGsGKSTLLr~l~g~~~~g~p~~g~I~~~~Q~  243 (718)
T PLN03073        200 LAFGRHYGLVGRNGTGKTTFLRYMAMHAIDGIPKNCQILHVEQE  243 (718)
T ss_pred             ECCCCEEEEECCCCCCHHHHHHHHcCCCCCCCCCCCEEEEEecc
Confidence            7899999999999999999999887532   3456788887654

>PRK15064 ABC transporter ATP-binding protein; Provisional

Probab=98.43  E-value=2.6e-07  Score=88.09  Aligned_cols=35  Identities=31%  Similarity=0.417  Sum_probs=28.6

Q ss_pred             CCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeE
Q 024705          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYC  151 (264)
Q Consensus       117 l~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v  151 (264)
                      +++|+++.|.||||||||||+..++....+..+.+
T Consensus       342 i~~Ge~~~l~G~NGsGKSTLl~~i~G~~~p~~G~i  376 (530)
T PRK15064        342 LEAGERLAIIGENGVGKTTLLRTLVGELEPDSGTV  376 (530)
T ss_pred             ECCCCEEEEECCCCCCHHHHHHHHhCCCCCCCeEE
Confidence            67999999999999999999998887654444443

>TIGR00064 ftsY signal recognition particle-docking protein FtsY

Probab=98.43  E-value=8.4e-06  Score=71.20  Aligned_cols=91  Identities=19%  Similarity=0.278  Sum_probs=59.8

Q ss_pred             CCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCH------HHHHHcCCCccceeEeCCCCHHHH-HHHH
Q 024705          118 PKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP------SLAEAMGIDAENLLIAQPDSAENL-LSVV  190 (264)
Q Consensus       118 ~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~------~~~~~~g~~~~~l~~~~~~~~ee~-~~~i  190 (264)
                      .++.++.++||+|+||||++.+++..+...|.+|++++.|.....      .++++.|++.-  ......++.+. ...+
T Consensus        70 ~~~~vi~l~G~~G~GKTTt~akLA~~l~~~g~~V~li~~D~~r~~a~~ql~~~~~~~~i~~~--~~~~~~dp~~~~~~~l  147 (272)
T TIGR00064        70 NKPNVILFVGVNGVGKTTTIAKLANKLKKQGKSVLLAAGDTFRAAAIEQLEEWAKRLGVDVI--KQKEGADPAAVAFDAI  147 (272)
T ss_pred             CCCeEEEEECCCCCcHHHHHHHHHHHHHhcCCEEEEEeCCCCCHHHHHHHHHHHHhCCeEEE--eCCCCCCHHHHHHHHH
Confidence            346789999999999999999999999888899999998853221      24555563311  00111222222 2333


Q ss_pred             HHHhhcCCccEEEEcCccccc
Q 024705          191 DTLTKSGSIDVIVVDSVAALI  211 (264)
Q Consensus       191 ~~~~~~~~~~~vvIDsl~~~~  211 (264)
                      ... ...+.++|+||+.....
T Consensus       148 ~~~-~~~~~D~ViIDT~G~~~  167 (272)
T TIGR00064       148 QKA-KARNIDVVLIDTAGRLQ  167 (272)
T ss_pred             HHH-HHCCCCEEEEeCCCCCc
Confidence            332 23678999999877654

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.

>PRK11819 putative ABC transporter ATP-binding protein; Reviewed

Probab=98.43  E-value=2.5e-06  Score=81.86  Aligned_cols=35  Identities=20%  Similarity=0.303  Sum_probs=28.9

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCe
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGY  150 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~  150 (264)
                      -+++|+++.|.||||||||||+..++....+..|.
T Consensus        29 ~i~~Ge~~~iiG~NGsGKSTLlk~i~G~~~p~~G~   63 (556)
T PRK11819         29 SFFPGAKIGVLGLNGAGKSTLLRIMAGVDKEFEGE   63 (556)
T ss_pred             EECCCCEEEEECCCCCCHHHHHHHHhCCCCCCCce
Confidence            47899999999999999999998888766544443

>TIGR00958 3a01208 Conjugate Transporter-2 (CT2) Family protein

Probab=98.43  E-value=7.9e-07  Score=87.67  Aligned_cols=63  Identities=24%  Similarity=0.267  Sum_probs=45.2

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCC---CCHHHHHHcCCCccceeEeC
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENA---LDPSLAEAMGIDAENLLIAQ  179 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~---~~~~~~~~~g~~~~~l~~~~  179 (264)
                      -+++|+.+.|.||+|+||||++..+.....+.+|.+. ++...-   ....+.+.+++.+|+..+++
T Consensus       503 ~i~~Ge~vaIvG~SGsGKSTLl~lL~gl~~p~~G~I~-idg~~i~~~~~~~lr~~i~~v~Q~~~lF~  568 (711)
T TIGR00958       503 TLHPGEVVALVGPSGSGKSTVAALLQNLYQPTGGQVL-LDGVPLVQYDHHYLHRQVALVGQEPVLFS  568 (711)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHHhccCCCCCEEE-ECCEEHHhcCHHHHHhhceEEecCccccc
Confidence            3789999999999999999999888887776666654 443221   11245667888777655443

>PRK10522 multidrug transporter membrane component/ATP-binding component; Provisional

Probab=98.42  E-value=1.1e-06  Score=84.07  Aligned_cols=60  Identities=17%  Similarity=0.185  Sum_probs=39.3

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCC-C-HHHHHHcCCCccce
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENAL-D-PSLAEAMGIDAENL  175 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~-~-~~~~~~~g~~~~~l  175 (264)
                      -+++|+.+.|.||+|||||||+..++....+..|.+.+-..+... . ..+.+.+++.+++.
T Consensus       345 ~i~~G~~~aivG~sGsGKSTL~~ll~g~~~~~~G~i~~~g~~~~~~~~~~~~~~i~~v~q~~  406 (547)
T PRK10522        345 TIKRGELLFLIGGNGSGKSTLAMLLTGLYQPQSGEILLDGKPVTAEQPEDYRKLFSAVFTDF  406 (547)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhCCCCCCCeEEEECCEECCCCCHHHHhhheEEEecCh
Confidence            368999999999999999999988887665555555443222111 1 13444556555543

>COG4161 ArtP ABC-type arginine transport system, ATPase component [Amino acid transport and metabolism]

Probab=98.42  E-value=6.5e-06  Score=65.58  Aligned_cols=66  Identities=15%  Similarity=0.189  Sum_probs=42.4

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEE----EecCCCCCH----HHHHHcCCCccceeEeCCC
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAY----LDVENALDP----SLAEAMGIDAENLLIAQPD  181 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~----~~~e~~~~~----~~~~~~g~~~~~l~~~~~~  181 (264)
                      ..+.|+.+++.||+|+|||+|+..+-..-.++.+...+    |++......    ...+.+|+..++..+.+..
T Consensus        24 ~~~~getlvllgpsgagkssllr~lnlle~p~sg~l~ia~~~fd~s~~~~~k~i~~lr~~vgmvfqqy~lwphl   97 (242)
T COG4161          24 DCPEGETLVLLGPSGAGKSSLLRVLNLLEMPRSGTLNIAGNHFDFSKTPSDKAIRDLRRNVGMVFQQYNLWPHL   97 (242)
T ss_pred             cCCCCCEEEEECCCCCchHHHHHHHHHHhCCCCCeEEecccccccccCccHHHHHHHHHhhhhhhhhhccCchh
Confidence            36789999999999999999877664443444444332    222222222    3456689888877665544

>PRK10867 signal recognition particle protein; Provisional

Probab=98.42  E-value=5.4e-06  Score=76.67  Aligned_cols=90  Identities=19%  Similarity=0.221  Sum_probs=63.1

Q ss_pred             CcEEEEEecCCCChHHHHHHHHHHHhhc-CCeEEEEecCCCCCH------HHHHHcCCCccceeEeCCCCHHHHHHHHHH
Q 024705          120 GRIVEIYGREASGKTTLALHVIKEAQKL-GGYCAYLDVENALDP------SLAEAMGIDAENLLIAQPDSAENLLSVVDT  192 (264)
Q Consensus       120 G~~~~I~G~~GsGKTtl~~~l~~~~~~~-g~~v~~~~~e~~~~~------~~~~~~g~~~~~l~~~~~~~~ee~~~~i~~  192 (264)
                      ..++.++|++|+||||++..++..+... |.+|++++.|.....      .+++..|++.-.  .....++.++......
T Consensus       100 p~vI~~vG~~GsGKTTtaakLA~~l~~~~G~kV~lV~~D~~R~aa~eQL~~~a~~~gv~v~~--~~~~~dp~~i~~~a~~  177 (433)
T PRK10867        100 PTVIMMVGLQGAGKTTTAGKLAKYLKKKKKKKVLLVAADVYRPAAIEQLKTLGEQIGVPVFP--SGDGQDPVDIAKAALE  177 (433)
T ss_pred             CEEEEEECCCCCcHHHHHHHHHHHHHHhcCCcEEEEEccccchHHHHHHHHHHhhcCCeEEe--cCCCCCHHHHHHHHHH
Confidence            5789999999999999999999998888 889999999865442      134555544211  1112345566644444


Q ss_pred             HhhcCCccEEEEcCccccc
Q 024705          193 LTKSGSIDVIVVDSVAALI  211 (264)
Q Consensus       193 ~~~~~~~~~vvIDsl~~~~  211 (264)
                      .....++++|+||......
T Consensus       178 ~a~~~~~DvVIIDTaGrl~  196 (433)
T PRK10867        178 EAKENGYDVVIVDTAGRLH  196 (433)
T ss_pred             HHHhcCCCEEEEeCCCCcc
Confidence            4445679999999887553

>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=98.42  E-value=1.2e-05  Score=68.05  Aligned_cols=104  Identities=25%  Similarity=0.338  Sum_probs=64.5

Q ss_pred             CcEEEEEecCCCChHHHHHHHHHHHhh--cCCeEEEEecCCCCCHHHHHHcCCCccceeEeCCCCHHHHHHHHHHHhhcC
Q 024705          120 GRIVEIYGREASGKTTLALHVIKEAQK--LGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTKSG  197 (264)
Q Consensus       120 G~~~~I~G~~GsGKTtl~~~l~~~~~~--~g~~v~~~~~e~~~~~~~~~~~g~~~~~l~~~~~~~~ee~~~~i~~~~~~~  197 (264)
                      ...+.|+||+|+|||+|+..++..+..  .+.+|+|++.+.-... ....+.          ....+++...+      .
T Consensus        34 ~~~l~l~G~~G~GKTHLL~Ai~~~~~~~~~~~~v~y~~~~~f~~~-~~~~~~----------~~~~~~~~~~~------~   96 (219)
T PF00308_consen   34 YNPLFLYGPSGLGKTHLLQAIANEAQKQHPGKRVVYLSAEEFIRE-FADALR----------DGEIEEFKDRL------R   96 (219)
T ss_dssp             SSEEEEEESTTSSHHHHHHHHHHHHHHHCTTS-EEEEEHHHHHHH-HHHHHH----------TTSHHHHHHHH------C
T ss_pred             CCceEEECCCCCCHHHHHHHHHHHHHhccccccceeecHHHHHHH-HHHHHH----------cccchhhhhhh------h
Confidence            346889999999999999999988775  4778999986431111 000000          11223332222      4


Q ss_pred             CccEEEEcCccccccccccCCCcCCCCcHHHHHHHHHHHHHHHHHHhccCcEEEEEccc
Q 024705          198 SIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQV  256 (264)
Q Consensus       198 ~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r~i~~~L~~l~~~l~~~g~tVi~i~h~  256 (264)
                      ..++++||.+..+....            .    ....+..+.+.+.+.|..+|++++.
T Consensus        97 ~~DlL~iDDi~~l~~~~------------~----~q~~lf~l~n~~~~~~k~li~ts~~  139 (219)
T PF00308_consen   97 SADLLIIDDIQFLAGKQ------------R----TQEELFHLFNRLIESGKQLILTSDR  139 (219)
T ss_dssp             TSSEEEEETGGGGTTHH------------H----HHHHHHHHHHHHHHTTSEEEEEESS
T ss_pred             cCCEEEEecchhhcCch------------H----HHHHHHHHHHHHHhhCCeEEEEeCC
Confidence            79999999998876310            1    1234444555557778889888854

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.

>KOG0061 consensus Transporter, ABC superfamily (Breast cancer resistance protein) [Secondary metabolites biosynthesis, transport and catabolism]

Probab=98.41  E-value=1.4e-06  Score=84.33  Aligned_cols=68  Identities=19%  Similarity=0.134  Sum_probs=45.1

Q ss_pred             CCCCCCcEEEEEecCCCChHHHHHHHHHHHhhc--CCeEEEEecCCCCCHHHHHHcCCCccceeEeCCCC
Q 024705          115 GGLPKGRIVEIYGREASGKTTLALHVIKEAQKL--GGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDS  182 (264)
Q Consensus       115 gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~--g~~v~~~~~e~~~~~~~~~~~g~~~~~l~~~~~~~  182 (264)
                      |-..+|+++.|.||+|||||||+..++......  -.+.+.++.+........+..|+..|+-.+....+
T Consensus        51 g~~~~Gel~AimG~SGsGKtTLL~~Lagr~~~~~~~~G~ilvNG~~~~~~~~~~~s~yV~QdD~l~~~LT  120 (613)
T KOG0061|consen   51 GTAKPGELLAIMGPSGSGKTTLLNALAGRLNGGLKLSGEILLNGRPRDSRSFRKISGYVQQDDVLLPTLT  120 (613)
T ss_pred             EEEecCeEEEEECCCCCCHHHHHHHHhccccCCCcceEEEEECCccCchhhhhheeEEEccccccccccc
Confidence            578999999999999999999999988877532  22344555544444444555566655443333333

>COG1245 Predicted ATPase, RNase L inhibitor (RLI) homolog [General function prediction only]

Probab=98.41  E-value=2.2e-06  Score=78.21  Aligned_cols=127  Identities=19%  Similarity=0.255  Sum_probs=80.2

Q ss_pred             CCCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCC-----eEE----EEecCCCCC--HHHHHHcC--CCcc--ceeEeC
Q 024705          115 GGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGG-----YCA----YLDVENALD--PSLAEAMG--IDAE--NLLIAQ  179 (264)
Q Consensus       115 gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~-----~v~----~~~~e~~~~--~~~~~~~g--~~~~--~l~~~~  179 (264)
                      |.+..|+++.+.||||.|||||+..++..+.+..+     ++-    |+..+-...  +.......  +...  ...+..
T Consensus       362 G~i~~gEvigilGpNgiGKTTFvk~LAG~ikPdeg~~~~~~vSyKPQyI~~~~~gtV~~~l~~~~~~~~~~s~~~~ei~~  441 (591)
T COG1245         362 GEIYDGEVIGILGPNGIGKTTFVKLLAGVIKPDEGSEEDLKVSYKPQYISPDYDGTVEDLLRSAIRSAFGSSYFKTEIVK  441 (591)
T ss_pred             CeeecceEEEEECCCCcchHHHHHHHhccccCCCCCCccceEeecceeecCCCCCcHHHHHHHhhhhhcccchhHHhhcC
Confidence            78999999999999999999999999988765433     222    444332222  21211111  1111  112223


Q ss_pred             CCCHH-------------HHHHHHHHHhhcCCccEEEEcCccccccccccCCCcCCCCcHHHHHHHHHHHHHHHHHHhcc
Q 024705          180 PDSAE-------------NLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQS  246 (264)
Q Consensus       180 ~~~~e-------------e~~~~i~~~~~~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r~i~~~L~~l~~~l~~~  246 (264)
                      |.+.+             |+....-.+.-...+++.++|..++++..             .|.-.+++.+++++   .+.
T Consensus       442 pl~l~~i~e~~v~~LSGGELQRvaIaa~L~reADlYllDEPSA~LDv-------------EqR~~vakvIRR~~---e~~  505 (591)
T COG1245         442 PLNLEDLLERPVDELSGGELQRVAIAAALSREADLYLLDEPSAYLDV-------------EQRIIVAKVIRRFI---ENN  505 (591)
T ss_pred             ccchHHHHhcccccCCchhHHHHHHHHHhccccCEEEecCchhhccH-------------HHHHHHHHHHHHHH---hhc
Confidence            33333             33333223333468899999999888731             55556778888887   888


Q ss_pred             CcEEEEEcccc
Q 024705          247 HTLIIFLNQVK  257 (264)
Q Consensus       247 g~tVi~i~h~~  257 (264)
                      +.+.+++.|+.
T Consensus       506 ~kta~vVdHDi  516 (591)
T COG1245         506 EKTALVVDHDI  516 (591)
T ss_pred             CceEEEEecce
Confidence            99999999975

>PRK11160 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed

Probab=98.41  E-value=1.1e-06  Score=84.50  Aligned_cols=62  Identities=21%  Similarity=0.317  Sum_probs=44.3

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCC-C--CCHHHHHHcCCCccceeEe
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVEN-A--LDPSLAEAMGIDAENLLIA  178 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~-~--~~~~~~~~~g~~~~~l~~~  178 (264)
                      -+++|+.+.|.||+|+|||||+..++....+..|.+. ++... .  ....+.+.+++.+|+..++
T Consensus       362 ~i~~G~~~aivG~sGsGKSTL~~ll~g~~~p~~G~I~-i~g~~i~~~~~~~~r~~i~~v~Q~~~lf  426 (574)
T PRK11160        362 QIKAGEKVALLGRTGCGKSTLLQLLTRAWDPQQGEIL-LNGQPIADYSEAALRQAISVVSQRVHLF  426 (574)
T ss_pred             EECCCCEEEEECCCCCCHHHHHHHHhcCCCCCCceEE-ECCEEhhhCCHHHHHhheeEEcccchhh
Confidence            3789999999999999999999888887766666654 44322 1  1124556688877765444

>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=98.40  E-value=2.3e-06  Score=77.65  Aligned_cols=87  Identities=10%  Similarity=0.200  Sum_probs=62.2

Q ss_pred             CcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCH------HHHHHcCCCccceeEeCCCCHHHHHHHHHHH
Q 024705          120 GRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP------SLAEAMGIDAENLLIAQPDSAENLLSVVDTL  193 (264)
Q Consensus       120 G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~------~~~~~~g~~~~~l~~~~~~~~ee~~~~i~~~  193 (264)
                      +..++|+||+|+||||++..++..+...|.++.+++.|.....      ..++.+|++.     ....+..++...+..+
T Consensus       241 ~~vI~LVGptGvGKTTTiaKLA~~L~~~GkkVglI~aDt~RiaAvEQLk~yae~lgipv-----~v~~d~~~L~~aL~~l  315 (436)
T PRK11889        241 VQTIALIGPTGVGKTTTLAKMAWQFHGKKKTVGFITTDHSRIGTVQQLQDYVKTIGFEV-----IAVRDEAAMTRALTYF  315 (436)
T ss_pred             CcEEEEECCCCCcHHHHHHHHHHHHHHcCCcEEEEecCCcchHHHHHHHHHhhhcCCcE-----EecCCHHHHHHHHHHH
Confidence            4789999999999999999999999888889999998764321      2333444332     2233556666666555


Q ss_pred             hhcCCccEEEEcCccccc
Q 024705          194 TKSGSIDVIVVDSVAALI  211 (264)
Q Consensus       194 ~~~~~~~~vvIDsl~~~~  211 (264)
                      ....+.++|+||......
T Consensus       316 k~~~~~DvVLIDTaGRs~  333 (436)
T PRK11889        316 KEEARVDYILIDTAGKNY  333 (436)
T ss_pred             HhccCCCEEEEeCccccC
Confidence            433468999999877644

>PRK11147 ABC transporter ATPase component; Reviewed

Probab=98.40  E-value=1.1e-06  Score=85.67  Aligned_cols=37  Identities=24%  Similarity=0.231  Sum_probs=30.2

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEE
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCA  152 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~  152 (264)
                      -+++|+.+.|.||||||||||+..++....+..|.+.
T Consensus        25 ~i~~Ge~v~LvG~NGsGKSTLLriiaG~~~p~~G~I~   61 (635)
T PRK11147         25 HIEDNERVCLVGRNGAGKSTLMKILNGEVLLDDGRII   61 (635)
T ss_pred             EECCCCEEEEECCCCCCHHHHHHHHcCCCCCCCeEEE
Confidence            4789999999999999999999988876555455443

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

Probab=98.40  E-value=8.9e-06  Score=71.22  Aligned_cols=131  Identities=18%  Similarity=0.163  Sum_probs=89.9

Q ss_pred             cHHHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHHhhc------CCeEEEEecCCCCCH-----HHHHHcCCCcc
Q 024705          105 SLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKL------GGYCAYLDVENALDP-----SLAEAMGIDAE  173 (264)
Q Consensus       105 ~~~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~------g~~v~~~~~e~~~~~-----~~~~~~g~~~~  173 (264)
                      +..|..++....-.+=-..+|+|+++.|||+++..+...-...      .-+|+++..-..++.     .+...+|.+..
T Consensus        46 L~~L~~Ll~~P~~~Rmp~lLivG~snnGKT~Ii~rF~~~hp~~~d~~~~~~PVv~vq~P~~p~~~~~Y~~IL~~lgaP~~  125 (302)
T PF05621_consen   46 LDRLEELLEYPKRHRMPNLLIVGDSNNGKTMIIERFRRLHPPQSDEDAERIPVVYVQMPPEPDERRFYSAILEALGAPYR  125 (302)
T ss_pred             HHHHHHHHhCCcccCCCceEEecCCCCcHHHHHHHHHHHCCCCCCCCCccccEEEEecCCCCChHHHHHHHHHHhCcccC
Confidence            3446666652222233568999999999999999998644321      125777776554444     24566777654


Q ss_pred             ceeEeCCCCHHHHHHHHHHHhhcCCccEEEEcCccccccccccCCCcCCCCcHHHHHHHHHHHHHHHHHHhccCcEEEEE
Q 024705          174 NLLIAQPDSAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFL  253 (264)
Q Consensus       174 ~l~~~~~~~~ee~~~~i~~~~~~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r~i~~~L~~l~~~l~~~g~tVi~i  253 (264)
                      .     ..+..+....+..+++..+++++|||.+..+...           +..+++++.+.|+.|.   .+..+++|.+
T Consensus       126 ~-----~~~~~~~~~~~~~llr~~~vrmLIIDE~H~lLaG-----------s~~~qr~~Ln~LK~L~---NeL~ipiV~v  186 (302)
T PF05621_consen  126 P-----RDRVAKLEQQVLRLLRRLGVRMLIIDEFHNLLAG-----------SYRKQREFLNALKFLG---NELQIPIVGV  186 (302)
T ss_pred             C-----CCCHHHHHHHHHHHHHHcCCcEEEeechHHHhcc-----------cHHHHHHHHHHHHHHh---hccCCCeEEe
Confidence            3     3455666666667777789999999999998731           1267787888888887   7889999987


Q ss_pred             c
Q 024705          254 N  254 (264)
Q Consensus       254 ~  254 (264)
                      .
T Consensus       187 G  187 (302)
T PF05621_consen  187 G  187 (302)
T ss_pred             c
Confidence            5

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

>PRK06921 hypothetical protein; Provisional

Probab=98.40  E-value=2.9e-06  Score=73.88  Aligned_cols=38  Identities=24%  Similarity=0.346  Sum_probs=34.1

Q ss_pred             CCcEEEEEecCCCChHHHHHHHHHHHhhc-CCeEEEEec
Q 024705          119 KGRIVEIYGREASGKTTLALHVIKEAQKL-GGYCAYLDV  156 (264)
Q Consensus       119 ~G~~~~I~G~~GsGKTtl~~~l~~~~~~~-g~~v~~~~~  156 (264)
                      .+..++|+|++|+|||+|+..++..+... |..|+|++.
T Consensus       116 ~~~~l~l~G~~G~GKThLa~aia~~l~~~~g~~v~y~~~  154 (266)
T PRK06921        116 RKNSIALLGQPGSGKTHLLTAAANELMRKKGVPVLYFPF  154 (266)
T ss_pred             CCCeEEEECCCCCcHHHHHHHHHHHHhhhcCceEEEEEH
Confidence            36779999999999999999999999887 889999985

>TIGR03719 ABC_ABC_ChvD ATP-binding cassette protein, ChvD family

Probab=98.40  E-value=3.2e-07  Score=87.87  Aligned_cols=36  Identities=33%  Similarity=0.463  Sum_probs=29.2

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeE
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYC  151 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v  151 (264)
                      -+.+|+++.|.||||||||||+..++....+..|.+
T Consensus       344 ~i~~Ge~~~l~G~NGsGKSTLl~~l~G~~~p~~G~i  379 (552)
T TIGR03719       344 KLPPGGIVGVIGPNGAGKSTLFRMITGQEQPDSGTI  379 (552)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHcCCCCCCCeEE
Confidence            378999999999999999999988887654444444

Members of this protein family have two copies of the ABC transporter ATP-binding cassette, but are found outside the common ABC transporter operon structure that features integral membrane permease proteins and substrate-binding proteins encoded next to the ATP-binding cassette (ABC domain) protein. The member protein ChvD from Agrobacterium tumefaciens was identified as both a candidate to interact with VirB8, based on yeast two-hybrid analysis, and as an apparent regulator of VirG. The general function of this protein family is unknown.

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

Probab=98.40  E-value=1.1e-06  Score=77.90  Aligned_cols=122  Identities=18%  Similarity=0.226  Sum_probs=71.8

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCHHHHHHcCCCccceeEeCCCCHHHHHHHHHHHhh
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTK  195 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~~~~~~~g~~~~~l~~~~~~~~ee~~~~i~~~~~  195 (264)
                      |+.|..=++++||||+|||.||..+|...     .+.|+-.-  .+....+-+|--.        --+.+++.    +.+
T Consensus       181 GI~PPKGVLLYGPPGTGKTLLAkAVA~~T-----~AtFIrvv--gSElVqKYiGEGa--------RlVRelF~----lAr  241 (406)
T COG1222         181 GIDPPKGVLLYGPPGTGKTLLAKAVANQT-----DATFIRVV--GSELVQKYIGEGA--------RLVRELFE----LAR  241 (406)
T ss_pred             CCCCCCceEeeCCCCCcHHHHHHHHHhcc-----CceEEEec--cHHHHHHHhccch--------HHHHHHHH----HHh
Confidence            68888889999999999999999887743     23343211  1111222222110        00223333    334


Q ss_pred             cCCccEEEEcCccccccccccCCCcCCCCcHHHHHHHHHHHHHHHHHHhccCcEEEEEcccchH
Q 024705          196 SGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVKVL  259 (264)
Q Consensus       196 ~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r~i~~~L~~l~~~l~~~g~tVi~i~h~~~~  259 (264)
                      .+.|.+|+||.+.++-. ..++...  ..+..-+|.+.+.|.+|-.+=..-|+-||+.|+--+.
T Consensus       242 ekaPsIIFiDEIDAIg~-kR~d~~t--~gDrEVQRTmleLL~qlDGFD~~~nvKVI~ATNR~D~  302 (406)
T COG1222         242 EKAPSIIFIDEIDAIGA-KRFDSGT--SGDREVQRTMLELLNQLDGFDPRGNVKVIMATNRPDI  302 (406)
T ss_pred             hcCCeEEEEechhhhhc-ccccCCC--CchHHHHHHHHHHHHhccCCCCCCCeEEEEecCCccc
Confidence            56899999999999985 3333222  1222444556666666654444568888887764443

>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=98.39  E-value=1.7e-06  Score=78.41  Aligned_cols=87  Identities=15%  Similarity=0.263  Sum_probs=59.4

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhc-C-CeEEEEecCCCCC----H--HHHHHcCCCccceeEeCCCCHHHHH
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKL-G-GYCAYLDVENALD----P--SLAEAMGIDAENLLIAQPDSAENLL  187 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~-g-~~v~~~~~e~~~~----~--~~~~~~g~~~~~l~~~~~~~~ee~~  187 (264)
                      -+++|.++++.||+|+||||++..++..+... | .+|.++..+....    +  .+++.+|++...     ..+..++.
T Consensus       133 ~~~~g~ii~lvGptGvGKTTtiakLA~~~~~~~G~~~V~lit~D~~R~ga~EqL~~~a~~~gv~~~~-----~~~~~~l~  207 (374)
T PRK14722        133 LMERGGVFALMGPTGVGKTTTTAKLAARCVMRFGASKVALLTTDSYRIGGHEQLRIFGKILGVPVHA-----VKDGGDLQ  207 (374)
T ss_pred             cccCCcEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEecccccccHHHHHHHHHHHcCCceEe-----cCCcccHH
Confidence            35789999999999999999999999987644 5 5888988776432    1  345666765432     22223333


Q ss_pred             HHHHHHhhcCCccEEEEcCcccc
Q 024705          188 SVVDTLTKSGSIDVIVVDSVAAL  210 (264)
Q Consensus       188 ~~i~~~~~~~~~~~vvIDsl~~~  210 (264)
                      ..+..+   .+.++|+||.....
T Consensus       208 ~~l~~l---~~~DlVLIDTaG~~  227 (374)
T PRK14722        208 LALAEL---RNKHMVLIDTIGMS  227 (374)
T ss_pred             HHHHHh---cCCCEEEEcCCCCC
Confidence            333333   46799999988644

>COG1119 ModF ABC-type molybdenum transport system, ATPase component/photorepair protein PhrA [Inorganic ion transport and metabolism]

Probab=98.39  E-value=4e-06  Score=70.91  Aligned_cols=57  Identities=23%  Similarity=0.202  Sum_probs=40.9

Q ss_pred             CCCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCC---HHHHHHcCCC
Q 024705          115 GGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALD---PSLAEAMGID  171 (264)
Q Consensus       115 gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~---~~~~~~~g~~  171 (264)
                      --+++|+-..|.||||||||||+..+++..-+..+.+..+.......   ..+.+.+|+.
T Consensus        52 W~V~~ge~W~I~G~NGsGKTTLL~ll~~~~~pssg~~~~~G~~~G~~~~~~elrk~IG~v  111 (257)
T COG1119          52 WQVNPGEHWAIVGPNGAGKTTLLSLLTGEHPPSSGDVTLLGRRFGKGETIFELRKRIGLV  111 (257)
T ss_pred             eeecCCCcEEEECCCCCCHHHHHHHHhcccCCCCCceeeeeeeccCCcchHHHHHHhCcc
Confidence            35889999999999999999988877776655555566655433222   3566677765

>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=98.39  E-value=2.2e-06  Score=68.01  Aligned_cols=32  Identities=31%  Similarity=0.357  Sum_probs=27.2

Q ss_pred             EEEEEecCCCChHHHHHHHHHHHhhcCCeEEE
Q 024705          122 IVEIYGREASGKTTLALHVIKEAQKLGGYCAY  153 (264)
Q Consensus       122 ~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~  153 (264)
                      -+.|+|+||+||||++..++..+...|.+|.=
T Consensus         7 ki~ITG~PGvGKtTl~~ki~e~L~~~g~kvgG   38 (179)
T COG1618           7 KIFITGRPGVGKTTLVLKIAEKLREKGYKVGG   38 (179)
T ss_pred             EEEEeCCCCccHHHHHHHHHHHHHhcCceeee
Confidence            47899999999999999999988877766553

>cd03280 ABC_MutS2 MutS2 homologs in bacteria and eukaryotes

Probab=98.39  E-value=2.2e-06  Score=71.37  Aligned_cols=25  Identities=28%  Similarity=0.292  Sum_probs=21.4

Q ss_pred             CCC-cEEEEEecCCCChHHHHHHHHH
Q 024705          118 PKG-RIVEIYGREASGKTTLALHVIK  142 (264)
Q Consensus       118 ~~G-~~~~I~G~~GsGKTtl~~~l~~  142 (264)
                      .+| ++++|.||||+|||||+..+..
T Consensus        25 ~~~~~~~~ltG~Ng~GKStll~~i~~   50 (200)
T cd03280          25 GENKRVLVITGPNAGGKTVTLKTLGL   50 (200)
T ss_pred             CCCceEEEEECCCCCChHHHHHHHHH
Confidence            355 5899999999999999998873

The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family also possess a conserved ATPase activity that belongs to the ATP binding cassette (ABC) superfamily. MutS homologs (MSH) have been identified in most prokaryotic and all eukaryotic organisms examined. Prokaryotes have two homologs (MutS1 and MutS2), whereas seven MSH proteins (MSH1 to MSH7) have been identified in eukaryotes. The homodimer MutS1 and heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily involved in mitotic mismatch repair, whereas MSH4-MSH5 is involved in resolution of Holliday junctions during meiosis. All members of the MutS family contain the highly conserved Walker A/B ATPase domain, and many share a common mechanism of action. MutS1, MSH2-MSH3, MSH2-MSH6, and MSH4-MSH5 dimerize to form sliding clamps, a

>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=98.39  E-value=1.9e-06  Score=79.82  Aligned_cols=84  Identities=23%  Similarity=0.292  Sum_probs=59.5

Q ss_pred             CCCcEEEEEecCCCChHHHHHHHHHHHh--hcCCeEEEEecCCCCC----H--HHHHHcCCCccceeEeCCCCHHHHHHH
Q 024705          118 PKGRIVEIYGREASGKTTLALHVIKEAQ--KLGGYCAYLDVENALD----P--SLAEAMGIDAENLLIAQPDSAENLLSV  189 (264)
Q Consensus       118 ~~G~~~~I~G~~GsGKTtl~~~l~~~~~--~~g~~v~~~~~e~~~~----~--~~~~~~g~~~~~l~~~~~~~~ee~~~~  189 (264)
                      .+|.++.++||+|+||||++..++..+.  ..+.+|.+++.|....    +  .+++.+|++..     ...+..++...
T Consensus       219 ~~~~~i~~vGptGvGKTTt~~kLA~~~~~~~~g~~V~li~~D~~r~~a~eqL~~~a~~~~vp~~-----~~~~~~~l~~~  293 (424)
T PRK05703        219 KQGGVVALVGPTGVGKTTTLAKLAARYALLYGKKKVALITLDTYRIGAVEQLKTYAKIMGIPVE-----VVYDPKELAKA  293 (424)
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEECCccHHHHHHHHHHHHHHhCCceE-----ccCCHHhHHHH
Confidence            4478999999999999999999999887  4567999999876422    1  23445565432     22344566665


Q ss_pred             HHHHhhcCCccEEEEcCccc
Q 024705          190 VDTLTKSGSIDVIVVDSVAA  209 (264)
Q Consensus       190 i~~~~~~~~~~~vvIDsl~~  209 (264)
                      +..+   .+.++|+||....
T Consensus       294 l~~~---~~~DlVlIDt~G~  310 (424)
T PRK05703        294 LEQL---RDCDVILIDTAGR  310 (424)
T ss_pred             HHHh---CCCCEEEEeCCCC
Confidence            5544   3689999998754

>PF13173 AAA_14: AAA domain

Probab=98.38  E-value=3.5e-06  Score=64.99  Aligned_cols=100  Identities=24%  Similarity=0.298  Sum_probs=64.0

Q ss_pred             CcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCHHHHHHcCCCccceeEeCCCCHHHHHHHHHHHhhcCCc
Q 024705          120 GRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTKSGSI  199 (264)
Q Consensus       120 G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~~~~~~~g~~~~~l~~~~~~~~ee~~~~i~~~~~~~~~  199 (264)
                      +.+++|.||.|+||||++.+++.... ....++|++++........                ..+ +.+.+.+.. ..+.
T Consensus         2 ~~~~~l~G~R~vGKTtll~~~~~~~~-~~~~~~yi~~~~~~~~~~~----------------~~~-~~~~~~~~~-~~~~   62 (128)
T PF13173_consen    2 RKIIILTGPRGVGKTTLLKQLAKDLL-PPENILYINFDDPRDRRLA----------------DPD-LLEYFLELI-KPGK   62 (128)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHhc-ccccceeeccCCHHHHHHh----------------hhh-hHHHHHHhh-ccCC
Confidence            56899999999999999999998776 5677899987654321100                000 223333221 1267


Q ss_pred             cEEEEcCccccccccccCCCcCCCCcHHHHHHHHHHHHHHHHHHhc-cCcEEEEEcccchHh
Q 024705          200 DVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQ-SHTLIIFLNQVKVLL  260 (264)
Q Consensus       200 ~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r~i~~~L~~l~~~l~~-~g~tVi~i~h~~~~~  260 (264)
                      .+++||.++.+-.                   ....++.+.   .+ .++.++++......+
T Consensus        63 ~~i~iDEiq~~~~-------------------~~~~lk~l~---d~~~~~~ii~tgS~~~~l  102 (128)
T PF13173_consen   63 KYIFIDEIQYLPD-------------------WEDALKFLV---DNGPNIKIILTGSSSSLL  102 (128)
T ss_pred             cEEEEehhhhhcc-------------------HHHHHHHHH---HhccCceEEEEccchHHH
Confidence            8999999987741                   123455554   33 367888887655443

>TIGR01194 cyc_pep_trnsptr cyclic peptide transporter

Probab=98.38  E-value=1.3e-06  Score=83.75  Aligned_cols=59  Identities=22%  Similarity=0.191  Sum_probs=40.3

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCC---HHHHHHcCCCccce
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALD---PSLAEAMGIDAENL  175 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~---~~~~~~~g~~~~~l  175 (264)
                      -+++|+.+.|.||+|+|||||+..++....+..|.+. ++......   ..+.+.+++.+++.
T Consensus       364 ~i~~G~~~aivG~sGsGKSTl~~ll~g~~~p~~G~i~-~~g~~i~~~~~~~~~~~i~~v~q~~  425 (555)
T TIGR01194       364 RIAQGDIVFIVGENGCGKSTLAKLFCGLYIPQEGEIL-LDGAAVSADSRDDYRDLFSAIFADF  425 (555)
T ss_pred             EEcCCcEEEEECCCCCCHHHHHHHHhCCCCCCCcEEE-ECCEECCCCCHHHHHhhCcEEccCh
Confidence            3789999999999999999998888876666666555 44332211   13445566655543

This model describes cyclic peptide transporter in bacteria. Bacteria have elaborate pathways for the production of toxins and secondary metabolites. Many such compounds, including syringomycin and pyoverdine are synthesized on non-ribosomal templates consisting of a multienzyme complex. On several occasions the proteins of the complex and transporter protein are present on the same operon. Often times these compounds cross the biological membrane by specific transporters. Syringomycin is an amphipathic, cylclic lipodepsipeptide when inserted into host causes formation of channels, permeable to variety of cations. On the other hand, pyoverdine is a cyclic octa-peptidyl dihydroxyquinoline, which is efficient in sequestering iron for uptake.

>TIGR00959 ffh signal recognition particle protein

Probab=98.37  E-value=9.3e-06  Score=75.09  Aligned_cols=90  Identities=19%  Similarity=0.235  Sum_probs=62.2

Q ss_pred             CcEEEEEecCCCChHHHHHHHHHHHh-hcCCeEEEEecCCCCCH------HHHHHcCCCccceeEeCCCCHHHHHHHHHH
Q 024705          120 GRIVEIYGREASGKTTLALHVIKEAQ-KLGGYCAYLDVENALDP------SLAEAMGIDAENLLIAQPDSAENLLSVVDT  192 (264)
Q Consensus       120 G~~~~I~G~~GsGKTtl~~~l~~~~~-~~g~~v~~~~~e~~~~~------~~~~~~g~~~~~l~~~~~~~~ee~~~~i~~  192 (264)
                      ..++.++|++|+||||++..++..+. ..|.+|+++++|.....      .+++..|++.-.  .....++.++......
T Consensus        99 p~vi~~vG~~GsGKTTtaakLA~~l~~~~g~kV~lV~~D~~R~~a~~QL~~~a~~~gvp~~~--~~~~~~P~~i~~~al~  176 (428)
T TIGR00959        99 PTVILMVGLQGSGKTTTCGKLAYYLKKKQGKKVLLVACDLYRPAAIEQLKVLGQQVGVPVFA--LGKGQSPVEIARRALE  176 (428)
T ss_pred             CEEEEEECCCCCcHHHHHHHHHHHHHHhCCCeEEEEeccccchHHHHHHHHHHHhcCCceEe--cCCCCCHHHHHHHHHH
Confidence            47899999999999999999999876 57889999999865432      234555654221  1223445555543333


Q ss_pred             HhhcCCccEEEEcCccccc
Q 024705          193 LTKSGSIDVIVVDSVAALI  211 (264)
Q Consensus       193 ~~~~~~~~~vvIDsl~~~~  211 (264)
                      .....++++|+||+.....
T Consensus       177 ~~~~~~~DvVIIDTaGr~~  195 (428)
T TIGR00959       177 YAKENGFDVVIVDTAGRLQ  195 (428)
T ss_pred             HHHhcCCCEEEEeCCCccc
Confidence            3445678999999877543

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.

>KOG0059 consensus Lipid exporter ABCA1 and related proteins, ABC superfamily [Lipid transport and metabolism; General function prediction only]

Probab=98.37  E-value=2.3e-06  Score=86.23  Aligned_cols=133  Identities=14%  Similarity=0.150  Sum_probs=84.1

Q ss_pred             CCCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCH---HHHHHcCCCccceeEeCCCCHHHHHHHH-
Q 024705          115 GGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP---SLAEAMGIDAENLLIAQPDSAENLLSVV-  190 (264)
Q Consensus       115 gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~---~~~~~~g~~~~~l~~~~~~~~ee~~~~i-  190 (264)
                      -.+++|++..+.|+||+||||+...+.+.....+|.+..-..+.....   ...+.+|+-||...+.+..+..|.+... 
T Consensus       586 ~~V~~gecfgLLG~NGAGKtT~f~mltG~~~~t~G~a~i~g~~i~~~~~~~~~~~~iGyCPQ~d~l~~~lT~rEhL~~~a  665 (885)
T KOG0059|consen  586 FAVPPGECFGLLGVNGAGKTTTFKMLTGETKPTSGEALIKGHDITVSTDFQQVRKQLGYCPQFDALWEELTGREHLEFYA  665 (885)
T ss_pred             EEecCCceEEEecCCCCCchhhHHHHhCCccCCcceEEEecCccccccchhhhhhhcccCCchhhhhhhccHHHHHHHHH
Confidence            479999999999999999999888777766666665544222222221   3567789988865544444444333211 


Q ss_pred             --------------HHHh-----------------------------hcCCccEEEEcCccccccccccCCCcCCCCcHH
Q 024705          191 --------------DTLT-----------------------------KSGSIDVIVVDSVAALIPKCEIGVPINGMYSDA  227 (264)
Q Consensus       191 --------------~~~~-----------------------------~~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~  227 (264)
                                    ..++                             --+.|.+|++|..++-+             +..
T Consensus       666 rlrG~~~~di~~~v~~ll~~~~L~~~~~~~~~~ySgG~kRkLs~aialig~p~vi~LDEPstGm-------------DP~  732 (885)
T KOG0059|consen  666 RLRGLPRSDIGSAIEKLLRLVGLGPYANKQVRTYSGGNKRRLSFAIALIGDPSVILLDEPSTGL-------------DPK  732 (885)
T ss_pred             HHcCCChhHHHHHHHHHHHHcCChhhhccchhhCCCcchhhHHHHHHHhcCCCEEEecCCCCCC-------------CHH
Confidence                          1110                             11457888888754433             113


Q ss_pred             HHHHHHHHHHHHHHHHhccCcEEEEEcccchHhhhcC
Q 024705          228 QSRIMTQALRKIHYSLCQSHTLIIFLNQVKVLLLKHF  264 (264)
Q Consensus       228 q~r~i~~~L~~l~~~l~~~g~tVi~i~h~~~~~~~~~  264 (264)
                      .+|.+-..+.++    ++.|..||+++|-.++.|..|
T Consensus       733 arr~lW~ii~~~----~k~g~aiiLTSHsMeE~EaLC  765 (885)
T KOG0059|consen  733 ARRHLWDIIARL----RKNGKAIILTSHSMEEAEALC  765 (885)
T ss_pred             HHHHHHHHHHHH----HhcCCEEEEEcCCHHHHHHHh
Confidence            344444455444    555559999999999998876

>COG4987 CydC ABC-type transport system involved in cytochrome bd biosynthesis, fused ATPase and permease components [Energy production and conversion / Posttranslational modification, protein turnover, chaperones]

Probab=98.37  E-value=9.2e-07  Score=82.03  Aligned_cols=62  Identities=27%  Similarity=0.302  Sum_probs=47.5

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCC--HHHHHHcCCCccceeE
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALD--PSLAEAMGIDAENLLI  177 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~--~~~~~~~g~~~~~l~~  177 (264)
                      -+.+|+-+.|.|++||||||++..++.....+.|.+.+-+.+...-  +...+.+++..|+.++
T Consensus       360 ~l~~GEkvAIlG~SGsGKSTllqLl~~~~~~~~G~i~~~g~~~~~l~~~~~~e~i~vl~Qr~hl  423 (573)
T COG4987         360 TLAQGEKVAILGRSGSGKSTLLQLLAGAWDPQQGSITLNGVEIASLDEQALRETISVLTQRVHL  423 (573)
T ss_pred             eecCCCeEEEECCCCCCHHHHHHHHHhccCCCCCeeeECCcChhhCChhhHHHHHhhhccchHH
Confidence            4789999999999999999998888888888778777766554432  2466777777765543

>TIGR02858 spore_III_AA stage III sporulation protein AA

Probab=98.36  E-value=2.2e-06  Score=74.60  Aligned_cols=114  Identities=18%  Similarity=0.063  Sum_probs=63.6

Q ss_pred             cEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCC---CHHHHHHcCCCccceeEeCCCCHH--HHHHHHHHHhh
Q 024705          121 RIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENAL---DPSLAEAMGIDAENLLIAQPDSAE--NLLSVVDTLTK  195 (264)
Q Consensus       121 ~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~---~~~~~~~~g~~~~~l~~~~~~~~e--e~~~~i~~~~~  195 (264)
                      ..++|.||||+|||||+..++.......+.+.+...+-..   ..+++..++..++.-.....+..+  .-..-+..++.
T Consensus       112 ~~~~i~g~~g~GKttl~~~l~~~~~~~~G~i~~~g~~v~~~d~~~ei~~~~~~~~q~~~~~r~~v~~~~~k~~~~~~~i~  191 (270)
T TIGR02858       112 LNTLIISPPQCGKTTLLRDLARILSTGISQLGLRGKKVGIVDERSEIAGCVNGVPQHDVGIRTDVLDGCPKAEGMMMLIR  191 (270)
T ss_pred             eEEEEEcCCCCCHHHHHHHHhCccCCCCceEEECCEEeecchhHHHHHHHhcccccccccccccccccchHHHHHHHHHH
Confidence            5789999999999999999988776655554433322221   123444444444432111111111  11222344444


Q ss_pred             cCCccEEEEcCccccccccccCCCcCCCCcHHHHHHHHHHHHHHHHHHhccCcEEEEEcccch
Q 024705          196 SGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVKV  258 (264)
Q Consensus       196 ~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r~i~~~L~~l~~~l~~~g~tVi~i~h~~~  258 (264)
                      ..+|+++++|.+...                   ..+...+..+    + .|++||+++|..+
T Consensus       192 ~~~P~villDE~~~~-------------------e~~~~l~~~~----~-~G~~vI~ttH~~~  230 (270)
T TIGR02858       192 SMSPDVIVVDEIGRE-------------------EDVEALLEAL----H-AGVSIIATAHGRD  230 (270)
T ss_pred             hCCCCEEEEeCCCcH-------------------HHHHHHHHHH----h-CCCEEEEEechhH
Confidence            568999999995311                   1112222222    3 5999999999643

Members of this protein are the stage III sporulation protein AA, encoded by one of several genes in the spoIIIA locus. It seems that this protein is found in a species if and only if that species is capable of endospore formation.

>PRK14974 cell division protein FtsY; Provisional

Probab=98.36  E-value=1.1e-05  Score=72.28  Aligned_cols=90  Identities=18%  Similarity=0.218  Sum_probs=59.5

Q ss_pred             CCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCH------HHHHHcCCCccceeEeCCCCHHHHH-HHHH
Q 024705          119 KGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP------SLAEAMGIDAENLLIAQPDSAENLL-SVVD  191 (264)
Q Consensus       119 ~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~------~~~~~~g~~~~~l~~~~~~~~ee~~-~~i~  191 (264)
                      ++.+++++|+||+||||++..++..+...|.+|++++.+.....      .++..+|++.-..  ....++.++. ..+.
T Consensus       139 ~~~vi~~~G~~GvGKTTtiakLA~~l~~~g~~V~li~~Dt~R~~a~eqL~~~a~~lgv~v~~~--~~g~dp~~v~~~ai~  216 (336)
T PRK14974        139 KPVVIVFVGVNGTGKTTTIAKLAYYLKKNGFSVVIAAGDTFRAGAIEQLEEHAERLGVKVIKH--KYGADPAAVAYDAIE  216 (336)
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEecCCcCcHHHHHHHHHHHHHcCCceecc--cCCCCHHHHHHHHHH
Confidence            35799999999999999999999988888889999887743221      2455666643221  1112222332 2222


Q ss_pred             HHhhcCCccEEEEcCccccc
Q 024705          192 TLTKSGSIDVIVVDSVAALI  211 (264)
Q Consensus       192 ~~~~~~~~~~vvIDsl~~~~  211 (264)
                      . ....+.++|+||+.....
T Consensus       217 ~-~~~~~~DvVLIDTaGr~~  235 (336)
T PRK14974        217 H-AKARGIDVVLIDTAGRMH  235 (336)
T ss_pred             H-HHhCCCCEEEEECCCccC
Confidence            2 233578899999887664

>COG1132 MdlB ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]

Probab=98.36  E-value=2.9e-06  Score=81.57  Aligned_cols=63  Identities=25%  Similarity=0.290  Sum_probs=46.5

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCC---CCHHHHHHcCCCccceeEeC
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENA---LDPSLAEAMGIDAENLLIAQ  179 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~---~~~~~~~~~g~~~~~l~~~~  179 (264)
                      .+++|+.+.|.||+||||||++..+..-..+..|.+.+ +..+-   ....+.+.+++.+|+..+++
T Consensus       351 ~i~~Ge~vaiVG~sGsGKSTl~~LL~r~~~~~~G~I~i-dg~dI~~i~~~~lr~~I~~V~Qd~~LF~  416 (567)
T COG1132         351 SIEPGEKVAIVGPSGSGKSTLIKLLLRLYDPTSGEILI-DGIDIRDISLDSLRKRIGIVSQDPLLFS  416 (567)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhccCCCCCCeEEE-CCEehhhcCHHHHHHhccEEcccceeec
Confidence            48899999999999999999888888777665666655 32211   11256778898888776655

>PRK06835 DNA replication protein DnaC; Validated

Probab=98.36  E-value=8.3e-06  Score=73.03  Aligned_cols=77  Identities=21%  Similarity=0.288  Sum_probs=51.7

Q ss_pred             CcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCHHHHHHcCCCccceeEeCCCCHHHHHHHHHHHhhcCCc
Q 024705          120 GRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTKSGSI  199 (264)
Q Consensus       120 G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~~~~~~~g~~~~~l~~~~~~~~ee~~~~i~~~~~~~~~  199 (264)
                      +..++|+||+|+|||+|+..++..+...|..|+|++...-.........  +        .  ..+....+..+   ..+
T Consensus       183 ~~~Lll~G~~GtGKThLa~aIa~~l~~~g~~V~y~t~~~l~~~l~~~~~--~--------~--~~~~~~~~~~l---~~~  247 (329)
T PRK06835        183 NENLLFYGNTGTGKTFLSNCIAKELLDRGKSVIYRTADELIEILREIRF--N--------N--DKELEEVYDLL---INC  247 (329)
T ss_pred             CCcEEEECCCCCcHHHHHHHHHHHHHHCCCeEEEEEHHHHHHHHHHHHh--c--------c--chhHHHHHHHh---ccC
Confidence            4679999999999999999999999999999999986442222111000  0        0  01111112332   478


Q ss_pred             cEEEEcCccccc
Q 024705          200 DVIVVDSVAALI  211 (264)
Q Consensus       200 ~~vvIDsl~~~~  211 (264)
                      +++|||.+....
T Consensus       248 DLLIIDDlG~e~  259 (329)
T PRK06835        248 DLLIIDDLGTEK  259 (329)
T ss_pred             CEEEEeccCCCC
Confidence            999999998764

>KOG0734 consensus AAA+-type ATPase containing the peptidase M41 domain [Posttranslational modification, protein turnover, chaperones]

Probab=98.36  E-value=2.2e-06  Score=79.47  Aligned_cols=123  Identities=25%  Similarity=0.305  Sum_probs=73.5

Q ss_pred             hcCCCCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCHHHHHHcCCCccceeEeCCCCHHHHHHHHH
Q 024705          112 LGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVD  191 (264)
Q Consensus       112 l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~~~~~~~g~~~~~l~~~~~~~~ee~~~~i~  191 (264)
                      || |-+|+|  +++.||||+|||.||..++.++   +  |-||....+...+..  +|+-..+        +.+++... 
T Consensus       332 LG-GKLPKG--VLLvGPPGTGKTlLARAvAGEA---~--VPFF~~sGSEFdEm~--VGvGArR--------VRdLF~aA-  392 (752)
T KOG0734|consen  332 LG-GKLPKG--VLLVGPPGTGKTLLARAVAGEA---G--VPFFYASGSEFDEMF--VGVGARR--------VRDLFAAA-  392 (752)
T ss_pred             cc-CcCCCc--eEEeCCCCCchhHHHHHhhccc---C--CCeEeccccchhhhh--hcccHHH--------HHHHHHHH-
Confidence            56 789999  8999999999999999998854   3  334433222111111  1211111        22333322 


Q ss_pred             HHhhcCCccEEEEcCccccccccccCCCcCCCCcHHHHHHHHHHHHHHHHHHhccCcEEEEEcccchHhhh
Q 024705          192 TLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVKVLLLK  262 (264)
Q Consensus       192 ~~~~~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r~i~~~L~~l~~~l~~~g~tVi~i~h~~~~~~~  262 (264)
                         +...|.+|+||.+.++-.+.. .     .......+.+.+.|.++-..-...|+.||..+.--+.++.
T Consensus       393 ---k~~APcIIFIDEiDavG~kR~-~-----~~~~y~kqTlNQLLvEmDGF~qNeGiIvigATNfpe~LD~  454 (752)
T KOG0734|consen  393 ---KARAPCIIFIDEIDAVGGKRN-P-----SDQHYAKQTLNQLLVEMDGFKQNEGIIVIGATNFPEALDK  454 (752)
T ss_pred             ---HhcCCeEEEEechhhhcccCC-c-----cHHHHHHHHHHHHHHHhcCcCcCCceEEEeccCChhhhhH
Confidence               345899999999999874211 1     0011233446667777766656678888877776666543

>PLN03073 ABC transporter F family; Provisional

Probab=98.35  E-value=4.9e-06  Score=81.87  Aligned_cols=35  Identities=23%  Similarity=0.316  Sum_probs=28.9

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCe
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGY  150 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~  150 (264)
                      .+.+|+++.|.||||||||||+..++....+..|.
T Consensus       531 ~i~~Ge~i~LvG~NGsGKSTLLk~L~Gll~p~~G~  565 (718)
T PLN03073        531 GIDLDSRIAMVGPNGIGKSTILKLISGELQPSSGT  565 (718)
T ss_pred             EEcCCCEEEEECCCCCcHHHHHHHHhCCCCCCCce
Confidence            47899999999999999999999988766544443

>TIGR03420 DnaA_homol_Hda DnaA regulatory inactivator Hda

Probab=98.35  E-value=5.2e-06  Score=70.03  Aligned_cols=50  Identities=24%  Similarity=0.351  Sum_probs=39.3

Q ss_pred             cHHHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecC
Q 024705          105 SLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVE  157 (264)
Q Consensus       105 ~~~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e  157 (264)
                      +..+..++. +  ..+..++|+||+|+|||+++..++......+..++|++..
T Consensus        26 ~~~l~~~~~-~--~~~~~lll~G~~G~GKT~la~~~~~~~~~~~~~~~~i~~~   75 (226)
T TIGR03420        26 LAALRQLAA-G--KGDRFLYLWGESGSGKSHLLQAACAAAEERGKSAIYLPLA   75 (226)
T ss_pred             HHHHHHHHh-c--CCCCeEEEECCCCCCHHHHHHHHHHHHHhcCCcEEEEeHH
Confidence            345666553 2  4567899999999999999999999887777888888754

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.

>PLN03140 ABC transporter G family member; Provisional

Probab=98.33  E-value=1.5e-06  Score=91.22  Aligned_cols=39  Identities=31%  Similarity=0.431  Sum_probs=31.1

Q ss_pred             CCCCCCcEEEEEecCCCChHHHHHHHHHHHhhc---CCeEEE
Q 024705          115 GGLPKGRIVEIYGREASGKTTLALHVIKEAQKL---GGYCAY  153 (264)
Q Consensus       115 gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~---g~~v~~  153 (264)
                      |-+++|++++|.||||||||||+..++....+.   .|.+.|
T Consensus       186 ~~i~~Ge~~~llGpnGSGKSTLLk~LaG~l~~~~~~~G~I~~  227 (1470)
T PLN03140        186 GIIKPSRMTLLLGPPSSGKTTLLLALAGKLDPSLKVSGEITY  227 (1470)
T ss_pred             EEEeCCeEEEEEcCCCCCHHHHHHHHhCCCCCCCcceeEEEE
Confidence            468999999999999999999999888766443   444544

>cd03272 ABC_SMC3_euk Eukaryotic SMC3 proteins; SMC proteins are large (approximately 110 to 170 kDa), and each is arranged into five recognizable domains

Probab=98.33  E-value=4.3e-06  Score=71.56  Aligned_cols=23  Identities=22%  Similarity=0.271  Sum_probs=20.7

Q ss_pred             CcEEEEEecCCCChHHHHHHHHH
Q 024705          120 GRIVEIYGREASGKTTLALHVIK  142 (264)
Q Consensus       120 G~~~~I~G~~GsGKTtl~~~l~~  142 (264)
                      |++++|.||||+|||||+..+..
T Consensus        23 ~~~~~i~GpNGsGKStll~ai~~   45 (243)
T cd03272          23 PKHNVVVGRNGSGKSNFFAAIRF   45 (243)
T ss_pred             CCcEEEECCCCCCHHHHHHHHHH
Confidence            67999999999999999888873

Amino-acid sequence homology of SMC proteins between species is largely confined to the amino- and carboxy-terminal globular domains. The amino-terminal domain contains a 'Walker A' nucleotide-binding domain (GxxGxGKS/T, in the single-letter amino-acid code), which by mutational studies has been shown to be essential in several proteins. The carboxy-terminal domain contains a sequence (the DA-box) that resembles a 'Walker B' motif, and a motif with homology to the signature sequence of the ATP-binding cassette (ABC) family of ATPases. The sequence homology within the carboxy-terminal domain is relatively high within the SMC1-SMC4 group, whereas SMC5 and SMC6 show some divergence in both of these sequences. In eukaryotic cells, the proteins are found as heterodimers of SMC1 paired with SMC3, SMC2 with SMC4, and SMC5 with SMC6 (fo

>COG4598 HisP ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]

Probab=98.32  E-value=4.2e-07  Score=73.48  Aligned_cols=64  Identities=17%  Similarity=0.195  Sum_probs=41.1

Q ss_pred             CCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCC------------CCH----HHHHHcCCCccceeEeCC
Q 024705          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENA------------LDP----SLAEAMGIDAENLLIAQP  180 (264)
Q Consensus       117 l~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~------------~~~----~~~~~~g~~~~~l~~~~~  180 (264)
                      -..|+++.|+|-+|||||||+.++-..-.+ ....+.+..|+-            .+.    ....++|+..+++.+...
T Consensus        29 A~~GdVisIIGsSGSGKSTfLRCiN~LE~P-~~G~I~v~geei~~k~~~~G~l~~ad~~q~~r~Rs~L~mVFQ~FNLWsH  107 (256)
T COG4598          29 ANAGDVISIIGSSGSGKSTFLRCINFLEKP-SAGSIRVNGEEIRLKRDKDGQLKPADKRQLQRLRTRLGMVFQHFNLWSH  107 (256)
T ss_pred             cCCCCEEEEecCCCCchhHHHHHHHhhcCC-CCceEEECCeEEEeeeCCCCCeeeCCHHHHHHHHHHhhHhhhhcchhHH
Confidence            357999999999999999998877543333 333444444431            111    234568888887765543


Q ss_pred             C
Q 024705          181 D  181 (264)
Q Consensus       181 ~  181 (264)
                      .
T Consensus       108 m  108 (256)
T COG4598         108 M  108 (256)
T ss_pred             H
Confidence            3

>PLN03232 ABC transporter C family member; Provisional

Probab=98.32  E-value=2.9e-06  Score=89.75  Aligned_cols=63  Identities=14%  Similarity=0.208  Sum_probs=44.9

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCC--C-HHHHHHcCCCccceeEeC
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENAL--D-PSLAEAMGIDAENLLIAQ  179 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~--~-~~~~~~~g~~~~~l~~~~  179 (264)
                      -+++|+.+.|+||+||||||++..+..-..+..|.+ +++...-.  . ..+.+++++.+|+..+++
T Consensus      1258 ~I~~GekvaIVG~SGSGKSTL~~lL~rl~~p~~G~I-~IdG~di~~i~~~~lR~~i~iVpQdp~LF~ 1323 (1495)
T PLN03232       1258 FVSPSEKVGVVGRTGAGKSSMLNALFRIVELEKGRI-MIDDCDVAKFGLTDLRRVLSIIPQSPVLFS 1323 (1495)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhCCCcCCCceE-EECCEEhhhCCHHHHHhhcEEECCCCeeeC
Confidence            378999999999999999999888888766666655 44432211  1 245667888877665543

>PTZ00265 multidrug resistance protein (mdr1); Provisional

Probab=98.31  E-value=3.6e-06  Score=88.72  Aligned_cols=31  Identities=19%  Similarity=0.243  Sum_probs=27.1

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhh
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQK  146 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~  146 (264)
                      -+++|+.+.|.||+||||||++..+..-..+
T Consensus      1190 ~i~~G~~vAIVG~SGsGKSTl~~LL~r~ydp 1220 (1466)
T PTZ00265       1190 SCDSKKTTAIVGETGSGKSTVMSLLMRFYDL 1220 (1466)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHHHhCCC
Confidence            3789999999999999999988888776654

>cd03278 ABC_SMC_barmotin Barmotin is a tight junction-associated protein expressed in rat epithelial cells which is thought to have an important regulatory role in tight junction barrier function

Probab=98.31  E-value=1.8e-05  Score=65.85  Aligned_cols=27  Identities=26%  Similarity=0.417  Sum_probs=23.1

Q ss_pred             CCCCcEEEEEecCCCChHHHHHHHHHHH
Q 024705          117 LPKGRIVEIYGREASGKTTLALHVIKEA  144 (264)
Q Consensus       117 l~~G~~~~I~G~~GsGKTtl~~~l~~~~  144 (264)
                      +.+| +++|+||||+|||||+..+....
T Consensus        20 ~~~g-~~~i~G~nGsGKStll~al~~l~   46 (197)
T cd03278          20 FPPG-LTAIVGPNGSGKSNIIDAIRWVL   46 (197)
T ss_pred             cCCC-cEEEECCCCCCHHHHHHHHHHHh
Confidence            5568 99999999999999998887554

Barmotin belongs to the SMC protein family. SMC proteins are large (approximately 110 to 170 kDa), and each is arranged into five recognizable domains. Amino-acid sequence homology of SMC proteins between species is largely confined to the amino- and carboxy-terminal globular domains. The amino-terminal domain contains a 'Walker A' nucleotide-binding domain (GxxGxGKS/T, in the single-letter amino-acid code), which by mutational studies has been shown to be essential in several proteins. The carboxy-terminal domain contains a sequence (the DA-box) that resembles a 'Walker B' motif, and a motif with homology to the signature sequence of the ATP-binding cassette (ABC) family of ATPases. The sequence homology within the carboxy-terminal domain is relatively high within the SMC1-SMC4 group, w

>PLN03140 ABC transporter G family member; Provisional

Probab=98.30  E-value=3.4e-06  Score=88.66  Aligned_cols=72  Identities=18%  Similarity=0.198  Sum_probs=43.4

Q ss_pred             CCCCCCcEEEEEecCCCChHHHHHHHHHHHhh--cCCeEEEEecCCCCCHHHHHHcCCCccceeEeCCCCHHHHH
Q 024705          115 GGLPKGRIVEIYGREASGKTTLALHVIKEAQK--LGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLL  187 (264)
Q Consensus       115 gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~--~g~~v~~~~~e~~~~~~~~~~~g~~~~~l~~~~~~~~ee~~  187 (264)
                      +-+++|+++.|.||||+|||||+..++.....  ..+.+ .++..........+.+|+..|+.......++.|.+
T Consensus       901 ~~i~~Gel~aL~G~sGaGKTTLL~~LaG~~~~g~~~G~I-~inG~~~~~~~~~~~igyv~Q~d~~~~~lTV~E~L  974 (1470)
T PLN03140        901 GAFRPGVLTALMGVSGAGKTTLMDVLAGRKTGGYIEGDI-RISGFPKKQETFARISGYCEQNDIHSPQVTVRESL  974 (1470)
T ss_pred             EEEECCeEEEEECCCCCCHHHHHHHHcCCCCCCcccceE-EECCccCChHHhhhheEEEccccccCCCCcHHHHH
Confidence            47899999999999999999998888875321  12333 34332211122334467666654444444444443

>TIGR01425 SRP54_euk signal recognition particle protein SRP54

Probab=98.30  E-value=1.3e-05  Score=73.86  Aligned_cols=89  Identities=19%  Similarity=0.131  Sum_probs=58.5

Q ss_pred             CcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCH------HHHHHcCCCccceeEeCCCCHHHHHH-HHHH
Q 024705          120 GRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP------SLAEAMGIDAENLLIAQPDSAENLLS-VVDT  192 (264)
Q Consensus       120 G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~------~~~~~~g~~~~~l~~~~~~~~ee~~~-~i~~  192 (264)
                      ..++.++|++|+||||++..++..+...|.+|++++.|.....      ..++..+++.-  ......++.++.. .+..
T Consensus       100 ~~vi~lvG~~GvGKTTtaaKLA~~l~~~G~kV~lV~~D~~R~aA~eQLk~~a~~~~vp~~--~~~~~~dp~~i~~~~l~~  177 (429)
T TIGR01425       100 QNVIMFVGLQGSGKTTTCTKLAYYYQRKGFKPCLVCADTFRAGAFDQLKQNATKARIPFY--GSYTESDPVKIASEGVEK  177 (429)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHCCCCEEEEcCcccchhHHHHHHHHhhccCCeEE--eecCCCCHHHHHHHHHHH
Confidence            4789999999999999999999988888889999998754332      12333444321  1122223333332 3333


Q ss_pred             HhhcCCccEEEEcCccccc
Q 024705          193 LTKSGSIDVIVVDSVAALI  211 (264)
Q Consensus       193 ~~~~~~~~~vvIDsl~~~~  211 (264)
                      + +..+.++|+||......
T Consensus       178 ~-~~~~~DvViIDTaGr~~  195 (429)
T TIGR01425       178 F-KKENFDIIIVDTSGRHK  195 (429)
T ss_pred             H-HhCCCCEEEEECCCCCc
Confidence            2 23578999999887543

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.

>PRK03992 proteasome-activating nucleotidase; Provisional

Probab=98.30  E-value=4.8e-06  Score=76.42  Aligned_cols=124  Identities=19%  Similarity=0.195  Sum_probs=66.4

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCHHHHHHcCCCccceeEeCCCCHHHHHHHHHHHhh
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTK  195 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~~~~~~~g~~~~~l~~~~~~~~ee~~~~i~~~~~  195 (264)
                      |+.+..-++|+||||+|||+++..++...   +...+.++...    ......|            ..+.....+-....
T Consensus       161 g~~~p~gvLL~GppGtGKT~lAkaia~~~---~~~~i~v~~~~----l~~~~~g------------~~~~~i~~~f~~a~  221 (389)
T PRK03992        161 GIEPPKGVLLYGPPGTGKTLLAKAVAHET---NATFIRVVGSE----LVQKFIG------------EGARLVRELFELAR  221 (389)
T ss_pred             CCCCCCceEEECCCCCChHHHHHHHHHHh---CCCEEEeehHH----HhHhhcc------------chHHHHHHHHHHHH
Confidence            56666679999999999999999998754   33344443211    0111011            11222222222233


Q ss_pred             cCCccEEEEcCccccccccccCCCcCCCCcHHHHHHHHHHHHHHHHHHhccCcEEEEEcccchHhh
Q 024705          196 SGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVKVLLL  261 (264)
Q Consensus       196 ~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r~i~~~L~~l~~~l~~~g~tVi~i~h~~~~~~  261 (264)
                      ...+.+++||.+..+..... .+  ....+...++.+.+.+..+...-...++.||++++..+.++
T Consensus       222 ~~~p~IlfiDEiD~l~~~r~-~~--~~~~~~~~~~~l~~lL~~ld~~~~~~~v~VI~aTn~~~~ld  284 (389)
T PRK03992        222 EKAPSIIFIDEIDAIAAKRT-DS--GTSGDREVQRTLMQLLAEMDGFDPRGNVKIIAATNRIDILD  284 (389)
T ss_pred             hcCCeEEEEechhhhhcccc-cC--CCCccHHHHHHHHHHHHhccccCCCCCEEEEEecCChhhCC
Confidence            45788999999999874211 11  11112233444455544443222234777887776554443

>TIGR03689 pup_AAA proteasome ATPase

Probab=98.29  E-value=3.9e-06  Score=79.01  Aligned_cols=132  Identities=16%  Similarity=0.231  Sum_probs=70.0

Q ss_pred             CCCCCCcEEEEEecCCCChHHHHHHHHHHHhhc-----CCeEEEEecCCCCCHHHHHHcCCCccceeEeCCCCHHHHHHH
Q 024705          115 GGLPKGRIVEIYGREASGKTTLALHVIKEAQKL-----GGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSV  189 (264)
Q Consensus       115 gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~-----g~~v~~~~~e~~~~~~~~~~~g~~~~~l~~~~~~~~ee~~~~  189 (264)
                      -|+++..-++|+||||+|||+++..++..+...     +....|++....  .......|-.        ......++..
T Consensus       211 ~gl~~p~GILLyGPPGTGKT~LAKAlA~eL~~~i~~~~~~~~~fl~v~~~--eLl~kyvGet--------e~~ir~iF~~  280 (512)
T TIGR03689       211 YDLKPPKGVLLYGPPGCGKTLIAKAVANSLAQRIGAETGDKSYFLNIKGP--ELLNKYVGET--------ERQIRLIFQR  280 (512)
T ss_pred             ccCCCCcceEEECCCCCcHHHHHHHHHHhhccccccccCCceeEEeccch--hhcccccchH--------HHHHHHHHHH
Confidence            367777779999999999999999999877543     223334332110  0000000000        0011223333


Q ss_pred             HHHHhhcCCccEEEEcCccccccccccCCCcCCCCcHHHHHHHHHHHHHHHHHHhccCcEEEEEcccchHhh
Q 024705          190 VDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVKVLLL  261 (264)
Q Consensus       190 i~~~~~~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r~i~~~L~~l~~~l~~~g~tVi~i~h~~~~~~  261 (264)
                      ++.....+.+.+++||.+..+..... .    +..++.+.+.+.++|..+-..-...++.||.++..-+.++
T Consensus       281 Ar~~a~~g~p~IIfIDEiD~L~~~R~-~----~~s~d~e~~il~~LL~~LDgl~~~~~ViVI~ATN~~d~LD  347 (512)
T TIGR03689       281 AREKASDGRPVIVFFDEMDSIFRTRG-S----GVSSDVETTVVPQLLSELDGVESLDNVIVIGASNREDMID  347 (512)
T ss_pred             HHHHhhcCCCceEEEehhhhhhcccC-C----CccchHHHHHHHHHHHHhcccccCCceEEEeccCChhhCC
Confidence            33333445788999999999874211 1    1122233444455555543322334677776665544443

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.

>cd03281 ABC_MSH5_euk MutS5 homolog in eukaryotes

Probab=98.29  E-value=7.1e-06  Score=69.08  Aligned_cols=25  Identities=28%  Similarity=0.282  Sum_probs=21.7

Q ss_pred             CcEEEEEecCCCChHHHHHHHHHHH
Q 024705          120 GRIVEIYGREASGKTTLALHVIKEA  144 (264)
Q Consensus       120 G~~~~I~G~~GsGKTtl~~~l~~~~  144 (264)
                      +..++|+||||+|||||+..++...
T Consensus        29 ~~~~~itGpNg~GKStlLk~i~~~~   53 (213)
T cd03281          29 PSIMVITGPNSSGKSVYLKQVALIV   53 (213)
T ss_pred             ceEEEEECCCCCChHHHHHHHHHHH
Confidence            4789999999999999999988543

The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal domain with a conserved ATPase activity that belongs to the ATP binding cassette (ABC) superfamily. MutS homologs (MSH) have been identified in most prokaryotic and all eukaryotic organisms examined. Prokaryotes have two homologs (MutS1 and MutS2), whereas seven MSH proteins (MSH1 to MSH7) have been identified in eukaryotes. The homodimer MutS1 and heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily involved in mitotic mismatch repair, whereas MSH4-MSH5 is involved in resolution of Holliday junctions during meiosis. All members of the MutS family contain the highly conserved Walker A/B ATPase domain, and many share a common mechanism of action. MutS1, MSH2-MSH3, MSH2-MSH6, and MSH4-MSH5 dimerize to form sliding c

>COG4615 PvdE ABC-type siderophore export system, fused ATPase and permease components [Secondary metabolites biosynthesis, transport, and catabolism / Inorganic ion transport and metabolism]

Probab=98.29  E-value=3.8e-06  Score=75.49  Aligned_cols=39  Identities=28%  Similarity=0.346  Sum_probs=33.5

Q ss_pred             CCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEe
Q 024705          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLD  155 (264)
Q Consensus       117 l~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~  155 (264)
                      +.+|+++.|+|.||||||||++.+.....++.+.+.+-+
T Consensus       346 ikrGelvFliG~NGsGKST~~~LLtGL~~PqsG~I~ldg  384 (546)
T COG4615         346 IKRGELVFLIGGNGSGKSTLAMLLTGLYQPQSGEILLDG  384 (546)
T ss_pred             EecCcEEEEECCCCCcHHHHHHHHhcccCCCCCceeECC
Confidence            679999999999999999999999888877777665544

>PLN03130 ABC transporter C family member; Provisional

Probab=98.28  E-value=3.6e-06  Score=89.45  Aligned_cols=61  Identities=18%  Similarity=0.268  Sum_probs=43.1

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCC--C-HHHHHHcCCCccceeE
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENAL--D-PSLAEAMGIDAENLLI  177 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~--~-~~~~~~~g~~~~~l~~  177 (264)
                      -+++|+.+.|+||+||||||++..+..-..+..|.+ +++.....  . ..+.+++++.+|+..+
T Consensus      1261 ~I~~GekVaIVGrSGSGKSTLl~lL~rl~~p~~G~I-~IDG~dI~~i~l~~LR~~IsiVpQdp~L 1324 (1622)
T PLN03130       1261 EISPSEKVGIVGRTGAGKSSMLNALFRIVELERGRI-LIDGCDISKFGLMDLRKVLGIIPQAPVL 1324 (1622)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhCcCCCCCceE-EECCEecccCCHHHHHhccEEECCCCcc
Confidence            378999999999999999998888887666655554 55543221  1 2456678877776544

>PRK08116 hypothetical protein; Validated

Probab=98.28  E-value=7.7e-06  Score=71.29  Aligned_cols=38  Identities=21%  Similarity=0.277  Sum_probs=33.4

Q ss_pred             CcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecC
Q 024705          120 GRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVE  157 (264)
Q Consensus       120 G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e  157 (264)
                      +..++|+|++|+|||+|+..++..+...+.+++|++..
T Consensus       114 ~~gl~l~G~~GtGKThLa~aia~~l~~~~~~v~~~~~~  151 (268)
T PRK08116        114 NVGLLLWGSVGTGKTYLAACIANELIEKGVPVIFVNFP  151 (268)
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEEHH
Confidence            34589999999999999999999998888899998853

>cd03291 ABCC_CFTR1 The CFTR subfamily domain 1

Probab=98.28  E-value=9.5e-06  Score=71.26  Aligned_cols=35  Identities=31%  Similarity=0.517  Sum_probs=29.2

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCe
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGY  150 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~  150 (264)
                      -+++|+++.|.||||+|||||+..++....+..+.
T Consensus        59 ~i~~Ge~~~liG~NGsGKSTLl~~I~Gl~~p~~G~   93 (282)
T cd03291          59 KIEKGEMLAITGSTGSGKTSLLMLILGELEPSEGK   93 (282)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhCCCCCCCcE
Confidence            37899999999999999999999888766554444

The cystic fibrosis transmembrane regulator (CFTR), the product of the gene mutated in patients with cystic fibrosis, has adapted the ABC transporter structural motif to form a tightly regulated anion channel at the apical surface of many epithelia. Use of the term assembly of a functional ion channel implies the coming together of subunits, or at least smaller not-yet functional components of the active whole. In fact, on the basis of current knowledge only the CFTR polypeptide itself is required to form an ATP- and protein kinase A-dependent low-conductance chloride channel of the type present in the apical membrane of many epithelial cells. CFTR displays the typical organization (IM-ABC)2 and carries a characteristic hydrophilic R-domain that separates IM1-ABC1 from IM2-ABC2.

>cd03285 ABC_MSH2_euk MutS2 homolog in eukaryotes

Probab=98.27  E-value=5.3e-06  Score=70.32  Aligned_cols=28  Identities=25%  Similarity=0.232  Sum_probs=24.1

Q ss_pred             CCCCcEEEEEecCCCChHHHHHHHHHHH
Q 024705          117 LPKGRIVEIYGREASGKTTLALHVIKEA  144 (264)
Q Consensus       117 l~~G~~~~I~G~~GsGKTtl~~~l~~~~  144 (264)
                      .+++++++|.||||+||||++..++...
T Consensus        27 ~~~~~~~~l~G~n~~GKstll~~i~~~~   54 (222)
T cd03285          27 RGKSRFLIITGPNMGGKSTYIRQIGVIV   54 (222)
T ss_pred             ecCCeEEEEECCCCCChHHHHHHHHHHH
Confidence            4578999999999999999988887653

The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal domain with a conserved ATPase activity that belongs to the ATP binding cassette (ABC) superfamily. MutS homologs (MSH) have been identified in most prokaryotic and all eukaryotic organisms examined. Prokaryotes have two homologs (MutS1 and MutS2), whereas seven MSH proteins (MSH1 to MSH7) have been identified in eukaryotes. The homodimer MutS1 and heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily involved in mitotic mismatch repair, whereas MSH4-MSH5 is involved in resolution of Holliday junctions during meiosis. All members of the MutS family contain the highly conserved Walker A/B ATPase domain, and many share a common mechanism of action. MutS1, MSH2-MSH3, MSH2-MSH6, and MSH4-MSH5 dimerize to form sliding c

>COG4525 TauB ABC-type taurine transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=98.26  E-value=1.9e-06  Score=70.65  Aligned_cols=31  Identities=26%  Similarity=0.351  Sum_probs=24.6

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhh
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQK  146 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~  146 (264)
                      ++.+|+++++.||+||||||++..++.-..+
T Consensus        27 ~ia~ge~vv~lGpSGcGKTTLLnl~AGf~~P   57 (259)
T COG4525          27 TIASGELVVVLGPSGCGKTTLLNLIAGFVTP   57 (259)
T ss_pred             eecCCCEEEEEcCCCccHHHHHHHHhcCcCc
Confidence            6889999999999999999965555444333

>cd03271 ABC_UvrA_II The excision repair protein UvrA domain II; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion

Probab=98.26  E-value=2.4e-05  Score=67.82  Aligned_cols=27  Identities=26%  Similarity=0.441  Sum_probs=24.4

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHH
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIK  142 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~  142 (264)
                      .+|.|.++.|+|++|||||||+..+..
T Consensus        17 ~ip~g~~~~vtGvSGsGKStL~~~~l~   43 (261)
T cd03271          17 DIPLGVLTCVTGVSGSGKSSLINDTLY   43 (261)
T ss_pred             eccCCcEEEEECCCCCchHHHHHHHHH
Confidence            478999999999999999999987754

Recognition and cleavage of the damaged DNA is a multistep ATP-dependent reaction that requires the UvrA, UvrB, and UvrC proteins. Both UvrA and UvrB are ATPases, with UvrA having two ATP binding sites, which have the characteristic signature of the family of ABC proteins and UvrB having one ATP binding site that is structurally related to that of helicases.

>PRK00771 signal recognition particle protein Srp54; Provisional

Probab=98.25  E-value=4.5e-05  Score=70.80  Aligned_cols=99  Identities=23%  Similarity=0.254  Sum_probs=63.6

Q ss_pred             HHHHHHhcCCCC------CCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCH------HHHHHcCCCcc
Q 024705          106 LKLDLALGIGGL------PKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP------SLAEAMGIDAE  173 (264)
Q Consensus       106 ~~LD~~l~~gGl------~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~------~~~~~~g~~~~  173 (264)
                      .+|-.+++ ++-      .+..++.++|++|+||||++..++..+...|.+|++++.+.....      .+++.+|++. 
T Consensus        76 ~~L~~~l~-~~~~~~~~~~~p~vI~lvG~~GsGKTTtaakLA~~L~~~g~kV~lV~~D~~R~aa~eQL~~la~~~gvp~-  153 (437)
T PRK00771         76 EELVKLLG-EETEPLVLPLKPQTIMLVGLQGSGKTTTAAKLARYFKKKGLKVGLVAADTYRPAAYDQLKQLAEKIGVPF-  153 (437)
T ss_pred             HHHHHHhC-CCccccccCCCCeEEEEECCCCCcHHHHHHHHHHHHHHcCCeEEEecCCCCCHHHHHHHHHHHHHcCCcE-
Confidence            35556665 321      246789999999999999999999988888889999998764332      2345556542 


Q ss_pred             ceeEe-CCCCHHHHH-HHHHHHhhcCCccEEEEcCccccc
Q 024705          174 NLLIA-QPDSAENLL-SVVDTLTKSGSIDVIVVDSVAALI  211 (264)
Q Consensus       174 ~l~~~-~~~~~ee~~-~~i~~~~~~~~~~~vvIDsl~~~~  211 (264)
                        ... ...++.+++ ..+...   ...++|+||......
T Consensus       154 --~~~~~~~d~~~i~~~al~~~---~~~DvVIIDTAGr~~  188 (437)
T PRK00771        154 --YGDPDNKDAVEIAKEGLEKF---KKADVIIVDTAGRHA  188 (437)
T ss_pred             --EecCCccCHHHHHHHHHHHh---hcCCEEEEECCCccc
Confidence              111 112333333 233332   234999999876544

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

Probab=98.25  E-value=5.6e-06  Score=72.57  Aligned_cols=133  Identities=11%  Similarity=0.128  Sum_probs=78.3

Q ss_pred             CCcEEEEEecCCCChHHHHHHHHHHHhhc----CCeEEEEecCCCCCHHHHHHcCCCccceeEeCCCCHHHHHHHHHHHh
Q 024705          119 KGRIVEIYGREASGKTTLALHVIKEAQKL----GGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLT  194 (264)
Q Consensus       119 ~G~~~~I~G~~GsGKTtl~~~l~~~~~~~----g~~v~~~~~e~~~~~~~~~~~g~~~~~l~~~~~~~~ee~~~~i~~~~  194 (264)
                      -..++++.||||+|||+||..++..+.-+    ..+...+..  .......+.++-        ...-+..+++.+.+++
T Consensus       176 ~NRliLlhGPPGTGKTSLCKaLaQkLSIR~~~~y~~~~liEi--nshsLFSKWFsE--------SgKlV~kmF~kI~ELv  245 (423)
T KOG0744|consen  176 WNRLILLHGPPGTGKTSLCKALAQKLSIRTNDRYYKGQLIEI--NSHSLFSKWFSE--------SGKLVAKMFQKIQELV  245 (423)
T ss_pred             eeeEEEEeCCCCCChhHHHHHHHHhheeeecCccccceEEEE--ehhHHHHHHHhh--------hhhHHHHHHHHHHHHH
Confidence            35789999999999999999998876532    111112111  011111111111        1223456777788887


Q ss_pred             hcCC-ccEEEEcCccccccccccCCCcCCCCcHHHHHHHHHHHHHHHHHHhccCcEEEEEcccchHhhhc
Q 024705          195 KSGS-IDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVKVLLLKH  263 (264)
Q Consensus       195 ~~~~-~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r~i~~~L~~l~~~l~~~g~tVi~i~h~~~~~~~~  263 (264)
                      +..+ .-.|.||.+.++.....-.....+.+  ...|.+...|.++-+.-+..|+.++.++.+.+.++..
T Consensus       246 ~d~~~lVfvLIDEVESLa~aR~s~~S~~Eps--DaIRvVNalLTQlDrlK~~~NvliL~TSNl~~siD~A  313 (423)
T KOG0744|consen  246 EDRGNLVFVLIDEVESLAAARTSASSRNEPS--DAIRVVNALLTQLDRLKRYPNVLILATSNLTDSIDVA  313 (423)
T ss_pred             hCCCcEEEEEeHHHHHHHHHHHhhhcCCCCc--hHHHHHHHHHHHHHHhccCCCEEEEeccchHHHHHHH
Confidence            6644 45688998887763211111111111  3355566666766655566799999999999888754

>PTZ00243 ABC transporter; Provisional

Probab=98.24  E-value=5.2e-06  Score=88.08  Aligned_cols=62  Identities=23%  Similarity=0.282  Sum_probs=43.4

Q ss_pred             CCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCC-C-HHHHHHcCCCccceeEe
Q 024705          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENAL-D-PSLAEAMGIDAENLLIA  178 (264)
Q Consensus       117 l~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~-~-~~~~~~~g~~~~~l~~~  178 (264)
                      +++|+.+.|+|++|||||||+..+..-....+|.+.+-+.+... . ..+.+.+++.+|+..++
T Consensus      1333 I~~GekVaIVGrTGSGKSTLl~lLlrl~~p~~G~I~IDG~di~~i~l~~LR~~I~iVpQdp~LF 1396 (1560)
T PTZ00243       1333 IAPREKVGIVGRTGSGKSTLLLTFMRMVEVCGGEIRVNGREIGAYGLRELRRQFSMIPQDPVLF 1396 (1560)
T ss_pred             ECCCCEEEEECCCCCCHHHHHHHHhCCCCCCCcEEEECCEEcccCCHHHHHhcceEECCCCccc
Confidence            67999999999999999999988887776666665443322221 1 24566788877765443

>COG1101 PhnK ABC-type uncharacterized transport system, ATPase component [General function prediction only]

Probab=98.24  E-value=1.1e-05  Score=67.09  Aligned_cols=43  Identities=21%  Similarity=0.333  Sum_probs=36.4

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCC
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVEN  158 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~  158 (264)
                      -++.|+++.|.|-||+|||||+..++......++++.+-..+-
T Consensus        28 ~I~~g~FvtViGsNGAGKSTlln~iaG~l~~t~G~I~Idg~dV   70 (263)
T COG1101          28 EIAEGDFVTVIGSNGAGKSTLLNAIAGDLKPTSGQILIDGVDV   70 (263)
T ss_pred             eecCCceEEEEcCCCccHHHHHHHhhCccccCCceEEECceec
Confidence            4789999999999999999999999999888888776544443

>TIGR01242 26Sp45 26S proteasome subunit P45 family

Probab=98.24  E-value=4.1e-06  Score=76.18  Aligned_cols=124  Identities=19%  Similarity=0.184  Sum_probs=65.9

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCHHHHHHcCCCccceeEeCCCCHHHHHHHHHHHhh
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTK  195 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~~~~~~~g~~~~~l~~~~~~~~ee~~~~i~~~~~  195 (264)
                      |+.+..-++|+||||+|||+++..++....   ...+.+.    ........+|            ........+-....
T Consensus       152 g~~~p~gvLL~GppGtGKT~lakaia~~l~---~~~~~v~----~~~l~~~~~g------------~~~~~i~~~f~~a~  212 (364)
T TIGR01242       152 GIEPPKGVLLYGPPGTGKTLLAKAVAHETN---ATFIRVV----GSELVRKYIG------------EGARLVREIFELAK  212 (364)
T ss_pred             CCCCCceEEEECCCCCCHHHHHHHHHHhCC---CCEEecc----hHHHHHHhhh------------HHHHHHHHHHHHHH
Confidence            566666799999999999999999987542   2211111    0111111111            01112222222333


Q ss_pred             cCCccEEEEcCccccccccccCCCcCCCCcHHHHHHHHHHHHHHHHHHhccCcEEEEEcccchHhh
Q 024705          196 SGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVKVLLL  261 (264)
Q Consensus       196 ~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r~i~~~L~~l~~~l~~~g~tVi~i~h~~~~~~  261 (264)
                      ...+.+++||.+..+... .. +.. ...+...++.+.+.+..+...-...++.||++++..+.++
T Consensus       213 ~~~p~il~iDEiD~l~~~-~~-~~~-~~~~~~~~~~l~~ll~~ld~~~~~~~v~vI~ttn~~~~ld  275 (364)
T TIGR01242       213 EKAPSIIFIDEIDAIAAK-RT-DSG-TSGDREVQRTLMQLLAELDGFDPRGNVKVIAATNRPDILD  275 (364)
T ss_pred             hcCCcEEEhhhhhhhccc-cc-cCC-CCccHHHHHHHHHHHHHhhCCCCCCCEEEEEecCChhhCC
Confidence            457889999999988742 11 111 1112234444555555543221234788888887655443

Many proteins may score above the trusted cutoff because an internal

>cd03270 ABC_UvrA_I The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion

Probab=98.24  E-value=1.4e-05  Score=67.85  Aligned_cols=23  Identities=39%  Similarity=0.745  Sum_probs=20.9

Q ss_pred             CCCCCcEEEEEecCCCChHHHHH
Q 024705          116 GLPKGRIVEIYGREASGKTTLAL  138 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~  138 (264)
                      -+++|+++.|.|+||||||||+.
T Consensus        17 ~i~~Ge~~~l~G~sGsGKSTL~~   39 (226)
T cd03270          17 DIPRNKLVVITGVSGSGKSSLAF   39 (226)
T ss_pred             ecCCCcEEEEEcCCCCCHHHHHH
Confidence            37899999999999999999973

Recognition and cleavage of the damaged DNA is a multistep ATP-dependent reaction that requires the UvrA, UvrB, and UvrC proteins. Both UvrA and UvrB are ATPases, with UvrA having two ATP binding sites, which have the characteristic signature of the family of ABC proteins, and UvrB having one ATP binding site that is structurally related to that of helicases.

>TIGR00957 MRP_assoc_pro multi drug resistance-associated protein (MRP)

Probab=98.24  E-value=5.8e-06  Score=87.66  Aligned_cols=61  Identities=25%  Similarity=0.319  Sum_probs=43.3

Q ss_pred             CCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCC-CC-C-HHHHHHcCCCccceeEe
Q 024705          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVEN-AL-D-PSLAEAMGIDAENLLIA  178 (264)
Q Consensus       117 l~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~-~~-~-~~~~~~~g~~~~~l~~~  178 (264)
                      +++|+.++|+|++|||||||+..+..-....+|.+ +++... .. . ....+++++.+|+..++
T Consensus      1309 I~~GekiaIVGrTGsGKSTL~~lL~rl~~~~~G~I-~IdG~dI~~i~~~~LR~~i~iVpQdp~LF 1372 (1522)
T TIGR00957      1309 IHGGEKVGIVGRTGAGKSSLTLGLFRINESAEGEI-IIDGLNIAKIGLHDLRFKITIIPQDPVLF 1372 (1522)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhcCccCCCCeE-EECCEEccccCHHHHHhcCeEECCCCccc
Confidence            78999999999999999999888877666666654 444322 21 1 24566788777765443

This model describes multi drug resistance-associated protein (MRP) in eukaryotes. The multidrug resistance-associated protein is an integral membrane protein that causes multidrug resistance when overexpressed in mammalian cells. It belongs to ABC transporter superfamily. The protein topology and function was experimentally demonstrated by epitope tagging and immunofluorescence. Insertion of tags in the critical regions associated with drug efflux, abrogated its function. The C-terminal domain seem to highly conserved.

>COG1484 DnaC DNA replication protein [DNA replication, recombination, and repair]

Probab=98.23  E-value=9e-06  Score=70.29  Aligned_cols=42  Identities=24%  Similarity=0.316  Sum_probs=37.6

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecC
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVE  157 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e  157 (264)
                      -++++..++++||||+|||.|+..++..++..|..|+|+..-
T Consensus       101 ~~~~~~nl~l~G~~G~GKThLa~Ai~~~l~~~g~sv~f~~~~  142 (254)
T COG1484         101 FFERGENLVLLGPPGVGKTHLAIAIGNELLKAGISVLFITAP  142 (254)
T ss_pred             HhccCCcEEEECCCCCcHHHHHHHHHHHHHHcCCeEEEEEHH
Confidence            355888999999999999999999999999889999999853

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

Probab=98.22  E-value=4.3e-06  Score=72.02  Aligned_cols=100  Identities=24%  Similarity=0.249  Sum_probs=58.1

Q ss_pred             HHHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHHhhc--CCeEEEE-ecCCCCCH-HHHHHcCCCccceeEeCCC
Q 024705          106 LKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKL--GGYCAYL-DVENALDP-SLAEAMGIDAENLLIAQPD  181 (264)
Q Consensus       106 ~~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~--g~~v~~~-~~e~~~~~-~~~~~~g~~~~~l~~~~~~  181 (264)
                      ..+|.++.   +.+|+.++|.||+|+||||++..++......  +..+.++ ..+...+. ...+.+   ..-+.....+
T Consensus         5 ~~id~~~~---i~~Gqr~~I~G~~G~GKTTLlr~I~n~l~~~~fdv~~~v~vI~er~~ev~el~~~I---~~~~v~~~~~   78 (249)
T cd01128           5 RVVDLFAP---IGKGQRGLIVAPPKAGKTTLLQSIANAITKNHPEVYLIVLLIDERPEEVTDMQRSV---KGEVIASTFD   78 (249)
T ss_pred             hheeeecc---cCCCCEEEEECCCCCCHHHHHHHHHhccccccCCeEEEEEEccCCCccHHHHHHHh---ccEEEEecCC
Confidence            45677765   7799999999999999999999988877543  2232323 44432332 233322   1111111111


Q ss_pred             -CH-------HHHHHHHHHHhhcCCccEEEEcCccccc
Q 024705          182 -SA-------ENLLSVVDTLTKSGSIDVIVVDSVAALI  211 (264)
Q Consensus       182 -~~-------ee~~~~i~~~~~~~~~~~vvIDsl~~~~  211 (264)
                       +.       .......+.....++.-++++|+++.+.
T Consensus        79 ~~~~~~~~~~~~~~~~a~~~~~~G~~vll~iDei~r~a  116 (249)
T cd01128          79 EPPERHVQVAEMVLEKAKRLVEHGKDVVILLDSITRLA  116 (249)
T ss_pred             CCHHHHHHHHHHHHHHHHHHHHCCCCEEEEEECHHHhh
Confidence             11       1223333443344566789999999876

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.

>COG4167 SapF ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]

Probab=98.22  E-value=1.5e-05  Score=64.87  Aligned_cols=43  Identities=28%  Similarity=0.293  Sum_probs=35.8

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCC
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVEN  158 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~  158 (264)
                      -++.|+...|.|.||||||||+..++.-+.+.++.+++-+..-
T Consensus        35 tL~~~QTlaiIG~NGSGKSTLakMlaGmi~PTsG~il~n~~~L   77 (267)
T COG4167          35 TLREGQTLAIIGENGSGKSTLAKMLAGMIEPTSGEILINDHPL   77 (267)
T ss_pred             EecCCcEEEEEccCCCcHhHHHHHHhcccCCCCceEEECCccc
Confidence            3678999999999999999999999988888788777655443

>cd03279 ABC_sbcCD SbcCD and other Mre11/Rad50 (MR) complexes are implicated in the metabolism of DNA ends

Probab=98.21  E-value=4e-06  Score=70.49  Aligned_cols=26  Identities=23%  Similarity=0.326  Sum_probs=22.5

Q ss_pred             CCCCcEEEEEecCCCChHHHHHHHHH
Q 024705          117 LPKGRIVEIYGREASGKTTLALHVIK  142 (264)
Q Consensus       117 l~~G~~~~I~G~~GsGKTtl~~~l~~  142 (264)
                      ...|+++.|+||||+||||++..+..
T Consensus        25 ~~~~~~~~i~G~NGsGKSTll~~i~~   50 (213)
T cd03279          25 LDNNGLFLICGPTGAGKSTILDAITY   50 (213)
T ss_pred             CCccCEEEEECCCCCCHHHHHHHhee
Confidence            34588999999999999999988764

They cleave ends sealed by hairpin structures and are thought to play a role in removing protein bound to DNA termini.

>PRK12723 flagellar biosynthesis regulator FlhF; Provisional

Probab=98.21  E-value=2.2e-05  Score=71.74  Aligned_cols=85  Identities=19%  Similarity=0.213  Sum_probs=59.3

Q ss_pred             CCcEEEEEecCCCChHHHHHHHHHHHhh----cCCeEEEEecCCCCCH------HHHHHcCCCccceeEeCCCCHHHHHH
Q 024705          119 KGRIVEIYGREASGKTTLALHVIKEAQK----LGGYCAYLDVENALDP------SLAEAMGIDAENLLIAQPDSAENLLS  188 (264)
Q Consensus       119 ~G~~~~I~G~~GsGKTtl~~~l~~~~~~----~g~~v~~~~~e~~~~~------~~~~~~g~~~~~l~~~~~~~~ee~~~  188 (264)
                      .+.+++++||+|+||||++..++..+..    .|.+|.+++.|.....      .+++.+|++.     ....+.+++..
T Consensus       173 ~~~vi~lvGptGvGKTTT~aKLA~~~~~~~~~~g~~V~lit~Dt~R~aa~eQL~~~a~~lgvpv-----~~~~~~~~l~~  247 (388)
T PRK12723        173 KKRVFILVGPTGVGKTTTIAKLAAIYGINSDDKSLNIKIITIDNYRIGAKKQIQTYGDIMGIPV-----KAIESFKDLKE  247 (388)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHhhhccCCCeEEEEeccCccHHHHHHHHHHhhcCCcce-----EeeCcHHHHHH
Confidence            3579999999999999999999987763    4678999998864321      2345556543     12234455555


Q ss_pred             HHHHHhhcCCccEEEEcCccccc
Q 024705          189 VVDTLTKSGSIDVIVVDSVAALI  211 (264)
Q Consensus       189 ~i~~~~~~~~~~~vvIDsl~~~~  211 (264)
                      .+...   .+.++|+||......
T Consensus       248 ~L~~~---~~~DlVLIDTaGr~~  267 (388)
T PRK12723        248 EITQS---KDFDLVLVDTIGKSP  267 (388)
T ss_pred             HHHHh---CCCCEEEEcCCCCCc
Confidence            55443   578999999887554

>COG4778 PhnL ABC-type phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=98.21  E-value=1.1e-05  Score=64.74  Aligned_cols=62  Identities=21%  Similarity=0.213  Sum_probs=44.9

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCC-----H-----HHHHHcCCCccceeE
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALD-----P-----SLAEAMGIDAENLLI  177 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~-----~-----~~~~~~g~~~~~l~~  177 (264)
                      .+..|+++++.||+|+||||++..+.++....++.+..=..++..+     +     .+...+|+..|-+.+
T Consensus        33 sV~aGECvvL~G~SG~GKStllr~LYaNY~~d~G~I~v~H~g~~vdl~~a~pr~vl~vRr~TiGyVSQFLRv  104 (235)
T COG4778          33 SVNAGECVVLHGPSGSGKSTLLRSLYANYLPDEGQILVRHEGEWVDLVTAEPREVLEVRRTTIGYVSQFLRV  104 (235)
T ss_pred             EecCccEEEeeCCCCCcHHHHHHHHHhccCCCCceEEEEeCcchhhhhccChHHHHHHHHhhhHHHHHHHHh
Confidence            4778999999999999999999999999988777765443333221     1     245567777664433

>TIGR00956 3a01205 Pleiotropic Drug Resistance (PDR) Family protein

Probab=98.21  E-value=4.2e-06  Score=87.89  Aligned_cols=58  Identities=22%  Similarity=0.347  Sum_probs=38.1

Q ss_pred             CCCCCCcEEEEEecCCCChHHHHHHHHHHHh---hcCCeEEEEecCCCCCHHHHHHcCCCccc
Q 024705          115 GGLPKGRIVEIYGREASGKTTLALHVIKEAQ---KLGGYCAYLDVENALDPSLAEAMGIDAEN  174 (264)
Q Consensus       115 gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~---~~g~~v~~~~~e~~~~~~~~~~~g~~~~~  174 (264)
                      +-+++|+++.|.||||+|||||+..++....   ...|.+ +++.... .....+.+|+.+|+
T Consensus       784 ~~i~~Ge~~aI~G~sGaGKSTLL~~Lag~~~~g~~~~G~I-~i~G~~~-~~~~~~~i~yv~Q~  844 (1394)
T TIGR00956       784 GWVKPGTLTALMGASGAGKTTLLNVLAERVTTGVITGGDR-LVNGRPL-DSSFQRSIGYVQQQ  844 (1394)
T ss_pred             EEEECCEEEEEECCCCCCHHHHHHHHhCCCCCCCcceeEE-EECCEEC-Chhhhcceeeeccc
Confidence            4689999999999999999999888877543   122434 4443322 12234456666654

>smart00534 MUTSac ATPase domain of DNA mismatch repair MUTS family

Probab=98.21  E-value=5.3e-06  Score=68.25  Aligned_cols=22  Identities=32%  Similarity=0.228  Sum_probs=19.2

Q ss_pred             EEEEecCCCChHHHHHHHHHHH
Q 024705          123 VEIYGREASGKTTLALHVIKEA  144 (264)
Q Consensus       123 ~~I~G~~GsGKTtl~~~l~~~~  144 (264)
                      ++|+||||+||||++..++...
T Consensus         2 ~~ltG~N~~GKst~l~~i~~~~   23 (185)
T smart00534        2 VIITGPNMGGKSTYLRQVGLIV   23 (185)
T ss_pred             EEEECCCCCcHHHHHHHHHHHH
Confidence            6799999999999999998544

>PRK07952 DNA replication protein DnaC; Validated

Probab=98.20  E-value=1.4e-05  Score=68.64  Aligned_cols=76  Identities=22%  Similarity=0.390  Sum_probs=49.8

Q ss_pred             cEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCHHHHHHcCCCccceeEeCCCCHHHHHHHHHHHhhcCCcc
Q 024705          121 RIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTKSGSID  200 (264)
Q Consensus       121 ~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~~~~~~~g~~~~~l~~~~~~~~ee~~~~i~~~~~~~~~~  200 (264)
                      ..++++|++|+|||+|+..++..+...|..|+|++...-... +...+.    +    ...+.++++.   .+   ..++
T Consensus       100 ~~~~l~G~~GtGKThLa~aia~~l~~~g~~v~~it~~~l~~~-l~~~~~----~----~~~~~~~~l~---~l---~~~d  164 (244)
T PRK07952        100 ASFIFSGKPGTGKNHLAAAICNELLLRGKSVLIITVADIMSA-MKDTFS----N----SETSEEQLLN---DL---SNVD  164 (244)
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEEHHHHHHH-HHHHHh----h----ccccHHHHHH---Hh---ccCC
Confidence            468999999999999999999999988999999974321111 111110    0    0112223332   22   3799


Q ss_pred             EEEEcCccccc
Q 024705          201 VIVVDSVAALI  211 (264)
Q Consensus       201 ~vvIDsl~~~~  211 (264)
                      +++||.+....
T Consensus       165 lLvIDDig~~~  175 (244)
T PRK07952        165 LLVIDEIGVQT  175 (244)
T ss_pred             EEEEeCCCCCC
Confidence            99999997654

>KOG0733 consensus Nuclear AAA ATPase (VCP subfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=98.20  E-value=8e-06  Score=76.88  Aligned_cols=119  Identities=24%  Similarity=0.300  Sum_probs=73.7

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCHH-HHHHcCCCccceeEeCCCCHHHHHHHHHHHh
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPS-LAEAMGIDAENLLIAQPDSAENLLSVVDTLT  194 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~~-~~~~~g~~~~~l~~~~~~~~ee~~~~i~~~~  194 (264)
                      |+...+=++++||||||||.+|..++.++-     .=|++-.   .++ .-..+|-            .|..+..+-...
T Consensus       541 Gi~~PsGvLL~GPPGCGKTLlAKAVANEag-----~NFisVK---GPELlNkYVGE------------SErAVR~vFqRA  600 (802)
T KOG0733|consen  541 GIDAPSGVLLCGPPGCGKTLLAKAVANEAG-----ANFISVK---GPELLNKYVGE------------SERAVRQVFQRA  600 (802)
T ss_pred             CCCCCCceEEeCCCCccHHHHHHHHhhhcc-----CceEeec---CHHHHHHHhhh------------HHHHHHHHHHHh
Confidence            465566699999999999999998887542     2233321   111 1111110            121222222222


Q ss_pred             hcCCccEEEEcCccccccccccCCCcCCCCcHHHHHHHHHHHHHHHHHHhccCcEEEEEcccchHh
Q 024705          195 KSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVKVLL  260 (264)
Q Consensus       195 ~~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r~i~~~L~~l~~~l~~~g~tVi~i~h~~~~~  260 (264)
                      +...|.+|++|.+.++.++..-++      .....|.+.+.|.+|-..-.+.|+.||..+.-=+.+
T Consensus       601 R~saPCVIFFDEiDaL~p~R~~~~------s~~s~RvvNqLLtElDGl~~R~gV~viaATNRPDiI  660 (802)
T KOG0733|consen  601 RASAPCVIFFDEIDALVPRRSDEG------SSVSSRVVNQLLTELDGLEERRGVYVIAATNRPDII  660 (802)
T ss_pred             hcCCCeEEEecchhhcCcccCCCC------chhHHHHHHHHHHHhcccccccceEEEeecCCCccc
Confidence            345799999999999997533222      235567788888888776677899999877644433

>PRK12727 flagellar biosynthesis regulator FlhF; Provisional

Probab=98.19  E-value=1.3e-05  Score=75.31  Aligned_cols=87  Identities=21%  Similarity=0.344  Sum_probs=59.4

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhc--CCeEEEEecCCCCCH--H----HHHHcCCCccceeEeCCCCHHHHH
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKL--GGYCAYLDVENALDP--S----LAEAMGIDAENLLIAQPDSAENLL  187 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~--g~~v~~~~~e~~~~~--~----~~~~~g~~~~~l~~~~~~~~ee~~  187 (264)
                      .+++|.++.|+||+|+||||++.+++..+...  +.+|.+++.|.....  .    +.+.+|+..     ....+..++.
T Consensus       346 ~l~~G~vIaLVGPtGvGKTTtaakLAa~la~~~~gkkVaLIdtDtyRigA~EQLk~ya~iLgv~v-----~~a~d~~~L~  420 (559)
T PRK12727        346 PLERGGVIALVGPTGAGKTTTIAKLAQRFAAQHAPRDVALVTTDTQRVGGREQLHSYGRQLGIAV-----HEADSAESLL  420 (559)
T ss_pred             cccCCCEEEEECCCCCCHHHHHHHHHHHHHHhcCCCceEEEecccccccHHHHHHHhhcccCcee-----EecCcHHHHH
Confidence            46789999999999999999999999887665  467999988753321  1    122233322     2233445555


Q ss_pred             HHHHHHhhcCCccEEEEcCcccc
Q 024705          188 SVVDTLTKSGSIDVIVVDSVAAL  210 (264)
Q Consensus       188 ~~i~~~~~~~~~~~vvIDsl~~~  210 (264)
                      ..+..+   .+.++|+||.....
T Consensus       421 ~aL~~l---~~~DLVLIDTaG~s  440 (559)
T PRK12727        421 DLLERL---RDYKLVLIDTAGMG  440 (559)
T ss_pred             HHHHHh---ccCCEEEecCCCcc
Confidence            555544   46899999988654

>KOG0733 consensus Nuclear AAA ATPase (VCP subfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=98.19  E-value=8.4e-06  Score=76.75  Aligned_cols=118  Identities=21%  Similarity=0.298  Sum_probs=71.2

Q ss_pred             CCCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCHHHHHHcCCCccceeEeCCCCHHHHHHHHHHHh
Q 024705          115 GGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLT  194 (264)
Q Consensus       115 gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~~~~~~~g~~~~~l~~~~~~~~ee~~~~i~~~~  194 (264)
                      -|+.|..=+++.||||||||.||..++.++   +-+.+-++.-+     ..  -|+.        -.+-+.+.+.++.. 
T Consensus       218 lGv~PprGvLlHGPPGCGKT~lA~AiAgel---~vPf~~isApe-----iv--SGvS--------GESEkkiRelF~~A-  278 (802)
T KOG0733|consen  218 LGVRPPRGVLLHGPPGCGKTSLANAIAGEL---GVPFLSISAPE-----IV--SGVS--------GESEKKIRELFDQA-  278 (802)
T ss_pred             cCCCCCCceeeeCCCCccHHHHHHHHhhhc---CCceEeecchh-----hh--cccC--------cccHHHHHHHHHHH-
Confidence            478887889999999999999999998865   22222222111     00  0111        12223444444443 


Q ss_pred             hcCCccEEEEcCccccccccccCCCcCCCCcHHHHHHHHHHHHHHHHHHhc--cCcEEEEEcccc
Q 024705          195 KSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQ--SHTLIIFLNQVK  257 (264)
Q Consensus       195 ~~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r~i~~~L~~l~~~l~~--~g~tVi~i~h~~  257 (264)
                      ....|.+++||.+.++.++.+      ..+.+..+|.+++.|.-+-..-.+  .|..|++|.-.+
T Consensus       279 ~~~aPcivFiDeIDAI~pkRe------~aqreMErRiVaQLlt~mD~l~~~~~~g~~VlVIgATn  337 (802)
T KOG0733|consen  279 KSNAPCIVFIDEIDAITPKRE------EAQREMERRIVAQLLTSMDELSNEKTKGDPVLVIGATN  337 (802)
T ss_pred             hccCCeEEEeecccccccchh------hHHHHHHHHHHHHHHHhhhcccccccCCCCeEEEecCC
Confidence            346899999999999997432      123445666677766655433322  366777765443

>cd03240 ABC_Rad50 The catalytic domains of Rad50 are similar to the ATP-binding cassette of ABC transporters, but are not associated with membrane-spanning domains

Probab=98.18  E-value=5.1e-06  Score=69.49  Aligned_cols=48  Identities=8%  Similarity=0.217  Sum_probs=32.6

Q ss_pred             CCccEEEEcCccccccccccCCCcCCCCcHHHHH-HHHHHHHHHHHHHhccCcEEEEEcccchHh
Q 024705          197 GSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSR-IMTQALRKIHYSLCQSHTLIIFLNQVKVLL  260 (264)
Q Consensus       197 ~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r-~i~~~L~~l~~~l~~~g~tVi~i~h~~~~~  260 (264)
                      .+++++++|....-...             ...+ .+.+.+.++.   ++.+.+||+++|....+
T Consensus       138 ~~p~illlDEP~~~LD~-------------~~~~~~l~~~l~~~~---~~~~~~iiiitH~~~~~  186 (204)
T cd03240         138 SNCGILALDEPTTNLDE-------------ENIEESLAEIIEERK---SQKNFQLIVITHDEELV  186 (204)
T ss_pred             cCCCEEEEcCCccccCH-------------HHHHHHHHHHHHHHH---hccCCEEEEEEecHHHH
Confidence            57899999987766521             2333 4555665554   44588999999987654

The conserved ATP-binding motifs common to Rad50 and the ABC transporter family include the Walker A and Walker B motifs, the Q loop, a histidine residue in the switch region, a D-loop, and a conserved LSGG sequence. This conserved sequence, LSGG, is the most specific and characteristic motif of this family and is thus known as the ABC signature sequence.

>TIGR00750 lao LAO/AO transport system ATPase

Probab=98.18  E-value=2.4e-05  Score=69.34  Aligned_cols=45  Identities=24%  Similarity=0.196  Sum_probs=39.9

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCC
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENAL  160 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~  160 (264)
                      -..++.++.|.|+||+|||||+..++..+...|.++.+++.+...
T Consensus        30 ~~~~~~~i~i~G~~G~GKttl~~~l~~~~~~~~~~v~~i~~D~~~   74 (300)
T TIGR00750        30 YTGNAHRVGITGTPGAGKSTLLEALGMELRRRGLKVAVIAVDPSS   74 (300)
T ss_pred             ccCCceEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEecCCCC
Confidence            445789999999999999999999999988889999999988554

Mutations have also been found that do not phosphorylate the periplasmic binding proteins, yet still allow transport. The ATPase activity of this protein seems to be necessary, however.

>TIGR01271 CFTR_protein cystic fibrosis transmembrane conductor regulator (CFTR)

Probab=98.18  E-value=1.1e-05  Score=85.30  Aligned_cols=60  Identities=23%  Similarity=0.320  Sum_probs=42.2

Q ss_pred             CCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCC--C-HHHHHHcCCCccceeEe
Q 024705          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENAL--D-PSLAEAMGIDAENLLIA  178 (264)
Q Consensus       117 l~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~--~-~~~~~~~g~~~~~l~~~  178 (264)
                      +++|+.+.|+|++|||||||+..+..-.. .+|.+ +++.....  . ....+++++.+|+..++
T Consensus      1242 I~~GekvaIvGrSGsGKSTLl~lL~rl~~-~~G~I-~IdG~di~~i~~~~lR~~is~IpQdp~LF 1304 (1490)
T TIGR01271      1242 VEGGQRVGLLGRTGSGKSTLLSALLRLLS-TEGEI-QIDGVSWNSVTLQTWRKAFGVIPQKVFIF 1304 (1490)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhhhcC-CCcEE-EECCEEcccCCHHHHHhceEEEeCCCccC
Confidence            78999999999999999999988888764 45544 55543221  1 24556677777765443

The model describes the cystis fibrosis transmembrane conductor regulator (CFTR) in eukaryotes. The principal role of this protein is chloride ion conductance. The protein is predicted to consist of 12 transmembrane domains. Mutations or lesions in the genetic loci have been linked to the aetiology of asthma, bronchiectasis, chronic obstructive pulmonary disease etc. Disease-causing mutations have been studied by 36Cl efflux assays in vitro cell cultures and electrophysiology, all of which point to the impairment of chloride channel stability and not the biosynthetic processing per se.

>KOG0057 consensus Mitochondrial Fe/S cluster exporter, ABC superfamily [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.17  E-value=1.7e-05  Score=73.95  Aligned_cols=60  Identities=25%  Similarity=0.463  Sum_probs=42.2

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCC---HHHHHHcCCCccceeE
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALD---PSLAEAMGIDAENLLI  177 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~---~~~~~~~g~~~~~l~~  177 (264)
                      -+++|+-+.|.|+|||||||++..+..-.. ..|. ++++.-+-..   ....+.+|+.||+-.+
T Consensus       374 ~I~kGekVaIvG~nGsGKSTilr~LlrF~d-~sG~-I~IdG~dik~~~~~SlR~~Ig~VPQd~~L  436 (591)
T KOG0057|consen  374 TIPKGEKVAIVGSNGSGKSTILRLLLRFFD-YSGS-ILIDGQDIKEVSLESLRQSIGVVPQDSVL  436 (591)
T ss_pred             EecCCCEEEEECCCCCCHHHHHHHHHHHhc-cCCc-EEECCeeHhhhChHHhhhheeEeCCcccc
Confidence            589999999999999999998887776555 4444 4555433221   1456678988885433

>PRK07721 fliI flagellum-specific ATP synthase; Validated

Probab=98.17  E-value=1.1e-05  Score=74.77  Aligned_cols=157  Identities=15%  Similarity=0.168  Sum_probs=87.2

Q ss_pred             CCCCccccCcHHHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCH-HH-HHHcCCC--
Q 024705           96 RRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP-SL-AEAMGID--  171 (264)
Q Consensus        96 ~~~~~i~tG~~~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~-~~-~~~~g~~--  171 (264)
                      ...+.+.||+..+|.++.   +.+|+.+.|.|++|+|||||+..++..... ...++.+..+...+- .. .+.++-.  
T Consensus       137 ~i~~~l~tg~~vid~l~~---i~~Gq~i~I~G~sG~GKStLl~~I~~~~~~-~~gvI~~~Gerg~ev~e~~~~~l~~~~l  212 (438)
T PRK07721        137 PIREPMEVGVRAIDSLLT---VGKGQRVGIFAGSGVGKSTLMGMIARNTSA-DLNVIALIGERGREVREFIERDLGPEGL  212 (438)
T ss_pred             Ccccccccchhhhheeee---ecCCcEEEEECCCCCCHHHHHHHHhcccCC-CeEEEEEEecCCccHHHHHHhhcChhhh
Confidence            345678999999999975   899999999999999999998777665433 333444433333221 11 1112211  


Q ss_pred             ccceeEeC--CCC-HHHH------HHHHHHHhhcCCccEEEEcCcccccccc-cc---CCCcC--CCCcHHHHHHHHHHH
Q 024705          172 AENLLIAQ--PDS-AENL------LSVVDTLTKSGSIDVIVVDSVAALIPKC-EI---GVPIN--GMYSDAQSRIMTQAL  236 (264)
Q Consensus       172 ~~~l~~~~--~~~-~ee~------~~~i~~~~~~~~~~~vvIDsl~~~~~~~-~~---~~~~~--~~~~~~q~r~i~~~L  236 (264)
                      .+.+.+..  ..+ ...+      ....+.....++--++++||++.+.... +.   .+++.  ..+++.....+.+.+
T Consensus       213 ~r~v~vv~~~~~~~~~r~~~~~~a~~iAEyfr~~g~~Vll~~Dsltr~A~A~rEisl~~ge~P~~~G~dp~~~~~l~~ll  292 (438)
T PRK07721        213 KRSIVVVATSDQPALMRIKGAYTATAIAEYFRDQGLNVMLMMDSVTRVAMAQREIGLAVGEPPTTKGYTPSVFAILPKLL  292 (438)
T ss_pred             cCeEEEEECCCCCHHHHHHHHHHHHHHHHHHHHCCCcEEEEEeChHHHHHHHHHHHHhcCCCCccccCCHHHHHHHHHHH
Confidence            11222221  111 1211      1122333344555578899999876311 11   12322  123344444555555


Q ss_pred             HHHHHHHhccCc-----EEEEEcccch
Q 024705          237 RKIHYSLCQSHT-----LIIFLNQVKV  258 (264)
Q Consensus       237 ~~l~~~l~~~g~-----tVi~i~h~~~  258 (264)
                      .++..  .+.|.     ||++.+|..+
T Consensus       293 er~~~--~~~GsIT~~~TVlv~~hdm~  317 (438)
T PRK07721        293 ERTGT--NASGSITAFYTVLVDGDDMN  317 (438)
T ss_pred             HHhcC--CCCCCeeeEEEEEEECCCCC
Confidence            55531  13575     9999999765

>KOG0055 consensus Multidrug/pheromone exporter, ABC superfamily [Secondary metabolites biosynthesis, transport and catabolism]

Probab=98.17  E-value=1.7e-05  Score=80.26  Aligned_cols=58  Identities=22%  Similarity=0.306  Sum_probs=40.1

Q ss_pred             CCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCH---HHHHHcCCCccce
Q 024705          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP---SLAEAMGIDAENL  175 (264)
Q Consensus       117 l~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~---~~~~~~g~~~~~l  175 (264)
                      +++|+.+.|.||+||||||+...+..-..+ ..+-++++.+.-..-   .....+|+..|..
T Consensus       376 i~~G~~valVG~SGsGKST~i~LL~RfydP-~~G~V~idG~di~~~~~~~lr~~iglV~QeP  436 (1228)
T KOG0055|consen  376 IPSGQTVALVGPSGSGKSTLIQLLARFYDP-TSGEVLIDGEDIRNLNLKWLRSQIGLVSQEP  436 (1228)
T ss_pred             eCCCCEEEEECCCCCCHHHHHHHHHHhcCC-CCceEEEcCccchhcchHHHHhhcCeeeech
Confidence            799999999999999999965555544444 444567776554332   3456788776653

>CHL00195 ycf46 Ycf46; Provisional

Probab=98.17  E-value=2.7e-05  Score=73.22  Aligned_cols=120  Identities=18%  Similarity=0.188  Sum_probs=67.1

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCHHHHHHcCCCccceeEeCCCCHHHHHHHHHHHhh
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTK  195 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~~~~~~~g~~~~~l~~~~~~~~ee~~~~i~~~~~  195 (264)
                      |++...-++++||||+|||+++..++...   +.+.+.++...-.    ...+|            ..+..+..+-...+
T Consensus       255 gl~~pkGILL~GPpGTGKTllAkaiA~e~---~~~~~~l~~~~l~----~~~vG------------ese~~l~~~f~~A~  315 (489)
T CHL00195        255 GLPTPRGLLLVGIQGTGKSLTAKAIANDW---QLPLLRLDVGKLF----GGIVG------------ESESRMRQMIRIAE  315 (489)
T ss_pred             CCCCCceEEEECCCCCcHHHHHHHHHHHh---CCCEEEEEhHHhc----ccccC------------hHHHHHHHHHHHHH
Confidence            66777779999999999999999998865   4444444421100    00011            11222222222233


Q ss_pred             cCCccEEEEcCccccccccccCCCcCCCCcHHHHHHHHHHHHHHHHHHhccCcEEEEEcccchHhh
Q 024705          196 SGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVKVLLL  261 (264)
Q Consensus       196 ~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r~i~~~L~~l~~~l~~~g~tVi~i~h~~~~~~  261 (264)
                      ...+.+++||.+..++......     ..++...+.+..++..+..  ++.++.||.+++..+.++
T Consensus       316 ~~~P~IL~IDEID~~~~~~~~~-----~d~~~~~rvl~~lL~~l~~--~~~~V~vIaTTN~~~~Ld  374 (489)
T CHL00195        316 ALSPCILWIDEIDKAFSNSESK-----GDSGTTNRVLATFITWLSE--KKSPVFVVATANNIDLLP  374 (489)
T ss_pred             hcCCcEEEehhhhhhhccccCC-----CCchHHHHHHHHHHHHHhc--CCCceEEEEecCChhhCC
Confidence            4578999999999887421111     1223444545555554431  234677777776554443

>KOG0730 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=98.17  E-value=4.9e-06  Score=78.85  Aligned_cols=121  Identities=21%  Similarity=0.218  Sum_probs=77.5

Q ss_pred             CCCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCHHHHHHcCCCccceeEeCCCCHHHHHHHHHHHh
Q 024705          115 GGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLT  194 (264)
Q Consensus       115 gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~~~~~~~g~~~~~l~~~~~~~~ee~~~~i~~~~  194 (264)
                      =|+.+..=++++||||||||+++..++..+.   -.-+++...+-    ....+|            ..|..+..+-...
T Consensus       463 ~Gi~ppkGVLlyGPPGC~KT~lAkalAne~~---~nFlsvkgpEL----~sk~vG------------eSEr~ir~iF~kA  523 (693)
T KOG0730|consen  463 FGISPPKGVLLYGPPGCGKTLLAKALANEAG---MNFLSVKGPEL----FSKYVG------------ESERAIREVFRKA  523 (693)
T ss_pred             hcCCCCceEEEECCCCcchHHHHHHHhhhhc---CCeeeccCHHH----HHHhcC------------chHHHHHHHHHHH
Confidence            3577778899999999999999999988653   23333332221    111122            1233333332333


Q ss_pred             hcCCccEEEEcCccccccccccCCCcCCCCcHHHHHHHHHHHHHHHHHHhccCcEEEEEcccchHh
Q 024705          195 KSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVKVLL  260 (264)
Q Consensus       195 ~~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r~i~~~L~~l~~~l~~~g~tVi~i~h~~~~~  260 (264)
                      ++..+.++++|.+.++...  ..++.    .+.+-|.+++.|.++-..-...++.||.-+.--+.+
T Consensus       524 R~~aP~IiFfDEiDsi~~~--R~g~~----~~v~~RVlsqLLtEmDG~e~~k~V~ViAATNRpd~I  583 (693)
T KOG0730|consen  524 RQVAPCIIFFDEIDALAGS--RGGSS----SGVTDRVLSQLLTEMDGLEALKNVLVIAATNRPDMI  583 (693)
T ss_pred             hhcCCeEEehhhHHhHhhc--cCCCc----cchHHHHHHHHHHHcccccccCcEEEEeccCChhhc
Confidence            3457799999999998742  22222    256778899999999877777788888766544443

>PRK06731 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=98.16  E-value=1.9e-05  Score=68.80  Aligned_cols=88  Identities=10%  Similarity=0.214  Sum_probs=62.7

Q ss_pred             CCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCH------HHHHHcCCCccceeEeCCCCHHHHHHHHHH
Q 024705          119 KGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP------SLAEAMGIDAENLLIAQPDSAENLLSVVDT  192 (264)
Q Consensus       119 ~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~------~~~~~~g~~~~~l~~~~~~~~ee~~~~i~~  192 (264)
                      +|+.+.+.|++|+||||++..++..+...+.++.+++.+.....      .+++.++++     +....+.+++...+..
T Consensus        74 ~~~~i~~~G~~g~GKTtl~~~l~~~l~~~~~~v~~i~~D~~ri~~~~ql~~~~~~~~~~-----~~~~~~~~~l~~~l~~  148 (270)
T PRK06731         74 EVQTIALIGPTGVGKTTTLAKMAWQFHGKKKTVGFITTDHSRIGTVQQLQDYVKTIGFE-----VIAVRDEAAMTRALTY  148 (270)
T ss_pred             CCCEEEEECCCCCcHHHHHHHHHHHHHHcCCeEEEEecCCCCHHHHHHHHHHhhhcCce-----EEecCCHHHHHHHHHH
Confidence            66899999999999999999999988777889999998754321      122333332     2223455666666655


Q ss_pred             HhhcCCccEEEEcCccccc
Q 024705          193 LTKSGSIDVIVVDSVAALI  211 (264)
Q Consensus       193 ~~~~~~~~~vvIDsl~~~~  211 (264)
                      +....+.++|+||......
T Consensus       149 l~~~~~~D~ViIDt~Gr~~  167 (270)
T PRK06731        149 FKEEARVDYILIDTAGKNY  167 (270)
T ss_pred             HHhcCCCCEEEEECCCCCc
Confidence            5444578999999887664

>TIGR00954 3a01203 Peroxysomal Fatty Acyl CoA Transporter (FAT) Family protei

Probab=98.16  E-value=1e-05  Score=79.18  Aligned_cols=35  Identities=26%  Similarity=0.333  Sum_probs=28.7

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCe
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGY  150 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~  150 (264)
                      -+++|+.+.|.||||||||||+..++......+|.
T Consensus       474 ~i~~Ge~~~IvG~nGsGKSTLl~lL~Gl~~~~~G~  508 (659)
T TIGR00954       474 EVPSGNHLLICGPNGCGKSSLFRILGELWPVYGGR  508 (659)
T ss_pred             EECCCCEEEEECCCCCCHHHHHHHHhCCCCCCCCe
Confidence            37899999999999999999998887765444443

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

Probab=98.15  E-value=1.2e-05  Score=72.78  Aligned_cols=86  Identities=23%  Similarity=0.286  Sum_probs=65.7

Q ss_pred             CCCcEEEEEecCCCChHHHHHHHHHHHh--hcCCeEEEEecCCCCC----H--HHHHHcCCCccceeEeCCCCHHHHHHH
Q 024705          118 PKGRIVEIYGREASGKTTLALHVIKEAQ--KLGGYCAYLDVENALD----P--SLAEAMGIDAENLLIAQPDSAENLLSV  189 (264)
Q Consensus       118 ~~G~~~~I~G~~GsGKTtl~~~l~~~~~--~~g~~v~~~~~e~~~~----~--~~~~~~g~~~~~l~~~~~~~~ee~~~~  189 (264)
                      .++.++.+.||.|+||||.+..+++...  ....+|.+++.|.-.-    +  .+++-+|++..-     ..++.++...
T Consensus       201 ~~~~vi~LVGPTGVGKTTTlAKLAar~~~~~~~~kVaiITtDtYRIGA~EQLk~Ya~im~vp~~v-----v~~~~el~~a  275 (407)
T COG1419         201 EQKRVIALVGPTGVGKTTTLAKLAARYVMLKKKKKVAIITTDTYRIGAVEQLKTYADIMGVPLEV-----VYSPKELAEA  275 (407)
T ss_pred             ccCcEEEEECCCCCcHHHHHHHHHHHHHhhccCcceEEEEeccchhhHHHHHHHHHHHhCCceEE-----ecCHHHHHHH
Confidence            3489999999999999999999999887  4567899999876422    2  356677777544     4567888877


Q ss_pred             HHHHhhcCCccEEEEcCccccc
Q 024705          190 VDTLTKSGSIDVIVVDSVAALI  211 (264)
Q Consensus       190 i~~~~~~~~~~~vvIDsl~~~~  211 (264)
                      +..+   ..+++|+||....-.
T Consensus       276 i~~l---~~~d~ILVDTaGrs~  294 (407)
T COG1419         276 IEAL---RDCDVILVDTAGRSQ  294 (407)
T ss_pred             HHHh---hcCCEEEEeCCCCCc
Confidence            7766   467999999876443

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	264
3hr8_A	356	Crystal Structure Of Thermotoga Maritima Reca Lengt		2e-44
1ubc_A	349	Structure Of Reca Protein Length = 349		4e-43
2zr0_A	349	Msreca-Q196e Mutant Length = 349		1e-42
3cmu_A	2050	Mechanism Of Homologous Recombination From The Reca		1e-42
1u94_A	356	Crystal Structure Of E. Coli Reca In A Compressed H		1e-42
2rec_A	353	Reca Hexamer Model, Electron Microscopy Length = 35		1e-42
1n03_A	352	Model For Active Reca Filament Length = 352		1e-42
3cmt_A	1706	Mechanism Of Homologous Recombination From The Reca		2e-42
3cmv_A	1357	Mechanism Of Homologous Recombination From The Reca		2e-42
2zrc_A	349	Msreca Q196n Form Iv Length = 349		2e-42
2zrh_A	349	Msreca Q196a Form Iv Length = 349		3e-42
1g18_A	350	Reca-Adp-Alf4 Complex Length = 350		4e-42
1xp8_A	366	"deinococcus Radiodurans Reca In Complex With Atp-G		1e-41
2cvf_A	220	Crystal Structure Of The Radb Recombinase Length =		5e-06
4b2i_A	231	Humanised Monomeric Rada In Complex With Indazole L		8e-05
4a6p_A	231	Rada C-Terminal Atpase Domain From Pyrococcus Furio		8e-05
1pzn_A	349	Rad51 (Rada) Length = 349		8e-05
2w0m_A	235	Crystal Structure Of Sso2452 From Sulfolobus Solfat		9e-05
1szp_A	321	A Crystal Structure Of The Rad51 Filament Length =		1e-04
3lda_A	400	Yeast Rad51 H352y Filament Interface Mutant Length		3e-04

>pdb|3HR8|A Chain A, Crystal Structure Of Thermotoga Maritima Reca Length = 356

Iteration: 1
 Score =  175 bits (444), Expect = 2e-44,   Method: Compositional matrix adjust.
 Identities = 89/194 (45%), Positives = 128/194 (65%)
Query: 65  QKDNALRLALSQLANDFGKESMLSLKRFFGSRRGPVISTGSLKLDLALGIGGLPKGRIVE 124
           QK + L  AL ++  +FGK S++ L      +   VI TGSL +D+A G+GG P+GRIVE
Sbjct: 6   QKKSVLEKALKRIEENFGKGSIMILGDETQVQPVEVIPTGSLAIDIATGVGGYPRGRIVE 65
Query: 125 IYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAE 184
           I+G+E+SGKTTLALH I EAQK+GG  A++D E+ALDP  A+ +G+D ++LLI+QPD  E
Sbjct: 66  IFGQESSGKTTLALHAIAEAQKMGGVAAFIDAEHALDPVYAKNLGVDLKSLLISQPDHGE 125
Query: 185 NLLSVVDTLTKSGXXXXXXXXXXXXLIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLC 244
             L +VD L +SG            L+P+ EI   +  M    Q+R+M+QALRKI  S+ 
Sbjct: 126 QALEIVDELVRSGVVDLIVVDSVAALVPRAEIEGAMGDMQVGLQARLMSQALRKIAGSVN 185
Query: 245 QSHTLIIFLNQVKV 258
           +S  ++IF NQ+++
Sbjct: 186 KSKAVVIFTNQIRM 199

>pdb|1UBC|A Chain A, Structure Of Reca Protein Length = 349

Iteration: 1
 Score =  171 bits (433), Expect = 4e-43,   Method: Compositional matrix adjust.
 Identities = 86/194 (44%), Positives = 127/194 (65%), Gaps = 5/194 (2%)
Query: 66  KDNALRLALSQLANDFGKESMLSLKRFFGSRRGP--VISTGSLKLDLALGIGGLPKGRIV 123
           ++ AL LA++Q+  +FGK S++ L       R P  VI TGS+ LD+ALGIGGLP+GR++
Sbjct: 8   REKALELAMAQIDKNFGKGSVMRLGE---EVRQPISVIPTGSISLDVALGIGGLPRGRVI 64
Query: 124 EIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSA 183
           EIYG E+SGKTT+ALH +  AQ  GG  A++D E+ALDP  A+ +G+D ++LL++QPD+ 
Sbjct: 65  EIYGPESSGKTTVALHAVANAQAAGGIAAFIDAEHALDPEYAKKLGVDTDSLLVSQPDTG 124
Query: 184 ENLLSVVDTLTKSGXXXXXXXXXXXXLIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSL 243
           E  L + D L +SG            L+P+ EI   +   +   Q+R+M+QALRK+  +L
Sbjct: 125 EQALEIADMLVRSGALDIIVIDSVAALVPRAEIEGEMGDSHVGLQARLMSQALRKMTGAL 184
Query: 244 CQSHTLIIFLNQVK 257
             S T  IF+NQ++
Sbjct: 185 NNSGTTAIFINQLR 198

>pdb|2ZR0|A Chain A, Msreca-Q196e Mutant Length = 349

Iteration: 1
 Score =  169 bits (429), Expect = 1e-42,   Method: Compositional matrix adjust.
 Identities = 85/194 (43%), Positives = 127/194 (65%), Gaps = 5/194 (2%)
Query: 66  KDNALRLALSQLANDFGKESMLSLKRFFGSRRGP--VISTGSLKLDLALGIGGLPKGRIV 123
           ++ AL LA++Q+  +FGK S++ L       R P  VI TGS+ LD+ALGIGGLP+GR++
Sbjct: 8   REKALELAMAQIDKNFGKGSVMRLGE---EVRQPISVIPTGSISLDVALGIGGLPRGRVI 64
Query: 124 EIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSA 183
           EIYG E+SGKTT+ALH +  AQ  GG  A++D E+ALDP  A+ +G+D ++LL++QPD+ 
Sbjct: 65  EIYGPESSGKTTVALHAVANAQAAGGIAAFIDAEHALDPEYAKKLGVDTDSLLVSQPDTG 124
Query: 184 ENLLSVVDTLTKSGXXXXXXXXXXXXLIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSL 243
           E  L + D L +SG            L+P+ EI   +   +   Q+R+M+QALRK+  +L
Sbjct: 125 EQALEIADMLVRSGALDIIVIDSVAALVPRAEIEGEMGDSHVGLQARLMSQALRKMTGAL 184
Query: 244 CQSHTLIIFLNQVK 257
             S T  IF+N+++
Sbjct: 185 NNSGTTAIFINELR 198

>pdb|3CMU|A Chain A, Mechanism Of Homologous Recombination From The Reca- SsdnaDSDNA STRUCTURES Length = 2050

Iteration: 1
 Score =  169 bits (429), Expect = 1e-42,   Method: Compositional matrix adjust.
 Identities = 93/196 (47%), Positives = 122/196 (62%), Gaps = 7/196 (3%)
Query: 66  KDNALRLALSQLANDFGKESMLSLKRFFGSRRG---PVISTGSLKLDLALGIGGLPKGRI 122
           K  AL  AL Q+   FGK S++ L    G  R      ISTGSL LD+ALG GGLP GRI
Sbjct: 330 KQKALAAALGQIEKQFGKGSIMRL----GEDRSMDVETISTGSLSLDIALGAGGLPMGRI 385
Query: 123 VEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDS 182
           VEIYG E+SGKTTL L VI  AQ+ G  CA++D E+ALDP  A  +G+D +NLL +QPD+
Sbjct: 386 VEIYGPESSGKTTLTLQVIAAAQREGKTCAFIDAEHALDPIYARKLGVDIDNLLCSQPDT 445
Query: 183 AENLLSVVDTLTKSGXXXXXXXXXXXXLIPKCEIGVPINGMYSDAQSRIMTQALRKIHYS 242
            E  L + D L +SG            L PK EI   I   +    +R+M+QA+RK+  +
Sbjct: 446 GEQALEICDALARSGAVDVIVVDSVAALTPKAEIEGEIGDSHMGLAARMMSQAMRKLAGN 505
Query: 243 LCQSHTLIIFLNQVKV 258
           L QS+TL+IF+NQ+++
Sbjct: 506 LKQSNTLLIFINQIRM 521

>pdb|1U94|A Chain A, Crystal Structure Of E. Coli Reca In A Compressed Helical Filament Form 2 Length = 356

Iteration: 1
 Score =  169 bits (429), Expect = 1e-42,   Method: Compositional matrix adjust.
 Identities = 93/196 (47%), Positives = 122/196 (62%), Gaps = 7/196 (3%)
Query: 66  KDNALRLALSQLANDFGKESMLSLKRFFGSRRG---PVISTGSLKLDLALGIGGLPKGRI 122
           K  AL  AL Q+   FGK S++ L    G  R      ISTGSL LD+ALG GGLP GRI
Sbjct: 10  KQKALAAALGQIEKQFGKGSIMRL----GEDRSMDVETISTGSLSLDIALGAGGLPMGRI 65
Query: 123 VEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDS 182
           VEIYG E+SGKTTL L VI  AQ+ G  CA++D E+ALDP  A  +G+D +NLL +QPD+
Sbjct: 66  VEIYGPESSGKTTLTLQVIAAAQREGKTCAFIDAEHALDPIYARKLGVDIDNLLCSQPDT 125
Query: 183 AENLLSVVDTLTKSGXXXXXXXXXXXXLIPKCEIGVPINGMYSDAQSRIMTQALRKIHYS 242
            E  L + D L +SG            L PK EI   I   +    +R+M+QA+RK+  +
Sbjct: 126 GEQALEICDALARSGAVDVIVVDSVAALTPKAEIEGEIGDSHMGLAARMMSQAMRKLAGN 185
Query: 243 LCQSHTLIIFLNQVKV 258
           L QS+TL+IF+NQ+++
Sbjct: 186 LKQSNTLLIFINQIRM 201

>pdb|2REC|A Chain A, Reca Hexamer Model, Electron Microscopy Length = 353

Iteration: 1
 Score =  169 bits (428), Expect = 1e-42,   Method: Compositional matrix adjust.
 Identities = 93/196 (47%), Positives = 122/196 (62%), Gaps = 7/196 (3%)
Query: 66  KDNALRLALSQLANDFGKESMLSLKRFFGSRRG---PVISTGSLKLDLALGIGGLPKGRI 122
           K  AL  AL Q+   FGK S++ L    G  R      ISTGSL LD+ALG GGLP GRI
Sbjct: 7   KQKALAAALGQIEKQFGKGSIMRL----GEDRSMDVETISTGSLSLDIALGAGGLPMGRI 62
Query: 123 VEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDS 182
           VEIYG E+SGKTTL L VI  AQ+ G  CA++D E+ALDP  A  +G+D +NLL +QPD+
Sbjct: 63  VEIYGPESSGKTTLTLQVIAAAQREGKTCAFIDAEHALDPIYARKLGVDIDNLLCSQPDT 122
Query: 183 AENLLSVVDTLTKSGXXXXXXXXXXXXLIPKCEIGVPINGMYSDAQSRIMTQALRKIHYS 242
            E  L + D L +SG            L PK EI   I   +    +R+M+QA+RK+  +
Sbjct: 123 GEQALEICDALARSGAVDVIVVDSVAALTPKAEIEGEIGDSHMGLAARMMSQAMRKLAGN 182
Query: 243 LCQSHTLIIFLNQVKV 258
           L QS+TL+IF+NQ+++
Sbjct: 183 LKQSNTLLIFINQIRM 198

>pdb|1N03|A Chain A, Model For Active Reca Filament Length = 352

Iteration: 1
 Score =  169 bits (428), Expect = 1e-42,   Method: Compositional matrix adjust.
 Identities = 93/196 (47%), Positives = 122/196 (62%), Gaps = 7/196 (3%)
Query: 66  KDNALRLALSQLANDFGKESMLSLKRFFGSRRG---PVISTGSLKLDLALGIGGLPKGRI 122
           K  AL  AL Q+   FGK S++ L    G  R      ISTGSL LD+ALG GGLP GRI
Sbjct: 6   KQKALAAALGQIEKQFGKGSIMRL----GEDRSMDVETISTGSLSLDIALGAGGLPMGRI 61
Query: 123 VEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDS 182
           VEIYG E+SGKTTL L VI  AQ+ G  CA++D E+ALDP  A  +G+D +NLL +QPD+
Sbjct: 62  VEIYGPESSGKTTLTLQVIAAAQREGKTCAFIDAEHALDPIYARKLGVDIDNLLCSQPDT 121
Query: 183 AENLLSVVDTLTKSGXXXXXXXXXXXXLIPKCEIGVPINGMYSDAQSRIMTQALRKIHYS 242
            E  L + D L +SG            L PK EI   I   +    +R+M+QA+RK+  +
Sbjct: 122 GEQALEICDALARSGAVDVIVVDSVAALTPKAEIEGEIGDSHMGLAARMMSQAMRKLAGN 181
Query: 243 LCQSHTLIIFLNQVKV 258
           L QS+TL+IF+NQ+++
Sbjct: 182 LKQSNTLLIFINQIRM 197

>pdb|3CMT|A Chain A, Mechanism Of Homologous Recombination From The Reca- SsdnaDSDNA STRUCTURES Length = 1706

Iteration: 1
 Score =  169 bits (428), Expect = 2e-42,   Method: Compositional matrix adjust.
 Identities = 93/196 (47%), Positives = 122/196 (62%), Gaps = 7/196 (3%)
Query: 66  KDNALRLALSQLANDFGKESMLSLKRFFGSRRG---PVISTGSLKLDLALGIGGLPKGRI 122
           K  AL  AL Q+   FGK S++ L    G  R      ISTGSL LD+ALG GGLP GRI
Sbjct: 330 KQKALAAALGQIEKQFGKGSIMRL----GEDRSMDVETISTGSLSLDIALGAGGLPMGRI 385
Query: 123 VEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDS 182
           VEIYG E+SGKTTL L VI  AQ+ G  CA++D E+ALDP  A  +G+D +NLL +QPD+
Sbjct: 386 VEIYGPESSGKTTLTLQVIAAAQREGKTCAFIDAEHALDPIYARKLGVDIDNLLCSQPDT 445
Query: 183 AENLLSVVDTLTKSGXXXXXXXXXXXXLIPKCEIGVPINGMYSDAQSRIMTQALRKIHYS 242
            E  L + D L +SG            L PK EI   I   +    +R+M+QA+RK+  +
Sbjct: 446 GEQALEICDALARSGAVDVIVVDSVAALTPKAEIEGEIGDSHMGLAARMMSQAMRKLAGN 505
Query: 243 LCQSHTLIIFLNQVKV 258
           L QS+TL+IF+NQ+++
Sbjct: 506 LKQSNTLLIFINQIRM 521

>pdb|3CMV|A Chain A, Mechanism Of Homologous Recombination From The Reca- SsdnaDSDNA STRUCTURES Length = 1357

Iteration: 1
 Score =  169 bits (427), Expect = 2e-42,   Method: Compositional matrix adjust.
 Identities = 93/196 (47%), Positives = 122/196 (62%), Gaps = 7/196 (3%)
Query: 66  KDNALRLALSQLANDFGKESMLSLKRFFGSRRG---PVISTGSLKLDLALGIGGLPKGRI 122
           K  AL  AL Q+   FGK S++ L    G  R      ISTGSL LD+ALG GGLP GRI
Sbjct: 330 KQKALAAALGQIEKQFGKGSIMRL----GEDRSMDVETISTGSLSLDIALGAGGLPMGRI 385
Query: 123 VEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDS 182
           VEIYG E+SGKTTL L VI  AQ+ G  CA++D E+ALDP  A  +G+D +NLL +QPD+
Sbjct: 386 VEIYGPESSGKTTLTLQVIAAAQREGKTCAFIDAEHALDPIYARKLGVDIDNLLCSQPDT 445
Query: 183 AENLLSVVDTLTKSGXXXXXXXXXXXXLIPKCEIGVPINGMYSDAQSRIMTQALRKIHYS 242
            E  L + D L +SG            L PK EI   I   +    +R+M+QA+RK+  +
Sbjct: 446 GEQALEICDALARSGAVDVIVVDSVAALTPKAEIEGEIGDSHMGLAARMMSQAMRKLAGN 505
Query: 243 LCQSHTLIIFLNQVKV 258
           L QS+TL+IF+NQ+++
Sbjct: 506 LKQSNTLLIFINQIRM 521

>pdb|2ZRC|A Chain A, Msreca Q196n Form Iv Length = 349

Iteration: 1
 Score =  169 bits (427), Expect = 2e-42,   Method: Compositional matrix adjust.
 Identities = 85/194 (43%), Positives = 126/194 (64%), Gaps = 5/194 (2%)
Query: 66  KDNALRLALSQLANDFGKESMLSLKRFFGSRRGP--VISTGSLKLDLALGIGGLPKGRIV 123
           ++ AL LA++Q+  +FGK S++ L       R P  VI TGS+ LD+ALGIGGLP+GR++
Sbjct: 8   REKALELAMAQIDKNFGKGSVMRLGE---EVRQPISVIPTGSISLDVALGIGGLPRGRVI 64
Query: 124 EIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSA 183
           EIYG E+SGKTT+ALH +  AQ  GG  A++D E+ALDP  A+ +G+D ++LL++QPD+ 
Sbjct: 65  EIYGPESSGKTTVALHAVANAQAAGGIAAFIDAEHALDPEYAKKLGVDTDSLLVSQPDTG 124
Query: 184 ENLLSVVDTLTKSGXXXXXXXXXXXXLIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSL 243
           E  L + D L +SG            L+P+ EI   +   +   Q+R+M+QALRK+  +L
Sbjct: 125 EQALEIADMLVRSGALDIIVIDSVAALVPRAEIEGEMGDSHVGLQARLMSQALRKMTGAL 184
Query: 244 CQSHTLIIFLNQVK 257
             S T  IF+N ++
Sbjct: 185 NNSGTTAIFINNLR 198

>pdb|2ZRH|A Chain A, Msreca Q196a Form Iv Length = 349

Iteration: 1
 Score =  168 bits (426), Expect = 3e-42,   Method: Compositional matrix adjust.
 Identities = 85/194 (43%), Positives = 126/194 (64%), Gaps = 5/194 (2%)
Query: 66  KDNALRLALSQLANDFGKESMLSLKRFFGSRRGP--VISTGSLKLDLALGIGGLPKGRIV 123
           ++ AL LA++Q+  +FGK S++ L       R P  VI TGS+ LD+ALGIGGLP+GR++
Sbjct: 8   REKALELAMAQIDKNFGKGSVMRLGE---EVRQPISVIPTGSISLDVALGIGGLPRGRVI 64
Query: 124 EIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSA 183
           EIYG E+SGKTT+ALH +  AQ  GG  A++D E+ALDP  A+ +G+D ++LL++QPD+ 
Sbjct: 65  EIYGPESSGKTTVALHAVANAQAAGGIAAFIDAEHALDPEYAKKLGVDTDSLLVSQPDTG 124
Query: 184 ENLLSVVDTLTKSGXXXXXXXXXXXXLIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSL 243
           E  L + D L +SG            L+P+ EI   +   +   Q+R+M+QALRK+  +L
Sbjct: 125 EQALEIADMLVRSGALDIIVIDSVAALVPRAEIEGEMGDSHVGLQARLMSQALRKMTGAL 184
Query: 244 CQSHTLIIFLNQVK 257
             S T  IF+N ++
Sbjct: 185 NNSGTTAIFINALR 198

>pdb|1G18|A Chain A, Reca-Adp-Alf4 Complex Length = 350

Iteration: 1
 Score =  167 bits (424), Expect = 4e-42,   Method: Compositional matrix adjust.
 Identities = 84/194 (43%), Positives = 126/194 (64%), Gaps = 5/194 (2%)
Query: 66  KDNALRLALSQLANDFGKESMLSLKRFFGSRRGP--VISTGSLKLDLALGIGGLPKGRIV 123
           ++ AL LA++Q+   +GK S++   R     R P  VI TGS+ LD+ALGIGGLP+GR++
Sbjct: 7   REKALELAVAQIEKSYGKGSVM---RLGDEARQPISVIPTGSIALDVALGIGGLPRGRVI 63
Query: 124 EIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSA 183
           EIYG E+SGKTT+ALH +  AQ  GG  A++D E+ALDP  A+ +G+D ++LL++QPD+ 
Sbjct: 64  EIYGPESSGKTTVALHAVANAQAAGGVAAFIDAEHALDPDYAKKLGVDTDSLLVSQPDTG 123
Query: 184 ENLLSVVDTLTKSGXXXXXXXXXXXXLIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSL 243
           E  L + D L +SG            L+P+ E+   +   +   Q+R+M+QALRK+  +L
Sbjct: 124 EQALEIADMLIRSGALDIVVIDSVAALVPRAELEGEMGDSHVGLQARLMSQALRKMTGAL 183
Query: 244 CQSHTLIIFLNQVK 257
             S T  IF+NQ++
Sbjct: 184 NNSGTTAIFINQLR 197

>pdb|1XP8|A Chain A, "deinococcus Radiodurans Reca In Complex With Atp-Gamma-S" Length = 366

Iteration: 1
 Score =  166 bits (421), Expect = 1e-41,   Method: Compositional matrix adjust.
 Identities = 88/201 (43%), Positives = 128/201 (63%), Gaps = 9/201 (4%)
Query: 60  DAKIMQKDNALRLALSQLANDFGKESMLSLKRFFGSRRG---PVISTGSLKLDLALGIGG 116
           DAK  ++  A+  A+SQ+   FGK S++ L    G+       V+STGSL LDLALG+GG
Sbjct: 17  DAK--ERSKAIETAMSQIEKAFGKGSIMKL----GAESKLDVQVVSTGSLSLDLALGVGG 70
Query: 117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLL 176
           +P+GRI EIYG E+ GKTTLAL ++ +AQK GG CA++D E+ALDP  A A+G++ + LL
Sbjct: 71  IPRGRITEIYGPESGGKTTLALAIVAQAQKAGGTCAFIDAEHALDPVYARALGVNTDELL 130
Query: 177 IAQPDSAENLLSVVDTLTKSGXXXXXXXXXXXXLIPKCEIGVPINGMYSDAQSRIMTQAL 236
           ++QPD+ E  L +++ L +SG            L P+ EI   +       Q+R+M+QAL
Sbjct: 131 VSQPDNGEQALEIMELLVRSGAIDVVVVDSVAALTPRAEIEGDMGDSLPGLQARLMSQAL 190
Query: 237 RKIHYSLCQSHTLIIFLNQVK 257
           RK+   L ++ T  IF+NQV+
Sbjct: 191 RKLTAILSKTGTAAIFINQVR 211

>pdb|2CVF|A Chain A, Crystal Structure Of The Radb Recombinase Length = 220

Iteration: 1
 Score = 48.1 bits (113), Expect = 5e-06,   Method: Compositional matrix adjust.
 Identities = 35/105 (33%), Positives = 51/105 (48%), Gaps = 12/105 (11%)
Query: 100 VISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENA 159
           ++STG+  LD  LG GG   G + ++YG  ASGKTTLAL         G   AY+D E  
Sbjct: 1   MLSTGTKSLDSLLG-GGFAPGVLTQVYGPYASGKTTLALQT---GLLSGKKVAYVDTEGG 56
Query: 160 LDPS----LAEAMGIDAE----NLLIAQPDSAENLLSVVDTLTKS 196
             P     +AE  G++ E      ++  P   +    V+ +L K+
Sbjct: 57  FSPERLVQMAETRGLNPEEALSRFILFTPSDFKEQRRVIGSLKKT 101

>pdb|4B2I|A Chain A, Humanised Monomeric Rada In Complex With Indazole Length = 231

Iteration: 1
 Score = 44.3 bits (103), Expect = 8e-05,   Method: Compositional matrix adjust.
 Identities = 31/86 (36%), Positives = 43/86 (50%), Gaps = 11/86 (12%)
Query: 101 ISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLA------LHVIKEAQKLGGYCAYL 154
           ISTGS  LD  LG GG+    I E++G   SGKT LA      + +  E   L G   ++
Sbjct: 7   ISTGSKSLDKLLG-GGIETQAITEVFGEFGSGKTQLAHTLAVMVQLPPEEGGLNGSVMWI 65
Query: 155 DVENALDP----SLAEAMGIDAENLL 176
           D EN   P     +A+  G+D + +L
Sbjct: 66  DTENTFRPERIREIAQNRGLDPDEVL 91

>pdb|4A6P|A Chain A, Rada C-Terminal Atpase Domain From Pyrococcus Furiosus Length = 231

Iteration: 1
 Score = 43.9 bits (102), Expect = 8e-05,   Method: Compositional matrix adjust.
 Identities = 31/86 (36%), Positives = 43/86 (50%), Gaps = 11/86 (12%)
Query: 101 ISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLA------LHVIKEAQKLGGYCAYL 154
           ISTGS  LD  LG GG+    I E++G   SGKT LA      + +  E   L G   ++
Sbjct: 7   ISTGSKSLDKLLG-GGIETQAITEVFGEFGSGKTQLAHTLAVMVQLPPEEGGLNGSVIWI 65
Query: 155 DVENALDP----SLAEAMGIDAENLL 176
           D EN   P     +A+  G+D + +L
Sbjct: 66  DTENTFRPERIREIAQNRGLDPDEVL 91

>pdb|1PZN|A Chain A, Rad51 (Rada) Length = 349

Iteration: 1
 Score = 43.9 bits (102), Expect = 8e-05,   Method: Compositional matrix adjust.
 Identities = 31/86 (36%), Positives = 43/86 (50%), Gaps = 11/86 (12%)
Query: 101 ISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLA------LHVIKEAQKLGGYCAYL 154
           ISTGS  LD  LG GG+    I E++G   SGKT LA      + +  E   L G   ++
Sbjct: 113 ISTGSKSLDKLLG-GGIETQAITEVFGEFGSGKTQLAHTLAVXVQLPPEEGGLNGSVIWI 171
Query: 155 DVENALDP----SLAEAMGIDAENLL 176
           D EN   P     +A+  G+D + +L
Sbjct: 172 DTENTFRPERIREIAQNRGLDPDEVL 197

>pdb|2W0M|A Chain A, Crystal Structure Of Sso2452 From Sulfolobus Solfataricus P2 Length = 235

Iteration: 1
 Score = 43.9 bits (102), Expect = 9e-05,   Method: Compositional matrix adjust.
 Identities = 28/96 (29%), Positives = 46/96 (47%), Gaps = 6/96 (6%)
Query: 101 ISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENAL 160
           +STG L  D  L  GG+P+G  + + G   +GKT  +LH I +  + G  C Y+  E + 
Sbjct: 5   LSTGILDFD-KLIQGGIPQGFFIALTGEPGTGKTIFSLHFIAKGLRDGDPCIYVTTEESR 63
Query: 161 DPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTKS 196
           D  + +A   + +       +  E  L ++D L K 
Sbjct: 64  DSIIRQAKQFNWDF-----EEYIEKKLIIIDALMKE 94

>pdb|1SZP|A Chain A, A Crystal Structure Of The Rad51 Filament Length = 321

Iteration: 1
 Score = 43.1 bits (100), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 37/115 (32%), Positives = 58/115 (50%), Gaps = 17/115 (14%)
Query: 93  FGSRRGPVI--STGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQ---KL 147
           F  RR  +I  +TGS  LD  LG GG+  G I E++G   +GK+ L   +    Q    +
Sbjct: 71  FHMRRSELICLTTGSKNLDTLLG-GGVETGSITELFGEFRTGKSQLCHTLAVTCQIPLDI 129
Query: 148 G---GYCAYLDVENALDP----SLAEAMGIDAE----NLLIAQPDSAENLLSVVD 191
           G   G C Y+D E    P    S+A+  G+D +    N+  A+  +A++ L ++D
Sbjct: 130 GGGEGKCLYIDTEGTFRPVRLVSIAQRFGLDPDDALNNVAYARAYNADHQLRLLD 184

>pdb|3LDA|A Chain A, Yeast Rad51 H352y Filament Interface Mutant Length = 400

Iteration: 1
 Score = 42.4 bits (98), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 37/115 (32%), Positives = 58/115 (50%), Gaps = 17/115 (14%)
Query: 93  FGSRRGPVI--STGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQ---KL 147
           F  RR  +I  +TGS  LD  LG GG+  G I E++G   +GK+ L   +    Q    +
Sbjct: 150 FHMRRSELICLTTGSKNLDTLLG-GGVETGSITELFGEFRTGKSQLCHTLAVTCQIPLDI 208
Query: 148 G---GYCAYLDVENALDP----SLAEAMGIDAE----NLLIAQPDSAENLLSVVD 191
           G   G C Y+D E    P    S+A+  G+D +    N+  A+  +A++ L ++D
Sbjct: 209 GGGEGKCLYIDTEGTFRPVRLVSIAQRFGLDPDDALNNVAYARAYNADHQLRLLD 263

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	264
3hr8_A	356	Protein RECA; alpha and beta proteins (A/B, A+B),	4e-84
2zr9_A	349	Protein RECA, recombinase A; recombination, RECA m	3e-83
1xp8_A	366	RECA protein, recombinase A; recombination, radior	6e-83
1u94_A	356	RECA protein, recombinase A; homologous recombinat	7e-83
3cmu_A	2050	Protein RECA, recombinase A; homologous recombinat	1e-77
3cmu_A	2050	Protein RECA, recombinase A; homologous recombinat	7e-77
3cmu_A	2050	Protein RECA, recombinase A; homologous recombinat	9e-77
3cmu_A	2050	Protein RECA, recombinase A; homologous recombinat	1e-76
3cmu_A	2050	Protein RECA, recombinase A; homologous recombinat	5e-76
3cmu_A	2050	Protein RECA, recombinase A; homologous recombinat	6e-71
3cmw_A	1706	Protein RECA, recombinase A; homologous recombinat	7e-77
3cmw_A	1706	Protein RECA, recombinase A; homologous recombinat	9e-77
3cmw_A	1706	Protein RECA, recombinase A; homologous recombinat	1e-76
3cmw_A	1706	Protein RECA, recombinase A; homologous recombinat	3e-76
3cmw_A	1706	Protein RECA, recombinase A; homologous recombinat	7e-71
3io5_A	333	Recombination and repair protein; storage dimer, i	1e-58
2z43_A	324	DNA repair and recombination protein RADA; archaea	3e-39
1v5w_A	343	DMC1, meiotic recombination protein DMC1/LIM15 hom	2e-38
3lda_A	400	DNA repair protein RAD51; DNA binding protein, ATP	1e-31
1pzn_A	349	RAD51, DNA repair and recombination protein RAD51,	3e-31
1n0w_A	243	DNA repair protein RAD51 homolog 1; DNA repair, ho	6e-28
2i1q_A	322	DNA repair and recombination protein RADA; ATPase,	2e-27
2cvh_A	220	DNA repair and recombination protein RADB; filamen	1e-18
1tf7_A	525	KAIC; homohexamer, hexamer, circadian clock protei	9e-13
1tf7_A	525	KAIC; homohexamer, hexamer, circadian clock protei	4e-09
2dr3_A	247	UPF0273 protein PH0284; RECA superfamily ATPase, h	3e-10
2w0m_A	235	SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus	8e-10
2ehv_A	251	Hypothetical protein PH0186; KAIC, RECA ATPase, un	1e-08
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	4e-07
3bs4_A	260	Uncharacterized protein PH0321; structural genomic	2e-05

>3hr8_A Protein RECA; alpha and beta proteins (A/B, A+B), ATP-binding, cytoplasm, damage, DNA recombination, DNA repair, DNA-binding; 1.95A {Thermotoga maritima} Length = 356

 Score =  254 bits (651), Expect = 4e-84
 Identities = 99/201 (49%), Positives = 139/201 (69%), Gaps = 8/201 (3%)

Query: 61  AKIMQKDNALRLALSQLANDFGKESMLSLKRFFGSRRGPVISTGSLKLDLALGIGGLPKG 120
            +  QK + L  AL ++  +FGK S++ L      +   VI TGSL +D+A G+GG P+G
Sbjct: 2   PEEKQKKSVLEKALKRIEENFGKGSIMILGDETQVQPVEVIPTGSLAIDIATGVGGYPRG 61

Query: 121 RIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQP 180
           RIVEI+G+E+SGKTTLALH I EAQK+GG  A++D E+ALDP  A+ +G+D ++LLI+QP
Sbjct: 62  RIVEIFGQESSGKTTLALHAIAEAQKMGGVAAFIDAEHALDPVYAKNLGVDLKSLLISQP 121

Query: 181 DSAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDA----QSRIMTQAL 236
           D  E  L +VD L +SG +D+IVVDSVAAL+P+ E    I G   D     Q+R+M+QAL
Sbjct: 122 DHGEQALEIVDELVRSGVVDLIVVDSVAALVPRAE----IEGAMGDMQVGLQARLMSQAL 177

Query: 237 RKIHYSLCQSHTLIIFLNQVK 257
           RKI  S+ +S  ++IF NQ++
Sbjct: 178 RKIAGSVNKSKAVVIFTNQIR 198

>2zr9_A Protein RECA, recombinase A; recombination, RECA mutants, DNA-repair, ATP-binding, DNA DA recombination, DNA repair, DNA-binding; HET: DTP; 2.50A {Mycobacterium smegmatis str} PDB: 2zr0_A* 2zra_A* 2zrb_A 2zrm_A* 1ubc_A* 1ubf_A* 1ubg_A* 1ube_A* 2g88_A* 2odw_A* 2oe2_A 2oep_A* 2oes_A 2ofo_A 2zr7_A 2odn_A* 2zrn_A 2zro_A* 2zrp_A* 2zre_A* ... Length = 349

 Score =  251 bits (644), Expect = 3e-83
 Identities = 94/200 (47%), Positives = 139/200 (69%), Gaps = 15/200 (7%)

Query: 65  QKDNALRLALSQLANDFGKESMLSLKRFFGSRRG---PVISTGSLKLDLALGIGGLPKGR 121
            ++ AL LA++Q+  +FGK S++ L    G        VI TGS+ LD+ALGIGGLP+GR
Sbjct: 7   DREKALELAMAQIDKNFGKGSVMRL----GEEVRQPISVIPTGSISLDVALGIGGLPRGR 62

Query: 122 IVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPD 181
           ++EIYG E+SGKTT+ALH +  AQ  GG  A++D E+ALDP  A+ +G+D ++LL++QPD
Sbjct: 63  VIEIYGPESSGKTTVALHAVANAQAAGGIAAFIDAEHALDPEYAKKLGVDTDSLLVSQPD 122

Query: 182 SAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDA----QSRIMTQALR 237
           + E  L + D L +SG++D+IV+DSVAAL+P+ E    I G   D+    Q+R+M+QALR
Sbjct: 123 TGEQALEIADMLVRSGALDIIVIDSVAALVPRAE----IEGEMGDSHVGLQARLMSQALR 178

Query: 238 KIHYSLCQSHTLIIFLNQVK 257
           K+  +L  S T  IF+N+++
Sbjct: 179 KMTGALNNSGTTAIFINELR 198

>1xp8_A RECA protein, recombinase A; recombination, radioresistance, DNA-repair, ATPase, DNA-BIND protein, DNA binding protein; HET: AGS; 2.50A {Deinococcus radiodurans} SCOP: c.37.1.11 d.48.1.1 Length = 366

 Score =  251 bits (644), Expect = 6e-83
 Identities = 97/200 (48%), Positives = 139/200 (69%), Gaps = 15/200 (7%)

Query: 65  QKDNALRLALSQLANDFGKESMLSLKRFFGSRRG---PVISTGSLKLDLALGIGGLPKGR 121
           ++  A+  A+SQ+   FGK S++ L    G+       V+STGSL LDLALG+GG+P+GR
Sbjct: 20  ERSKAIETAMSQIEKAFGKGSIMKL----GAESKLDVQVVSTGSLSLDLALGVGGIPRGR 75

Query: 122 IVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPD 181
           I EIYG E+ GKTTLAL ++ +AQK GG CA++D E+ALDP  A A+G++ + LL++QPD
Sbjct: 76  ITEIYGPESGGKTTLALAIVAQAQKAGGTCAFIDAEHALDPVYARALGVNTDELLVSQPD 135

Query: 182 SAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDA----QSRIMTQALR 237
           + E  L +++ L +SG+IDV+VVDSVAAL P+ E    I G   D+    Q+R+M+QALR
Sbjct: 136 NGEQALEIMELLVRSGAIDVVVVDSVAALTPRAE----IEGDMGDSLPGLQARLMSQALR 191

Query: 238 KIHYSLCQSHTLIIFLNQVK 257
           K+   L ++ T  IF+NQV+
Sbjct: 192 KLTAILSKTGTAAIFINQVR 211

>1u94_A RECA protein, recombinase A; homologous recombination, ATPase, DNA repair, DNA binding protein; 1.90A {Escherichia coli} SCOP: c.37.1.11 d.48.1.1 PDB: 1u98_A 1u99_A 1xms_A* 1xmv_A* 2rec_A 2reb_A 1n03_A* 1rea_A 1aa3_A Length = 356

 Score =  251 bits (643), Expect = 7e-83
 Identities = 104/200 (52%), Positives = 134/200 (67%), Gaps = 15/200 (7%)

Query: 65  QKDNALRLALSQLANDFGKESMLSLKRFFGSRRG---PVISTGSLKLDLALGIGGLPKGR 121
            K  AL  AL Q+   FGK S++ L    G  R      ISTGSL LD+ALG GGLP GR
Sbjct: 9   NKQKALAAALGQIEKQFGKGSIMRL----GEDRSMDVETISTGSLSLDIALGAGGLPMGR 64

Query: 122 IVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPD 181
           IVEIYG E+SGKTTL L VI  AQ+ G  CA++D E+ALDP  A  +G+D +NLL +QPD
Sbjct: 65  IVEIYGPESSGKTTLTLQVIAAAQREGKTCAFIDAEHALDPIYARKLGVDIDNLLCSQPD 124

Query: 182 SAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDA----QSRIMTQALR 237
           + E  L + D L +SG++DVIVVDSVAAL PK E    I G   D+     +R+M+QA+R
Sbjct: 125 TGEQALEICDALARSGAVDVIVVDSVAALTPKAE----IEGEIGDSHMGLAARMMSQAMR 180

Query: 238 KIHYSLCQSHTLIIFLNQVK 257
           K+  +L QS+TL+IF+NQ++
Sbjct: 181 KLAGNLKQSNTLLIFINQIR 200

>3cmu_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 4.20A {Escherichia coli} Length = 2050

 Score =  254 bits (651), Expect = 1e-77
 Identities = 106/225 (47%), Positives = 139/225 (61%), Gaps = 15/225 (6%)

Query: 40   NIHSLSSAAEVPEFDDEPHDDAKIMQKDNALRLALSQLANDFGKESMLSLKRFFGSRRG- 98
             + S  ++             A    K  AL  AL Q+   FGK S++ L    G  R  
Sbjct: 1348 LLLSNPNSTTGATGAMSGRMSAIDENKQKALAAALGQIEKQFGKGSIMRL----GEDRSM 1403

Query: 99   --PVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDV 156
                ISTGSL LD+ALG GGLP GRIVEIYG E+SGKTTL L VI  AQ+ G  CA++D 
Sbjct: 1404 DVETISTGSLSLDIALGAGGLPMGRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFIDA 1463

Query: 157  ENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEI 216
            E+ALDP  A  +G+D +NLL +QPD+ E  L + D L +SG++DVIVVDSVAAL PK E 
Sbjct: 1464 EHALDPIYARKLGVDIDNLLCSQPDTGEQALEICDALARSGAVDVIVVDSVAALTPKAE- 1522

Query: 217  GVPINGMYSDA----QSRIMTQALRKIHYSLCQSHTLIIFLNQVK 257
               I G   D+     +R+M+QA+RK+  +L QS+TL+IF+NQ++
Sbjct: 1523 ---IEGEIGDSHMGLAARMMSQAMRKLAGNLKQSNTLLIFINQIR 1564

>3cmu_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 4.20A {Escherichia coli} Length = 2050

 Score =  252 bits (645), Expect = 7e-77
 Identities = 105/214 (49%), Positives = 135/214 (63%), Gaps = 15/214 (7%)

Query: 51  PEFDDEPHDDAKIMQKDNALRLALSQLANDFGKESMLSLKRFFGSRRG---PVISTGSLK 107
                     A    K  AL  AL Q+   FGK S++ L    G  R      ISTGSL 
Sbjct: 315 SGTTGSTGSMAIDENKQKALAAALGQIEKQFGKGSIMRL----GEDRSMDVETISTGSLS 370

Query: 108 LDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEA 167
           LD+ALG GGLP GRIVEIYG E+SGKTTL L VI  AQ+ G  CA++D E+ALDP  A  
Sbjct: 371 LDIALGAGGLPMGRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFIDAEHALDPIYARK 430

Query: 168 MGIDAENLLIAQPDSAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDA 227
           +G+D +NLL +QPD+ E  L + D L +SG++DVIVVDSVAAL PK E    I G   D+
Sbjct: 431 LGVDIDNLLCSQPDTGEQALEICDALARSGAVDVIVVDSVAALTPKAE----IEGEIGDS 486

Query: 228 ----QSRIMTQALRKIHYSLCQSHTLIIFLNQVK 257
                +R+M+QA+RK+  +L QS+TL+IF+NQ++
Sbjct: 487 HMGLAARMMSQAMRKLAGNLKQSNTLLIFINQIR 520

>3cmu_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 4.20A {Escherichia coli} Length = 2050

 Score =  251 bits (644), Expect = 9e-77
 Identities = 106/226 (46%), Positives = 139/226 (61%), Gaps = 15/226 (6%)

Query: 39   MNIHSLSSAAEVPEFDDEPHDDAKIMQKDNALRLALSQLANDFGKESMLSLKRFFGSRRG 98
            +  +  S+              A    K  AL  AL Q+   FGK S++ L    G  R 
Sbjct: 1695 LLSNPNSTTGSTGSGSSTGSMSAIDENKQKALAAALGQIEKQFGKGSIMRL----GEDRS 1750

Query: 99   ---PVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLD 155
                 ISTGSL LD+ALG GGLP GRIVEIYG E+SGKTTL L VI  AQ+ G  CA++D
Sbjct: 1751 MDVETISTGSLSLDIALGAGGLPMGRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFID 1810

Query: 156  VENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCE 215
             E+ALDP  A  +G+D +NLL +QPD+ E  L + D L +SG++DVIVVDSVAAL PK E
Sbjct: 1811 AEHALDPIYARKLGVDIDNLLCSQPDTGEQALEICDALARSGAVDVIVVDSVAALTPKAE 1870

Query: 216  IGVPINGMYSDA----QSRIMTQALRKIHYSLCQSHTLIIFLNQVK 257
                I G   D+     +R+M+QA+RK+  +L QS+TL+IF+NQ++
Sbjct: 1871 ----IEGEIGDSHMGLAARMMSQAMRKLAGNLKQSNTLLIFINQIR 1912

>3cmu_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 4.20A {Escherichia coli} Length = 2050

 Score =  251 bits (643), Expect = 1e-76
 Identities = 105/211 (49%), Positives = 135/211 (63%), Gaps = 15/211 (7%)

Query: 54  DDEPHDDAKIMQKDNALRLALSQLANDFGKESMLSLKRFFGSRRG---PVISTGSLKLDL 110
                  A    K  AL  AL Q+   FGK S++ L    G  R      ISTGSL LD+
Sbjct: 667 HTTGAMSAIDENKQKALAAALGQIEKQFGKGSIMRL----GEDRSMDVETISTGSLSLDI 722

Query: 111 ALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGI 170
           ALG GGLP GRIVEIYG E+SGKTTL L VI  AQ+ G  CA++D E+ALDP  A  +G+
Sbjct: 723 ALGAGGLPMGRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFIDAEHALDPIYARKLGV 782

Query: 171 DAENLLIAQPDSAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDA--- 227
           D +NLL +QPD+ E  L + D L +SG++DVIVVDSVAAL PK E    I G   D+   
Sbjct: 783 DIDNLLCSQPDTGEQALEICDALARSGAVDVIVVDSVAALTPKAE----IEGEIGDSHMG 838

Query: 228 -QSRIMTQALRKIHYSLCQSHTLIIFLNQVK 257
             +R+M+QA+RK+  +L QS+TL+IF+NQ++
Sbjct: 839 LAARMMSQAMRKLAGNLKQSNTLLIFINQIR 869

>3cmu_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 4.20A {Escherichia coli} Length = 2050

 Score =  249 bits (639), Expect = 5e-76
 Identities = 105/214 (49%), Positives = 135/214 (63%), Gaps = 15/214 (7%)

Query: 51   PEFDDEPHDDAKIMQKDNALRLALSQLANDFGKESMLSLKRFFGSRRG---PVISTGSLK 107
                      A    K  AL  AL Q+   FGK S++ L    G  R      ISTGSL 
Sbjct: 1013 SMASTGSTGSAIDENKQKALAAALGQIEKQFGKGSIMRL----GEDRSMDVETISTGSLS 1068

Query: 108  LDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEA 167
            LD+ALG GGLP GRIVEIYG E+SGKTTL L VI  AQ+ G  CA++D E+ALDP  A  
Sbjct: 1069 LDIALGAGGLPMGRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFIDAEHALDPIYARK 1128

Query: 168  MGIDAENLLIAQPDSAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDA 227
            +G+D +NLL +QPD+ E  L + D L +SG++DVIVVDSVAAL PK E    I G   D+
Sbjct: 1129 LGVDIDNLLCSQPDTGEQALEICDALARSGAVDVIVVDSVAALTPKAE----IEGEIGDS 1184

Query: 228  ----QSRIMTQALRKIHYSLCQSHTLIIFLNQVK 257
                 +R+M+QA+RK+  +L QS+TL+IF+NQ++
Sbjct: 1185 HMGLAARMMSQAMRKLAGNLKQSNTLLIFINQIR 1218

>3cmu_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 4.20A {Escherichia coli} Length = 2050

 Score =  235 bits (601), Expect = 6e-71
 Identities = 91/163 (55%), Positives = 118/163 (72%), Gaps = 8/163 (4%)

Query: 99  PVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVEN 158
             ISTGSL LD+ALG GGLP GRIVEIYG E+SGKTTL L VI  AQ+ G  CA++D E+
Sbjct: 13  ETISTGSLSLDIALGAGGLPMGRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFIDAEH 72

Query: 159 ALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGV 218
           ALDP  A  +G+D +NLL +QPD+ E  L + D L +SG++DVIVVDSVAAL PK E   
Sbjct: 73  ALDPIYARKLGVDIDNLLCSQPDTGEQALEICDALARSGAVDVIVVDSVAALTPKAE--- 129

Query: 219 PINGMYSDA----QSRIMTQALRKIHYSLCQSHTLIIFLNQVK 257
            I G   D+     +R+M+QA+RK+  +L QS+TL+IF+NQ++
Sbjct: 130 -IEGEIGDSHMGLAARMMSQAMRKLAGNLKQSNTLLIFINQIR 171

>3cmw_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 2.80A {Escherichia coli} PDB: 3cmt_A* 3cmx_A* 3cmv_A* Length = 1706

 Score =  252 bits (645), Expect = 7e-77
 Identities = 105/214 (49%), Positives = 135/214 (63%), Gaps = 15/214 (7%)

Query: 51  PEFDDEPHDDAKIMQKDNALRLALSQLANDFGKESMLSLKRFFGSRRG---PVISTGSLK 107
                     A    K  AL  AL Q+   FGK S++ L    G  R      ISTGSL 
Sbjct: 315 SGTTGSTGSMAIDENKQKALAAALGQIEKQFGKGSIMRL----GEDRSMDVETISTGSLS 370

Query: 108 LDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEA 167
           LD+ALG GGLP GRIVEIYG E+SGKTTL L VI  AQ+ G  CA++D E+ALDP  A  
Sbjct: 371 LDIALGAGGLPMGRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFIDAEHALDPIYARK 430

Query: 168 MGIDAENLLIAQPDSAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDA 227
           +G+D +NLL +QPD+ E  L + D L +SG++DVIVVDSVAAL PK E    I G   D+
Sbjct: 431 LGVDIDNLLCSQPDTGEQALEICDALARSGAVDVIVVDSVAALTPKAE----IEGEIGDS 486

Query: 228 ----QSRIMTQALRKIHYSLCQSHTLIIFLNQVK 257
                +R+M+QA+RK+  +L QS+TL+IF+NQ++
Sbjct: 487 HMGLAARMMSQAMRKLAGNLKQSNTLLIFINQIR 520

>3cmw_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 2.80A {Escherichia coli} PDB: 3cmt_A* 3cmx_A* 3cmv_A* Length = 1706

 Score =  251 bits (644), Expect = 9e-77
 Identities = 105/214 (49%), Positives = 135/214 (63%), Gaps = 15/214 (7%)

Query: 51   PEFDDEPHDDAKIMQKDNALRLALSQLANDFGKESMLSLKRFFGSRRG---PVISTGSLK 107
                      A    K  AL  AL Q+   FGK S++ L    G  R      ISTGSL 
Sbjct: 1363 SMSGRTGSMSAIDENKQKALAAALGQIEKQFGKGSIMRL----GEDRSMDVETISTGSLS 1418

Query: 108  LDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEA 167
            LD+ALG GGLP GRIVEIYG E+SGKTTL L VI  AQ+ G  CA++D E+ALDP  A  
Sbjct: 1419 LDIALGAGGLPMGRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFIDAEHALDPIYARK 1478

Query: 168  MGIDAENLLIAQPDSAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDA 227
            +G+D +NLL +QPD+ E  L + D L +SG++DVIVVDSVAAL PK E    I G   D+
Sbjct: 1479 LGVDIDNLLCSQPDTGEQALEICDALARSGAVDVIVVDSVAALTPKAE----IEGEIGDS 1534

Query: 228  ----QSRIMTQALRKIHYSLCQSHTLIIFLNQVK 257
                 +R+M+QA+RK+  +L QS+TL+IF+NQ++
Sbjct: 1535 HMGLAARMMSQAMRKLAGNLKQSNTLLIFINQIR 1568

>3cmw_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 2.80A {Escherichia coli} PDB: 3cmt_A* 3cmx_A* 3cmv_A* Length = 1706

 Score =  251 bits (643), Expect = 1e-76
 Identities = 105/226 (46%), Positives = 141/226 (62%), Gaps = 15/226 (6%)

Query: 39  MNIHSLSSAAEVPEFDDEPHDDAKIMQKDNALRLALSQLANDFGKESMLSLKRFFGSRRG 98
           ++  + ++ +            A    K  AL  AL Q+   FGK S++ L    G  R 
Sbjct: 652 LSNPNSTTGSTGSMGHTTGSMSAIDENKQKALAAALGQIEKQFGKGSIMRL----GEDRS 707

Query: 99  ---PVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLD 155
                ISTGSL LD+ALG GGLP GRIVEIYG E+SGKTTL L VI  AQ+ G  CA++D
Sbjct: 708 MDVETISTGSLSLDIALGAGGLPMGRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFID 767

Query: 156 VENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCE 215
            E+ALDP  A  +G+D +NLL +QPD+ E  L + D L +SG++DVIVVDSVAAL PK E
Sbjct: 768 AEHALDPIYARKLGVDIDNLLCSQPDTGEQALEICDALARSGAVDVIVVDSVAALTPKAE 827

Query: 216 IGVPINGMYSDA----QSRIMTQALRKIHYSLCQSHTLIIFLNQVK 257
               I G   D+     +R+M+QA+RK+  +L QS+TL+IF+NQ++
Sbjct: 828 ----IEGEIGDSHMGLAARMMSQAMRKLAGNLKQSNTLLIFINQIR 869

>3cmw_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 2.80A {Escherichia coli} PDB: 3cmt_A* 3cmx_A* 3cmv_A* Length = 1706

 Score =  250 bits (641), Expect = 3e-76
 Identities = 107/226 (47%), Positives = 140/226 (61%), Gaps = 15/226 (6%)

Query: 39   MNIHSLSSAAEVPEFDDEPHDDAKIMQKDNALRLALSQLANDFGKESMLSLKRFFGSRRG 98
             N +S + +             A    K  AL  AL Q+   FGK S++ L    G  R 
Sbjct: 1002 SNPNSTTGSTGSASGSSTGSMSAIDENKQKALAAALGQIEKQFGKGSIMRL----GEDRS 1057

Query: 99   ---PVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLD 155
                 ISTGSL LD+ALG GGLP GRIVEIYG E+SGKTTL L VI  AQ+ G  CA++D
Sbjct: 1058 MDVETISTGSLSLDIALGAGGLPMGRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFID 1117

Query: 156  VENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCE 215
             E+ALDP  A  +G+D +NLL +QPD+ E  L + D L +SG++DVIVVDSVAAL PK E
Sbjct: 1118 AEHALDPIYARKLGVDIDNLLCSQPDTGEQALEICDALARSGAVDVIVVDSVAALTPKAE 1177

Query: 216  IGVPINGMYSDA----QSRIMTQALRKIHYSLCQSHTLIIFLNQVK 257
                I G   D+     +R+M+QA+RK+  +L QS+TL+IF+NQ++
Sbjct: 1178 ----IEGEIGDSHMGLAARMMSQAMRKLAGNLKQSNTLLIFINQIR 1219

>3cmw_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 2.80A {Escherichia coli} PDB: 3cmt_A* 3cmx_A* 3cmv_A* Length = 1706

 Score =  234 bits (600), Expect = 7e-71
 Identities = 91/163 (55%), Positives = 118/163 (72%), Gaps = 8/163 (4%)

Query: 99  PVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVEN 158
             ISTGSL LD+ALG GGLP GRIVEIYG E+SGKTTL L VI  AQ+ G  CA++D E+
Sbjct: 13  ETISTGSLSLDIALGAGGLPMGRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFIDAEH 72

Query: 159 ALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGV 218
           ALDP  A  +G+D +NLL +QPD+ E  L + D L +SG++DVIVVDSVAAL PK E   
Sbjct: 73  ALDPIYARKLGVDIDNLLCSQPDTGEQALEICDALARSGAVDVIVVDSVAALTPKAE--- 129

Query: 219 PINGMYSDA----QSRIMTQALRKIHYSLCQSHTLIIFLNQVK 257
            I G   D+     +R+M+QA+RK+  +L QS+TL+IF+NQ++
Sbjct: 130 -IEGEIGDSHMGLAARMMSQAMRKLAGNLKQSNTLLIFINQIR 171

>3io5_A Recombination and repair protein; storage dimer, inactive conformation, RECA like core domain, binding, DNA damage, DNA recombination; 2.40A {Enterobacteria phage T4} Length = 333

 Score =  188 bits (480), Expect = 1e-58
 Identities = 36/168 (21%), Positives = 70/168 (41%), Gaps = 11/168 (6%)

Query: 99  PVISTGSLKLDLALG---IGGLPKGRIVEIYGREASGKTTLALHVIKEAQK--LGGYCAY 153
            V+ T    +++AL     GG+  G ++ + G   S K+   L ++    +      C +
Sbjct: 5   DVVRTKIPMMNIALSGEITGGMQSGLLI-LAGPSKSFKSNFGLTMVSSYMRQYPDAVCLF 63

Query: 154 LDVENALDPSLAEAMGIDAENLLIAQPDSAENL-LSVVDTLT--KSGSIDVIVVDSVAAL 210
            D E  + P+   +MG+D E ++     S E L + +V+ L   + G   V+ +DS+  L
Sbjct: 64  YDSEFGITPAYLRSMGVDPERVIHTPVQSLEQLRIDMVNQLDAIERGEKVVVFIDSLGNL 123

Query: 211 IPKCEIGVPING--MYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQV 256
             K E    +N   +    +++ M    R +       +   I +N  
Sbjct: 124 ASKKETEDALNEKVVSDMTRAKTMKSLFRIVTPYFSTKNIPCIAINHT 171

>2z43_A DNA repair and recombination protein RADA; archaea, filament, DNA binding, molecular SWI RECA, DMC1; HET: DNA; 1.93A {Sulfolobus solfataricus} PDB: 2bke_A* 2dfl_A* 2zub_A* 2zuc_A* 2zud_A* Length = 324

 Score =  137 bits (348), Expect = 3e-39
 Identities = 50/209 (23%), Positives = 84/209 (40%), Gaps = 27/209 (12%)

Query: 66  KDNALRLALSQLANDFGKESMLSLKRFFGSRRGPVISTGSLKLDLALGIGGLPKGRIVEI 125
               ++ A   L   F     +  +R         ISTGS  LD  L  GG+    + E 
Sbjct: 58  AQKIIKEARDALDIRFKTALEVKKER----MNVKKISTGSQALDGLLA-GGIETRTMTEF 112

Query: 126 YGREASGKTTLALHVIKEAQ------KLGGYCAYLDVENALDP----SLAEAMGIDAE-- 173
           +G   SGKT L   +    Q       L G   Y+D E         ++A+A+G+D +  
Sbjct: 113 FGEFGSGKTQLCHQLSVNVQLPPEKGGLSGKAVYIDTEGTFRWERIENMAKALGLDIDNV 172

Query: 174 --NLLIAQPDSAENLLSVVDTL----TKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDA 227
             N+   +  + ++ +++VD L    +K  SI +IVVDSV +   + E            
Sbjct: 173 MNNIYYIRAINTDHQIAIVDDLQELVSKDPSIKLIVVDSVTSH-FRAEYP---GRENLAV 228

Query: 228 QSRIMTQALRKIHYSLCQSHTLIIFLNQV 256
           + + + + L ++          +I  NQV
Sbjct: 229 RQQKLNKHLHQLTRLAEVYDIAVIITNQV 257

>1v5w_A DMC1, meiotic recombination protein DMC1/LIM15 homolog; DNA-binding protein, ring protein, octamer, AAA ATPase; 3.20A {Homo sapiens} SCOP: c.37.1.11 PDB: 2zjb_A Length = 343

 Score =  136 bits (344), Expect = 2e-38
 Identities = 49/236 (20%), Positives = 95/236 (40%), Gaps = 28/236 (11%)

Query: 40  NIHSLSSAAEVPEFDDEPHDDAKIMQKDNALRLALSQLANDFGKESMLSLKRFFGSRRGP 99
            I ++                    + D     A   +   F      S KR    +   
Sbjct: 47  GICTIKGIQMTTRRALCNVKGLSEAKVDKIKEAANKLIEPGFLTAFEYSEKR----KMVF 102

Query: 100 VISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQ------KLGGYCAY 153
            I+TGS + D  LG GG+    I E +G   +GKT L+  +   AQ        GG   +
Sbjct: 103 HITTGSQEFDKLLG-GGIESMAITEAFGEFRTGKTQLSHTLCVTAQLPGAGGYPGGKIIF 161

Query: 154 LDVENALDP----SLAEAMGIDAE----NLLIAQPDSAENLLSVVDTL-----TKSGSID 200
           +D EN   P     +A+   +D +    N+L A+  ++E+ + ++D +      ++G   
Sbjct: 162 IDTENTFRPDRLRDIADRFNVDHDAVLDNVLYARAYTSEHQMELLDYVAAKFHEEAGIFK 221

Query: 201 VIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQV 256
           ++++DS+ AL  + +      G  ++ Q + + Q L ++     + +  +   NQ+
Sbjct: 222 LLIIDSIMALF-RVDF--SGRGELAERQ-QKLAQMLSRLQKISEEYNVAVFVTNQM 273

>3lda_A DNA repair protein RAD51; DNA binding protein, ATP-binding, DNA damage, DNA recombinat repair, nucleotide-binding; HET: DNA; 2.50A {Saccharomyces cerevisiae} PDB: 1szp_A* Length = 400

 Score =  119 bits (299), Expect = 1e-31
 Identities = 54/234 (23%), Positives = 87/234 (37%), Gaps = 26/234 (11%)

Query: 40  NIHSLSSAAEVPEFDDEPHDDAKIMQKDNALRLALSQLANDFGKESMLSLKRFFGSRRGP 99
            +H+  + A  P  D          + D  L  A   +   F   +   ++R        
Sbjct: 103 GLHTAEAVAYAPRKDLLEIKGISEAKADKLLNEAARLVPMGFVTAADFHMRR----SELI 158

Query: 100 VISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQ------KLGGYCAY 153
            ++TGS  LD  LG GG+  G I E++G   +GK+ L   +    Q         G C Y
Sbjct: 159 CLTTGSKNLDTLLG-GGVETGSITELFGEFRTGKSQLCHTLAVTCQIPLDIGGGEGKCLY 217

Query: 154 LDVENALDP----SLAEAMGIDAENLL-------IAQPDSAENLLSVVDTLTKSGSIDVI 202
           +D E    P    S+A+  G+D ++ L           D    LL     +       +I
Sbjct: 218 IDTEGTFRPVRLVSIAQRFGLDPDDALNNVAYARAYNADHQLRLLDAAAQMMSESRFSLI 277

Query: 203 VVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQV 256
           VVDSV AL  + +           A+   + + +R +     Q    ++  NQV
Sbjct: 278 VVDSVMAL-YRTDFS---GRGELSARQMHLAKFMRALQRLADQFGVAVVVTNQV 327

>1pzn_A RAD51, DNA repair and recombination protein RAD51, RADA; heptameric ring, heptamer, ring, oligomer, RAD51 polymerizat motif; HET: DNA; 2.85A {Pyrococcus furiosus} SCOP: a.60.4.1 c.37.1.11 Length = 349

 Score =  117 bits (294), Expect = 3e-31
 Identities = 44/207 (21%), Positives = 81/207 (39%), Gaps = 28/207 (13%)

Query: 73  ALSQLANDFGKESMLSLKRFFGSRR-GPVISTGSLKLDLALGIGGLPKGRIVEIYGREAS 131
            +          + +    +   R     ISTGS  LD  LG GG+    I E++G   S
Sbjct: 84  IIQAARKAANLGTFMRADEYLKKRATIGRISTGSKSLDKLLG-GGIETQAITEVFGEFGS 142

Query: 132 GKTTLALHVIKEAQ------KLGGYCAYLDVENALDPS----LAEAMGIDAE----NLLI 177
           GKT LA  +    Q       L G   ++D EN   P     +A+  G+D +    ++ +
Sbjct: 143 GKTQLAHTLAVMVQLPPEEGGLNGSVIWIDTENTFRPERIREIAQNRGLDPDEVLKHIYV 202

Query: 178 AQPDSAENLLSVVDTLTK--------SGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQS 229
           A+  ++ + + +V                + +++VDS+ +      IG    G  ++ + 
Sbjct: 203 ARAFNSNHQMLLVQQAEDKIKELLNTDRPVKLLIVDSLTSHFRSEYIG---RGALAE-RQ 258

Query: 230 RIMTQALRKIHYSLCQSHTLIIFLNQV 256
           + + + L  +H         +   NQV
Sbjct: 259 QKLAKHLADLHRLANLYDIAVFVTNQV 285

>1n0w_A DNA repair protein RAD51 homolog 1; DNA repair, homologous recombination, breast cancer susceptibility, RECA-like ATPase, protein complex; HET: DNA MSE; 1.70A {Homo sapiens} SCOP: c.37.1.11 Length = 243

 Score =  106 bits (266), Expect = 6e-28
 Identities = 41/173 (23%), Positives = 65/173 (37%), Gaps = 22/173 (12%)

Query: 101 ISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQ------KLGGYCAYL 154
           I+TGS +LD  L  GG+  G I E++G   +GKT +   +    Q         G   Y+
Sbjct: 6   ITTGSKELDKLLQ-GGIETGSITEMFGEFRTGKTQICHTLAVTCQLPIDRGGGEGKAMYI 64

Query: 155 DVENALDPS----LAEAMGIDAENLL-------IAQPDSAENLLSVVDTLTKSGSIDVIV 203
           D E    P     +AE  G+   ++L           D    LL     +       +++
Sbjct: 65  DTEGTFRPERLLAVAERYGLSGSDVLDNVAYARAFNTDHQTQLLYQASAMMVESRYALLI 124

Query: 204 VDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQV 256
           VDS  AL      G         A+   + + LR +     +    ++  NQV
Sbjct: 125 VDSATALYRTDYSGRGELS----ARQMHLARFLRMLLRLADEFGVAVVITNQV 173

>2i1q_A DNA repair and recombination protein RADA; ATPase, recombinase, ATP complex, calcium stimulation, RECA, DMC1; HET: DNA ANP; 1.90A {Methanococcus voltae} SCOP: a.60.4.1 c.37.1.11 PDB: 1xu4_A* 2b21_A* 2fpk_A* 2fpl_A* 2fpm_A* 1t4g_A* 3fyh_A* 2f1j_A* 2f1i_A* 2f1h_A* 3ntu_A* 3ewa_A* 3ew9_A* 3etl_A* 4dc9_A* 2gdj_A* Length = 322

 Score =  106 bits (266), Expect = 2e-27
 Identities = 41/218 (18%), Positives = 78/218 (35%), Gaps = 37/218 (16%)

Query: 67  DNALRLALSQLANDFGKESMLSLKRFFGSRRGPVISTGSLKLDLALGIGGLPKGRIVEIY 126
              +  A       F     L  +R         +ST S +LD  LG GGL    + E  
Sbjct: 50  AKMIMGARDLCDLGFKSGIDLLKQR----STVWKLSTSSSELDSVLG-GGLESQSVTEFA 104

Query: 127 GREASGKTTLALHVIKEAQK----------------LGGYCAYLDVENALDPS----LAE 166
           G   SGKT +        Q                       Y+D E    P     +AE
Sbjct: 105 GVFGSGKTQIMHQSCVNLQNPEFLFYDEEAVSKGEVAQPKAVYIDTEGTFRPERIMQMAE 164

Query: 167 AMGIDAE----NLLIAQPDSAENLLSVVDTL----TKSGSIDVIVVDSVAALIPKCEIGV 218
             GID +    N  +A+  +++  +   + +     +  +I ++V+DS+ +       G 
Sbjct: 165 HAGIDGQTVLDNTFVARAYNSDMQMLFAEKIEDLIQEGNNIKLVVIDSLTSTFRNEYTG- 223

Query: 219 PINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQV 256
              G  ++ + + + + +  ++      + +++  NQV
Sbjct: 224 --RGKLAE-RQQKLGRHMATLNKLADLFNCVVLVTNQV 258

>2cvh_A DNA repair and recombination protein RADB; filament formation, homologous recombination, ATPase domain, hyperthermophIle; HET: DNA; 2.20A {Thermococcus kodakarensis} PDB: 2cvf_A* Length = 220

 Score = 80.7 bits (200), Expect = 1e-18
 Identities = 40/121 (33%), Positives = 59/121 (48%), Gaps = 14/121 (11%)

Query: 100 VISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENA 159
           ++STG+  LD  LG GG   G + ++YG  ASGKTTLAL         G   AY+D E  
Sbjct: 1   MLSTGTKSLDSLLG-GGFAPGVLTQVYGPYASGKTTLALQT---GLLSGKKVAYVDTEGG 56

Query: 160 LDPS----LAEAMGIDAE----NLLIAQPDSAENLLSVVDTLTK--SGSIDVIVVDSVAA 209
             P     +AE  G++ E      ++  P   +    V+ +L K    +  ++VVDS+ A
Sbjct: 57  FSPERLVQMAETRGLNPEEALSRFILFTPSDFKEQRRVIGSLKKTVDSNFALVVVDSITA 116

Query: 210 L 210
            
Sbjct: 117 H 117

>1tf7_A KAIC; homohexamer, hexamer, circadian clock protein; HET: ATP; 2.80A {Synechococcus SP} SCOP: c.37.1.11 c.37.1.11 PDB: 3s1a_A* 1u9i_A* 2gbl_A* 3dvl_A* 3k0a_A* 3k09_A* 3jzm_A* 3k0e_A* 4dug_A* 3ua2_A* 3k0c_A* 3k0f_A* Length = 525

 Score = 66.5 bits (162), Expect = 9e-13
 Identities = 31/150 (20%), Positives = 50/150 (33%), Gaps = 23/150 (15%)

Query: 102 STGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALD 161
           S+G ++LD   G GG  K  I+   G   +GKT L    ++ A            E +  
Sbjct: 264 SSGVVRLDEMCG-GGFFKDSIILATGATGTGKTLLVSRFVENACANKERAILFAYEESRA 322

Query: 162 --PSLAEAMGIDAEN------LLIAQPD----SAENLLSVVDTLTKSGSIDVIVVDSVAA 209
                A + G+D E       L I          E+ L ++ +         I +DS++A
Sbjct: 323 QLLRNAYSWGMDFEEMERQNLLKIVCAYPESAGLEDHLQIIKSEINDFKPARIAIDSLSA 382

Query: 210 LIPKCEIGVPINGMYSDAQSRIMTQALRKI 239
           L              S+   R     +   
Sbjct: 383 LA----------RGVSNNAFRQFVIGVTGY 402

>1tf7_A KAIC; homohexamer, hexamer, circadian clock protein; HET: ATP; 2.80A {Synechococcus SP} SCOP: c.37.1.11 c.37.1.11 PDB: 3s1a_A* 1u9i_A* 2gbl_A* 3dvl_A* 3k0a_A* 3k09_A* 3jzm_A* 3k0e_A* 4dug_A* 3ua2_A* 3k0c_A* 3k0f_A* Length = 525

 Score = 55.7 bits (134), Expect = 4e-09
 Identities = 21/131 (16%), Positives = 41/131 (31%), Gaps = 22/131 (16%)

Query: 101 ISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKE-AQKLGGYCAYLDVENA 159
           + T     D     GGLP GR   + G   +GKT  ++  +     +      ++  E  
Sbjct: 21  MRTMIEGFDDISH-GGLPIGRSTLVSGTSGTGKTLFSIQFLYNGIIEFDEPGVFVTFEET 79

Query: 160 LD--PSLAEAMGIDAENLL------------------IAQPDSAENLLSVVDTLTKSGSI 199
                  A + G D   L+                  +        L+  ++   +    
Sbjct: 80  PQDIIKNARSFGWDLAKLVDEGKLFILDASPDPEGQEVVGGFDLSALIERINYAIQKYRA 139

Query: 200 DVIVVDSVAAL 210
             + +DSV ++
Sbjct: 140 RRVSIDSVTSV 150

>2dr3_A UPF0273 protein PH0284; RECA superfamily ATPase, hexamer, structural genomics; HET: ADP; 2.00A {Pyrococcus horikoshii} Length = 247

 Score = 58.2 bits (141), Expect = 3e-10
 Identities = 33/183 (18%), Positives = 62/183 (33%), Gaps = 42/183 (22%)

Query: 101 ISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAY------- 153
           + TG   +D  L  GG+P+  +V + G   +GKT  +   +    K+G    Y       
Sbjct: 5   VKTGIPGVDEILH-GGIPERNVVLLSGGPGTGKTIFSQQFLWNGLKMGEPGIYVALEEHP 63

Query: 154 -----------LDVENALD---------PSLAEAMGIDAENLLIAQPDSAENLLSVVDTL 193
                       DV+   +          +       + E  ++         + V+   
Sbjct: 64  VQVRQNMAQFGWDVKPYEEKGMFAMVDAFTAGIGKSKEYEKYIVHDLTDIREFIEVLRQA 123

Query: 194 TKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFL 253
            +  +   +VVDSV  L                A +R +   L+++   L  +    IF+
Sbjct: 124 IRDINAKRVVVDSVTTLYIN-----------KPAMARSIILQLKRV---LAGTGCTSIFV 169

Query: 254 NQV 256
           +QV
Sbjct: 170 SQV 172

>2w0m_A SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus solfataricus P2} Length = 235

 Score = 56.6 bits (137), Expect = 8e-10
 Identities = 34/151 (22%), Positives = 67/151 (44%), Gaps = 14/151 (9%)

Query: 101 ISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENAL 160
           +STG L  D  +  GG+P+G  + + G   +GKT  +LH I +  + G  C Y+  E + 
Sbjct: 5   LSTGILDFDKLIQ-GGIPQGFFIALTGEPGTGKTIFSLHFIAKGLRDGDPCIYVTTEESR 63

Query: 161 DPSL---AEAMGIDAENLLIAQPDSAENLLSVVDTLTKSGSIDVI-VVDSVAALIPKCEI 216
           D S+   A+    D E  +  +    + L+   +      ++    +V+ V     K   
Sbjct: 64  D-SIIRQAKQFNWDFEEYIEKKLIIIDALMKEKEDQWSLVNLTPEELVNKVIEAKQKLGY 122

Query: 217 GV------PINGMYSD--AQSRIMTQALRKI 239
           G        ++ ++ D  A +R ++  L+++
Sbjct: 123 GKARLVIDSVSALFLDKPAMARKISYYLKRV 153

>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 = 49.9 bits (118), Expect = 4e-07
 Identities = 54/296 (18%), Positives = 99/296 (33%), Gaps = 73/296 (24%)

Query: 4   LLQPFRFSSIAPRRFFSLFPSFSQNGRRDAI-TCIGMNIHSLSSAAEVPEFDDEPHDDAK 62
           ++     S     R F    S  +   +  +   + +N   L S         E    + 
Sbjct: 55  IMSKDAVSGT--LRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSP-----IKTEQRQPSM 107

Query: 63  IMQKDNALRLALSQLAND---FGKESMLSLKRFFGSRRGPVISTGSLKLDLALGIGGLPK 119
           + +     R    +L ND   F K ++        SR  P      LKL  AL    L  
Sbjct: 108 MTRMYIEQR---DRLYNDNQVFAKYNV--------SRLQPY-----LKLRQALL--ELRP 149

Query: 120 GRIVEIYGREASGKTTLALHVIKEA---QKLGGYCAYLDVENALDP-SLAEAMGIDAENL 175
            + V I G   SGKT +AL V        K+     +L+++N   P ++ E +    + L
Sbjct: 150 AKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEML----QKL 205

Query: 176 -------LIAQPDSAENLLSVVDTL---------TKSGSIDVIVVDSV------AALIPK 213
                    ++ D + N+   + ++         +K     ++V+ +V       A    
Sbjct: 206 LYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLS 265

Query: 214 CEI-------GVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVKVLLLK 262
           C+I        V  + + +   + I   +L     +L       + L   K L  +
Sbjct: 266 CKILLTTRFKQV-TDFLSAATTTHI---SLDHHSMTLTPDEVKSLLL---KYLDCR 314

>3bs4_A Uncharacterized protein PH0321; structural genomics, unknown function, PSI-2, protein struct initiative; 1.60A {Pyrococcus horikoshii} Length = 260

 Score = 43.7 bits (102), Expect = 2e-05
 Identities = 15/96 (15%), Positives = 30/96 (31%), Gaps = 9/96 (9%)

Query: 101 ISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENAL 160
           +S    +LD  +G        I+      +S    +  +++    K         +   L
Sbjct: 3   LSWEIEELDREIG-KIKKHSLILIHEEDASSRGKDILFYILSRKLKSDNLVGMFSISYPL 61

Query: 161 DP--SLAEAMGIDAENLLIAQPDSAENLLSVVDTLT 194
                +    G+D    L        + L++VDT  
Sbjct: 62  QLIIRILSRFGVDVIKYL------ENHRLAIVDTFG 91

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	264
3hr8_A	356	Protein RECA; alpha and beta proteins (A/B, A+B),	100.0
2zr9_A	349	Protein RECA, recombinase A; recombination, RECA m	99.97
1u94_A	356	RECA protein, recombinase A; homologous recombinat	99.97
1xp8_A	366	RECA protein, recombinase A; recombination, radior	99.97
3io5_A	333	Recombination and repair protein; storage dimer, i	99.97
3cmu_A	2050	Protein RECA, recombinase A; homologous recombinat	99.97
3cmw_A	1706	Protein RECA, recombinase A; homologous recombinat	99.96
3cmw_A	1706	Protein RECA, recombinase A; homologous recombinat	99.95
3cmu_A	2050	Protein RECA, recombinase A; homologous recombinat	99.95
2z43_A	324	DNA repair and recombination protein RADA; archaea	99.92
1v5w_A	343	DMC1, meiotic recombination protein DMC1/LIM15 hom	99.92
2i1q_A	322	DNA repair and recombination protein RADA; ATPase,	99.91
4a1f_A	338	DNAB helicase, replicative DNA helicase; hydrolase	99.89
1n0w_A	243	DNA repair protein RAD51 homolog 1; DNA repair, ho	99.88
3lda_A	400	DNA repair protein RAD51; DNA binding protein, ATP	99.88
3bh0_A	315	DNAB-like replicative helicase; ATPase, replicatio	99.88
2dr3_A	247	UPF0273 protein PH0284; RECA superfamily ATPase, h	99.87
3bgw_A	444	DNAB-like replicative helicase; ATPase, replicatio	99.87
2zts_A	251	Putative uncharacterized protein PH0186; KAIC like	99.87
1pzn_A	349	RAD51, DNA repair and recombination protein RAD51,	99.86
2q6t_A	444	DNAB replication FORK helicase; hydrolase; 2.90A {	99.85
2cvh_A	220	DNA repair and recombination protein RADB; filamen	99.84
1q57_A	503	DNA primase/helicase; dntpase, DNA replication, tr	99.84
2r6a_A	454	DNAB helicase, replicative helicase; replication,	99.83
2w0m_A	235	SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus	99.83
4a74_A	231	DNA repair and recombination protein RADA; hydrola	99.83
2ehv_A	251	Hypothetical protein PH0186; KAIC, RECA ATPase, un	99.8
1nlf_A	279	Regulatory protein REPA; replicative DNA helicase	99.74
1cr0_A	296	DNA primase/helicase; RECA-type protein fold, tran	99.74
1tf7_A	525	KAIC; homohexamer, hexamer, circadian clock protei	99.69
3bs4_A	260	Uncharacterized protein PH0321; structural genomic	99.67
1tf7_A	525	KAIC; homohexamer, hexamer, circadian clock protei	99.59
2vhj_A	331	Ntpase P4, P4; non- hydrolysable ATP analogue, hyd	99.55
3tui_C	366	Methionine import ATP-binding protein METN; ABC-tr	99.28
3rlf_A	381	Maltose/maltodextrin import ATP-binding protein M;	99.27
4g1u_C	266	Hemin import ATP-binding protein HMUV; membrane tr	99.27
3fvq_A	359	Fe(3+) IONS import ATP-binding protein FBPC; nucle	99.25
1vpl_A	256	ABC transporter, ATP-binding protein; TM0544, stru	99.21
3tif_A	235	Uncharacterized ABC transporter ATP-binding prote;	99.21
1z47_A	355	CYSA, putative ABC-transporter ATP-binding protein	99.2
2yyz_A	359	Sugar ABC transporter, ATP-binding protein; sugar	99.2
3gfo_A	275	Cobalt import ATP-binding protein CBIO 1; structur	99.2
2it1_A	362	362AA long hypothetical maltose/maltodextrin trans	99.2
2olj_A	263	Amino acid ABC transporter; ABC domain, ATPase, hy	99.2
3d31_A	348	Sulfate/molybdate ABC transporter, ATP-binding pro	99.19
2pcj_A	224	ABC transporter, lipoprotein-releasing system ATP-	99.19
1v43_A	372	Sugar-binding transport ATP-binding protein; ATPas	99.19
2b8t_A	223	Thymidine kinase; deoxyribonucleoside kinase, zinc	99.16
2onk_A	240	Molybdate/tungstate ABC transporter, ATP-binding p	99.16
1g29_1	372	MALK, maltose transport protein MALK; ATPase, acti	99.14
1oxx_K	353	GLCV, glucose, ABC transporter, ATP binding protei	99.11
1b0u_A	262	Histidine permease; ABC transporter, transport pro	99.1
2qi9_C	249	Vitamin B12 import ATP-binding protein BTUD; inner	99.09
1g6h_A	257	High-affinity branched-chain amino acid transport	99.09
1ji0_A	240	ABC transporter; ATP binding protein, structural g	99.06
1sgw_A	214	Putative ABC transporter; structural genomics, P p	99.05
2nq2_C	253	Hypothetical ABC transporter ATP-binding protein H	99.04
2ff7_A	247	Alpha-hemolysin translocation ATP-binding protein	99.0
2ixe_A	271	Antigen peptide transporter 1; ABC ATPase, hydrola	99.0
2ihy_A	279	ABC transporter, ATP-binding protein; ATPase, ABC	98.98
2yz2_A	266	Putative ABC transporter ATP-binding protein TM_0;	98.96
2d2e_A	250	SUFC protein; ABC-ATPase, SUF protein, 310-helix,	98.94
2kjq_A	149	DNAA-related protein; solution structure, NESG, st	98.94
3nh6_A	306	ATP-binding cassette SUB-family B member 6, mitoc;	98.91
3ec2_A	180	DNA replication protein DNAC; helicase loader, rep	98.91
2ghi_A	260	Transport protein; multidrug resistance protein, M	98.81
2zu0_C	267	Probable ATP-dependent transporter SUFC; iron-sulf	98.79
1mv5_A	243	LMRA, multidrug resistance ABC transporter ATP-bin	98.78
3ozx_A	538	RNAse L inhibitor; ATP binding cassette protein, h	98.76
3j16_B	608	RLI1P; ribosome recycling, translation, eukarya, r	98.75
1yqt_A	538	RNAse L inhibitor; ATP-binding cassette, ribosome	98.74
4b4t_J	405	26S protease regulatory subunit 8 homolog; hydrola	98.73
3b5x_A	582	Lipid A export ATP-binding/permease protein MSBA;	98.72
2pjz_A	263	Hypothetical protein ST1066; ATP binding protein,	98.72
4gp7_A	171	Metallophosphoesterase; polynucleotide kinase phos	98.72
1yqt_A	538	RNAse L inhibitor; ATP-binding cassette, ribosome	98.71
3bk7_A	607	ABC transporter ATP-binding protein; ABC ATPase, i	98.7
3qf4_B	598	Uncharacterized ABC transporter ATP-binding prote	98.7
4b4t_L	437	26S protease subunit RPT4; hydrolase, AAA-atpases,	98.69
3b60_A	582	Lipid A export ATP-binding/permease protein MSBA;	98.69
4b4t_K	428	26S protease regulatory subunit 6B homolog; hydrol	98.69
4b4t_I	437	26S protease regulatory subunit 4 homolog; hydrola	98.67
3e70_C	328	DPA, signal recognition particle receptor; FTSY, S	98.67
3ozx_A	538	RNAse L inhibitor; ATP binding cassette protein, h	98.67
2orw_A	184	Thymidine kinase; TMTK, TP4A, transferase; HET: 4T	98.66
3gd7_A	390	Fusion complex of cystic fibrosis transmembrane co	98.66
1rj9_A	304	FTSY, signal recognition protein; SRP-GTPase domai	98.64
2pze_A	229	Cystic fibrosis transmembrane conductance regulat;	98.64
4a82_A	578	Cystic fibrosis transmembrane conductance regulat;	98.63
3qf4_A	587	ABC transporter, ATP-binding protein; multidrug tr	98.63
3j16_B	608	RLI1P; ribosome recycling, translation, eukarya, r	98.63
3bk7_A	607	ABC transporter ATP-binding protein; ABC ATPase, i	98.62
2yl4_A	595	ATP-binding cassette SUB-family B member 10, mitoc	98.61
1j8m_F	297	SRP54, signal recognition 54 kDa protein; signalin	98.61
2cbz_A	237	Multidrug resistance-associated protein 1; ABC pro	98.6
4b4t_M	434	26S protease regulatory subunit 6A; hydrolase, AAA	98.59
2yhs_A	503	FTSY, cell division protein FTSY; cell cycle, prot	98.58
3h4m_A	285	Proteasome-activating nucleotidase; ATPase, PAN, A	98.56
3kl4_A	433	SRP54, signal recognition 54 kDa protein; signal r	98.55
4b4t_H	467	26S protease regulatory subunit 7 homolog; hydrola	98.55
1c9k_A	180	COBU, adenosylcobinamide kinase; alpha/beta struct	98.53
2px0_A	296	Flagellar biosynthesis protein FLHF; SRP GTPase, f	98.52
2eyu_A	261	Twitching motility protein PILT; pilus retraction	98.51
2bbs_A	290	Cystic fibrosis transmembrane conductance regulato	98.5
3jvv_A	356	Twitching mobility protein; hexameric P-loop ATPas	98.49
3b9q_A	302	Chloroplast SRP receptor homolog, alpha subunit CP	98.48
3b85_A	208	Phosphate starvation-inducible protein; PHOH2, ATP	98.48
2j9r_A	214	Thymidine kinase; TK1, DNK, lasso, transferase, AT	98.47
2qby_A	386	CDC6 homolog 1, cell division control protein 6 ho	98.46
1xx6_A	191	Thymidine kinase; NESG, northeast structural genom	98.43
2og2_A	359	Putative signal recognition particle receptor; nuc	98.41
1xwi_A	322	SKD1 protein; VPS4B, AAA ATPase, protein transport	98.41
3ux8_A	670	Excinuclease ABC, A subunit; UVRA, nucleotide exci	98.41
2orv_A	234	Thymidine kinase; TP4A (P1-(5'-adenosyl)P4-(5'- (2	98.41
3g5u_A	1284	MCG1178, multidrug resistance protein 1A; P-glycop	98.4
1vma_A	306	Cell division protein FTSY; TM0570, structural gen	98.39
1fnn_A	389	CDC6P, cell division control protein 6; ORC1, AAA	98.38
2qz4_A	262	Paraplegin; AAA+, SPG7, protease, ADP, structural	98.38
3dm5_A	443	SRP54, signal recognition 54 kDa protein; protein-	98.37
3bos_A	242	Putative DNA replication factor; P-loop containing	98.35
3cf0_A	301	Transitional endoplasmic reticulum ATPase; AAA, P9	98.33
1lv7_A	257	FTSH; alpha/beta domain, four helix bundle, hydrol	98.31
3thx_A	934	DNA mismatch repair protein MSH2; ABC family ATPas	98.29
2v1u_A	387	Cell division control protein 6 homolog; DNA repli	98.28
2ce7_A	476	Cell division protein FTSH; metalloprotease; HET:	98.28
2z4s_A	440	Chromosomal replication initiator protein DNAA; AA	98.28
1l8q_A	324	Chromosomal replication initiator protein DNAA; AA	98.27
3e2i_A	219	Thymidine kinase; Zn-binding, ATP-binding, DNA syn	98.27
2ewv_A	372	Twitching motility protein PILT; pilus retraction	98.26
1w4r_A	195	Thymidine kinase; type II, human, cytosolic, phosp	98.26
2r8r_A	228	Sensor protein; KDPD, PFAM02702, MCSG, structural	98.26
1sq5_A	308	Pantothenate kinase; P-loop, transferase; HET: PAU	98.26
1ye8_A	178	Protein THEP1, hypothetical UPF0334 kinase-like pr	98.24
1zu4_A	320	FTSY; GTPase, signal recognition particle, SRP, re	98.24
3b9p_A	297	CG5977-PA, isoform A; AAA ATPase, ATP-binding, nuc	98.23
3eie_A	322	Vacuolar protein sorting-associated protein 4; AAA	98.23
1jbk_A	195	CLPB protein; beta barrel, chaperone; 1.80A {Esche	98.23
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	98.23
2w58_A	202	DNAI, primosome component (helicase loader); ATP-b	98.22
2i3b_A	189	HCR-ntpase, human cancer-related ntpase; AAA, ross	98.22
1ls1_A	295	Signal recognition particle protein; FFH, SRP54, S	98.21
3thx_B	918	DNA mismatch repair protein MSH3; ABC family ATPas	98.21
2pt7_A	330	CAG-ALFA; ATPase, protein-protein complex, type IV	98.2
2o8b_B	1022	DNA mismatch repair protein MSH6; DNA damage respo	98.2
3t15_A	293	Ribulose bisphosphate carboxylase/oxygenase activ	98.2
2iw3_A	986	Elongation factor 3A; acetylation, ATP-binding, pr	98.19
4f4c_A	1321	Multidrug resistance protein PGP-1; ABC transporte	98.19
1oft_A	161	SULA, hypothetical protein PA3008; bacterial cell	98.19
1sxj_E	354	Activator 1 40 kDa subunit; clamp loader, processi	98.17
2ffh_A	425	Protein (FFH); SRP54, signal recognition particle,	98.16
3g5u_A	1284	MCG1178, multidrug resistance protein 1A; P-glycop	98.16
2qp9_X	355	Vacuolar protein sorting-associated protein 4; ATP	98.15
2iw3_A	986	Elongation factor 3A; acetylation, ATP-binding, pr	98.14
4f4c_A	1321	Multidrug resistance protein PGP-1; ABC transporte	98.14
2qgz_A	308	Helicase loader, putative primosome component; str	98.13
2npi_A	460	Protein CLP1; CLP1-PCF11 complex, ATP binding, ter	98.12
2p65_A	187	Hypothetical protein PF08_0063; CLPB, malaria, str	98.11
2v3c_C	432	SRP54, signal recognition 54 kDa protein; nucleoti	98.1
4fcw_A	311	Chaperone protein CLPB; AAA domain; HET: ADP; 2.35	98.09
2x8a_A	274	Nuclear valosin-containing protein-like; nuclear p	98.07
2chg_A	226	Replication factor C small subunit; DNA-binding pr	98.05
2qm8_A	337	GTPase/ATPase; G protein, G3E, metallochaperone, c	98.05
1zp6_A	191	Hypothetical protein ATU3015; alpha-beta protein.,	98.03
1wb9_A	800	DNA mismatch repair protein MUTS; DNA-binding, ATP	98.02
3vfd_A	389	Spastin; ATPase, microtubule severing, hydrolase;	98.01
3d8b_A	357	Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, s	98.01
3ice_A	422	Transcription termination factor RHO; transcriptio	98.0
3hu3_A	489	Transitional endoplasmic reticulum ATPase; VCP, tr	97.99
2qby_B	384	CDC6 homolog 3, cell division control protein 6 ho	97.98
2xxa_A	433	Signal recognition particle protein; protein trans	97.97
3c8u_A	208	Fructokinase; YP_612366.1, putative fructose trans	97.96
2zan_A	444	Vacuolar protein sorting-associating protein 4B; S	97.96
2j37_W	504	Signal recognition particle 54 kDa protein (SRP54)	97.95
3n70_A	145	Transport activator; sigma-54, ntpase, PSI, MCSG,	97.95
1htw_A	158	HI0065; nucleotide-binding fold, structural genomi	97.94
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	97.94
2obl_A	347	ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O	97.93
3ux8_A	670	Excinuclease ABC, A subunit; UVRA, nucleotide exci	97.92
1ewq_A	765	DNA mismatch repair protein MUTS; multiple domains	97.91
4aby_A	415	DNA repair protein RECN; hydrolase, double strand	97.91
3syl_A	309	Protein CBBX; photosynthesis, rubisco activase, AA	97.91
2r6f_A	972	Excinuclease ABC subunit A; UVRA, nucleotide excis	97.91
4dzz_A	206	Plasmid partitioning protein PARF; deviant walker	97.91
1g5t_A	196	COB(I)alamin adenosyltransferase; P-loop protein,	97.9
3uie_A	200	Adenylyl-sulfate kinase 1, chloroplastic; rossmann	97.9
1rz3_A	201	Hypothetical protein rbstp0775; MCSG, structural g	97.87
2ygr_A	993	Uvrabc system protein A; hydrolase, nucleotide exc	97.87
1ixz_A	254	ATP-dependent metalloprotease FTSH; AAA domain fol	97.84
2pez_A	179	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	97.84
2gza_A	361	Type IV secretion system protein VIRB11; ATPase, h	97.84
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	97.84
2vf7_A	842	UVRA2, excinuclease ABC, subunit A.; DNA-binding p	97.83
2dpy_A	438	FLII, flagellum-specific ATP synthase; beta barrel	97.82
4eun_A	200	Thermoresistant glucokinase; putative sugar kinase	97.82
2yvu_A	186	Probable adenylyl-sulfate kinase; transferase, str	97.8
3oaa_A	513	ATP synthase subunit alpha; rossmann fold, hydrola	97.8
1znw_A	207	Guanylate kinase, GMP kinase; ATP:GMP-phosphotrans	97.79
1e69_A	322	Chromosome segregation SMC protein; structural mai	97.79
2ck3_A	510	ATP synthase subunit alpha\, mitochondrial; hydrol	97.77
2qe7_A	502	ATP synthase subunit alpha; blockage of ATP hydrol	97.77
3aez_A	312	Pantothenate kinase; transferase, homodimer, COA b	97.76
1njg_A	250	DNA polymerase III subunit gamma; rossman-like fol	97.76
1sxj_A	516	Activator 1 95 kDa subunit; clamp loader, processi	97.76
3tr0_A	205	Guanylate kinase, GMP kinase; purines, pyrimidines	97.75
2r9v_A	515	ATP synthase subunit alpha; TM1612, structural gen	97.75
1kgd_A	180	CASK, peripheral plasma membrane CASK; maguk, guan	97.74
3end_A	307	Light-independent protochlorophyllide reductase ir	97.74
2r2a_A	199	Uncharacterized protein; zonular occludens toxin,	97.73
2ck3_D	482	ATP synthase subunit beta\, mitochondrial; hydrola	97.73
1fx0_B	498	ATP synthase beta chain; latent ATPase, thermal st	97.73
2dhr_A	499	FTSH; AAA+ protein, hexameric Zn metalloprotease,	97.72
3te6_A	318	Regulatory protein SIR3; heterochromatin, gene sil	97.72
3asz_A	211	Uridine kinase; cytidine phosphorylation, transfer	97.71
1sxj_C	340	Activator 1 40 kDa subunit; clamp loader, processi	97.7
3zq6_A	324	Putative arsenical pump-driving ATPase; tail-ancho	97.7
1sxj_D	353	Activator 1 41 kDa subunit; clamp loader, processi	97.69
1d2n_A	272	N-ethylmaleimide-sensitive fusion protein; hexamer	97.67
1s96_A	219	Guanylate kinase, GMP kinase; E.coli, dimer, SAD,	97.67
2v9p_A	305	Replication protein E1; AAA+ molecular motor, DNA	97.66
1iy2_A	278	ATP-dependent metalloprotease FTSH; AAA domain fol	97.66
1z6g_A	218	Guanylate kinase; structural genomics, SGC, struct	97.65
3pih_A	916	Uvrabc system protein A; hydrolase, ABC ATPase, DN	97.65
1w5s_A	412	Origin recognition complex subunit 2 ORC2; replica	97.64
3szr_A	608	Interferon-induced GTP-binding protein MX1; interf	97.64
1tue_A	212	Replication protein E1; helicase, replication, E1E	97.63
2jeo_A	245	Uridine-cytidine kinase 1; UCK, transferase, ATP-b	97.62
3u61_B	324	DNA polymerase accessory protein 44; AAA+, ATP hyd	97.61
3co5_A	143	Putative two-component system transcriptional RES	97.61
3cio_A	299	ETK, tyrosine-protein kinase ETK; WZC, escherichia	97.61
3l0o_A	427	Transcription termination factor RHO; helicase, RH	97.6
3ug7_A	349	Arsenical pump-driving ATPase; tail-anchored, memb	97.6
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	97.59
2j41_A	207	Guanylate kinase; GMP, GMK, transferase, ATP-bindi	97.58
1wcv_1	257	SOJ, segregation protein; ATPase, bacterial, chrom	97.58
3pvs_A	447	Replication-associated recombination protein A; ma	97.58
3iqw_A	334	Tail-anchored protein targeting factor GET3; ATPas	97.57
1lvg_A	198	Guanylate kinase, GMP kinase; transferase; HET: AD	97.57
1knq_A	175	Gluconate kinase; ALFA/beta structure, transferase	97.57
3kjh_A	254	CO dehydrogenase/acetyl-COA synthase complex, acce	97.56
3fkq_A	373	NTRC-like two-domain protein; RER070207001320, str	97.56
1fx0_A	507	ATP synthase alpha chain; latent ATPase, thermal s	97.55
1ofh_A	310	ATP-dependent HSL protease ATP-binding subunit HSL	97.54
1p9r_A	418	General secretion pathway protein E; bacterial typ	97.53
1sxj_B	323	Activator 1 37 kDa subunit; clamp loader, processi	97.53
2bjv_A	265	PSP operon transcriptional activator; AAA, transcr	97.53
3bfv_A	271	CAPA1, CAPB2, membrane protein CAPA1, protein tyro	97.52
1sky_E	473	F1-ATPase, F1-ATP synthase; F1FO ATP synthase, alp	97.51
2rhm_A	193	Putative kinase; P-loop containing nucleoside trip	97.49
3tau_A	208	Guanylate kinase, GMP kinase; structural genomics,	97.49
1m7g_A	211	Adenylylsulfate kinase; APS kinase, transferase, s	97.49
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	97.48
3p32_A	355	Probable GTPase RV1496/MT1543; structural genomics	97.46
3lnc_A	231	Guanylate kinase, GMP kinase; ALS collaborative cr	97.46
3q9l_A	260	Septum site-determining protein MIND; ATPase, bact	97.46
3a4m_A	260	L-seryl-tRNA(SEC) kinase; P-loop motif, walker A m	97.44
3la6_A	286	Tyrosine-protein kinase WZC; P-loop protein, nucle	97.44
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	97.44
3a00_A	186	Guanylate kinase, GMP kinase; domain movement, dim	97.43
3e1s_A	574	Exodeoxyribonuclease V, subunit RECD; alpha and be	97.43
1jr3_A	373	DNA polymerase III subunit gamma; processivity, pr	97.43
3tqc_A	321	Pantothenate kinase; biosynthesis of cofactors, pr	97.42
2bdt_A	189	BH3686; alpha-beta protein, structural genomics, P	97.42
2qen_A	350	Walker-type ATPase; unknown function; HET: ADP; 2.	97.41
3vaa_A	199	Shikimate kinase, SK; structural genomics, center	97.41
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	97.4
3pfi_A	338	Holliday junction ATP-dependent DNA helicase RUVB;	97.38
3vr4_D	465	V-type sodium ATPase subunit D; V-ATPase, rotary m	97.38
4eaq_A	229	DTMP kinase, thymidylate kinase; structural genomi	97.37
3mfy_A	588	V-type ATP synthase alpha chain; A-type ATP syntha	97.36
1np6_A	174	Molybdopterin-guanine dinucleotide biosynthesis pr	97.36
1xjc_A	169	MOBB protein homolog; structural genomics, midwest	97.35
1nks_A	194	Adenylate kinase; thermophilic, transferase; HET:	97.34
2ius_A	512	DNA translocase FTSK; nucleotide-binding, chromoso	97.34
2c61_A	469	A-type ATP synthase non-catalytic subunit B; hydro	97.33
1ojl_A	304	Transcriptional regulatory protein ZRAR; response	97.33
1kht_A	192	Adenylate kinase; phosphotransferase, signaling pr	97.33
1hqc_A	324	RUVB; extended AAA-ATPase domain, complex with nuc	97.33
1kag_A	173	SKI, shikimate kinase I; transferase, structural g	97.3
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	97.3
2p67_A	341	LAO/AO transport system kinase; ARGK, structural G	97.29
1hyq_A	263	MIND, cell division inhibitor (MIND-1); MINC, FTSZ	97.28
2qor_A	204	Guanylate kinase; phosphotransferase, purine metab	97.28
2a5y_B	549	CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis	97.27
2woo_A	329	ATPase GET3; tail-anchored, membrane protein, targ	97.27
3gqb_B	464	V-type ATP synthase beta chain; A3B3, V-ATPase, AT	97.27
2vp4_A	230	Deoxynucleoside kinase; ATP-binding, DNA synthesis	97.26
2plr_A	213	DTMP kinase, probable thymidylate kinase; TMP-bind	97.26
1iqp_A	327	RFCS; clamp loader, extended AAA-ATPase domain, co	97.26
3vr4_A	600	V-type sodium ATPase catalytic subunit A; V-ATPase	97.23
1a5t_A	334	Delta prime, HOLB; zinc finger, DNA replication; 2	97.22
3fwy_A	314	Light-independent protochlorophyllide reductase I	97.21
2axn_A	520	6-phosphofructo-2-kinase/fructose-2,6- biphosphata	97.21
1yrb_A	262	ATP(GTP)binding protein; GTPase, P-loop, rossman f	97.2
2www_A	349	Methylmalonic aciduria type A protein, mitochondri	97.2
2qt1_A	207	Nicotinamide riboside kinase 1; non-protein kinase	97.2
2c9o_A	456	RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-	97.19
2gno_A	305	DNA polymerase III, gamma subunit-related protein;	97.19
3ney_A	197	55 kDa erythrocyte membrane protein; structural ge	97.17
3cr8_A	552	Sulfate adenylyltranferase, adenylylsulfate kinase	97.17
1nn5_A	215	Similar to deoxythymidylate kinase (thymidylate K;	97.17
2bbw_A	246	Adenylate kinase 4, AK4; nucleotide kinase, nucleo	97.15
1qhx_A	178	CPT, protein (chloramphenicol phosphotransferase);	97.15
3cm0_A	186	Adenylate kinase; ATP-binding, cytoplasm, nucleoti	97.15
3igf_A	374	ALL4481 protein; two-domained protein consisting o	97.15
1um8_A	376	ATP-dependent CLP protease ATP-binding subunit CL;	97.14
1svm_A	377	Large T antigen; AAA+ fold, viral protein; HET: AT	97.13
1gvn_B	287	Zeta; postsegregational killing system, plasmid; 1	97.13
4a8j_A	361	Elongator complex protein 4; transcription; 2.10A	97.12
3kta_A	182	Chromosome segregation protein SMC; structural mai	97.12
2wwf_A	212	Thymidilate kinase, putative; transferase, malaria	97.09
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	97.08
1cp2_A	269	CP2, nitrogenase iron protein; oxidoreductase; 1.9	97.05
1odf_A	290	YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser	97.05
3kb2_A	173	SPBC2 prophage-derived uncharacterized protein YOR	97.04
3uk6_A	368	RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding	97.03
1a7j_A	290	Phosphoribulokinase; transferase, calvin cycle; 2.	97.03
4e22_A	252	Cytidylate kinase; P-loop, CMP/ATP binding, transf	97.02
2z0h_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	97.01
2p5t_B	253	PEZT; postsegregational killing system, phosphoryl	97.0
2pbr_A	195	DTMP kinase, thymidylate kinase; transferase, nucl	96.99
3llm_A	235	ATP-dependent RNA helicase A; alpha-beta-alpha, st	96.99
1y63_A	184	LMAJ004144AAA protein; structural genomics, protei	96.97
3sop_A	270	Neuronal-specific septin-3; hydrolase; HET: GDP; 2	96.97
3euj_A	483	Chromosome partition protein MUKB, linker; MUKB, M	96.97
3io3_A	348	DEHA2D07832P; chaperone, membrane traffic, ATPase;	96.96
2oap_1	511	GSPE-2, type II secretion system protein; hexameri	96.96
3t61_A	202	Gluconokinase; PSI-biology, structural genomics, p	96.96
3qxc_A	242	Dethiobiotin synthetase; DTBS, structural genomics	96.96
2fna_A	357	Conserved hypothetical protein; structural genomic	96.95
2afh_E	289	Nitrogenase iron protein 1; nitrogen fixation, iro	96.95
2c95_A	196	Adenylate kinase 1; transferase, AP4A, nucleotide	96.95
4ag6_A	392	VIRB4 ATPase, type IV secretory pathway VIRB4 comp	96.94
3trf_A	185	Shikimate kinase, SK; amino acid biosynthesis, tra	96.94
3iij_A	180	Coilin-interacting nuclear ATPase protein; alpha a	96.93
1ly1_A	181	Polynucleotide kinase; PNK, phosphatase, transfera	96.93
3lw7_A	179	Adenylate kinase related protein (ADKA-like); AMP,	96.92
2f1r_A	171	Molybdopterin-guanine dinucleotide biosynthesis pr	96.91
1cke_A	227	CK, MSSA, protein (cytidine monophosphate kinase);	96.91
1gtv_A	214	TMK, thymidylate kinase; transferase, transferase	96.9
1in4_A	334	RUVB, holliday junction DNA helicase RUVB; AAA+-cl	96.89
1tev_A	196	UMP-CMP kinase; ploop, NMP binding region, LID reg	96.89
3ea0_A	245	ATPase, para family; alpha-beta-alpha sandwich, st	96.89
4b3f_X	646	DNA-binding protein smubp-2; hydrolase, helicase;	96.88
3zvl_A	416	Bifunctional polynucleotide phosphatase/kinase; hy	96.88
2yv5_A	302	YJEQ protein; hydrolase, GTPase, permutation, stru	96.88
3umf_A	217	Adenylate kinase; rossmann fold, transferase; 2.05	96.88
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	96.87
2ze6_A	253	Isopentenyl transferase; crown GALL tumor, cytokin	96.85
2v54_A	204	DTMP kinase, thymidylate kinase; nucleotide biosyn	96.82
2qag_B	427	Septin-6, protein NEDD5; cell cycle, cell division	96.81
3fgn_A	251	Dethiobiotin synthetase; biotin biosynthesis, BIOD	96.81
2iut_A	574	DNA translocase FTSK; nucleotide-binding, chromoso	96.8
4edh_A	213	DTMP kinase, thymidylate kinase; structural genomi	96.79
1ihu_A	589	Arsenical pump-driving ATPase; aluminum fluoride,	96.78
1ihu_A	589	Arsenical pump-driving ATPase; aluminum fluoride,	96.78
1zd8_A	227	GTP:AMP phosphotransferase mitochondrial; ATP:AMP	96.77
2woj_A	354	ATPase GET3; tail-anchored, membrane protein, targ	96.75
1aky_A	220	Adenylate kinase; ATP:AMP phosphotransferase, myok	96.75
2dy1_A	665	Elongation factor G; translocation, GTP complex, s	96.75
1uj2_A	252	Uridine-cytidine kinase 2; alpha/beta mononucleoti	96.74
2cdn_A	201	Adenylate kinase; phosphoryl transfer, associative	96.73
2bwj_A	199	Adenylate kinase 5; phosphoryl transfer reaction,	96.73
3v9p_A	227	DTMP kinase, thymidylate kinase; ssgcid, STRU geno	96.72
3k9g_A	267	PF-32 protein; ssgcid, SBRI, decode biostructures,	96.72
1via_A	175	Shikimate kinase; structural genomics, transferase	96.71
2vli_A	183	Antibiotic resistance protein; transferase, tunica	96.71
1nij_A	318	Hypothetical protein YJIA; structural genomics, P-	96.7
2oze_A	298	ORF delta'; para, walker type atpases, DNA segrega	96.69
1jjv_A	206	Dephospho-COA kinase; P-loop nucleotide-binding fo	96.69
2xau_A	773	PRE-mRNA-splicing factor ATP-dependent RNA helica;	96.68
2if2_A	204	Dephospho-COA kinase; alpha-beta protein, structur	96.67
1u0l_A	301	Probable GTPase ENGC; permutation, OB-fold, zinc-f	96.67
1bif_A	469	6-phosphofructo-2-kinase/ fructose-2,6-bisphospha;	96.66
1lw7_A	365	Transcriptional regulator NADR; NMN, NMN adenylyl	96.65
2rcn_A	358	Probable GTPase ENGC; YJEQ, circularly permuted, G	96.65
2ph1_A	262	Nucleotide-binding protein; alpha-beta protein, st	96.64
1zak_A	222	Adenylate kinase; ATP:AMP-phosphotransferase, tran	96.64
3nwj_A	250	ATSK2; P loop, shikimate, nucleoside monophosphate	96.63
1g3q_A	237	MIND ATPase, cell division inhibitor; alpha-beta-a	96.62
2jaq_A	205	Deoxyguanosine kinase; transferase, deoxyribonucle	96.62
2iyv_A	184	Shikimate kinase, SK; transferase, aromatic amino	96.61
2r62_A	268	Cell division protease FTSH homolog; ATPase domain	96.6
3cwq_A	209	Para family chromosome partitioning protein; alpha	96.6
3upu_A	459	ATP-dependent DNA helicase DDA; RECA-like domain,	96.59
3lv8_A	236	DTMP kinase, thymidylate kinase; structural genomi	96.59
3gqb_A	578	V-type ATP synthase alpha chain; A3B3, V-ATPase, A	96.57
1qf9_A	194	UMP/CMP kinase, protein (uridylmonophosphate/cytid	96.55
3be4_A	217	Adenylate kinase; malaria, cryptosporidium parvum	96.55
3qf7_A	365	RAD50; ABC-ATPase, ATPase, hydrolase; HET: ANP; 1.	96.55
3sr0_A	206	Adenylate kinase; phosphoryl transfer analogue, AL	96.54
1f2t_A	149	RAD50 ABC-ATPase; DNA double-strand break repair,	96.53
1u0j_A	267	DNA replication protein; AAA+ protein, P-loop atpa	96.53
1ex7_A	186	Guanylate kinase; substrate-induced FIT, domain mo	96.52
3tlx_A	243	Adenylate kinase 2; structural genomics, structura	96.52
3fb4_A	216	Adenylate kinase; psychrophIle, phosphotransferase	96.52
1tq4_A	413	IIGP1, interferon-inducible GTPase; interferon gam	96.52
4tmk_A	213	Protein (thymidylate kinase); ATP:DTMP phosphotran	96.51
1zuh_A	168	Shikimate kinase; alpha-beta protein, transferase;	96.5
1ukz_A	203	Uridylate kinase; transferase; HET: ADP AMP; 1.90A	96.47
1t9h_A	307	YLOQ, probable GTPase ENGC; N-terminal beta-barrel	96.46
1e6c_A	173	Shikimate kinase; phosphoryl transfer, ADP, shikim	96.45
3m6a_A	543	ATP-dependent protease LA 1; alpha, beta, ATP-bind	96.45
3pxg_A	468	Negative regulator of genetic competence CLPC/MEC;	96.45
1pui_A	210	ENGB, probable GTP-binding protein ENGB; structura	96.45
1ofu_X	119	SULA, hypothetical protein PA3008; bacterial cell	96.44
1q3t_A	236	Cytidylate kinase; nucleotide monophosphate kinase	96.43
2qmh_A	205	HPR kinase/phosphorylase; V267F mutation, ATP-bind	96.43
2wsm_A	221	Hydrogenase expression/formation protein (HYPB); m	96.42
3d3q_A	340	TRNA delta(2)-isopentenylpyrophosphate transferase	96.42
3ld9_A	223	DTMP kinase, thymidylate kinase; ssgcid, NIH, niai	96.4
3dl0_A	216	Adenylate kinase; phosphotransferase, zinc coordin	96.38
3r20_A	233	Cytidylate kinase; structural genomics, seattle st	96.38
1vht_A	218	Dephospho-COA kinase; structural genomics, transfe	96.38
1uf9_A	203	TT1252 protein; P-loop, nucleotide binding domain,	96.38
2pt5_A	168	Shikimate kinase, SK; aromatic amino acid biosynth	96.34
3k1j_A	604	LON protease, ATP-dependent protease LON; ATP-bind	96.34
1ak2_A	233	Adenylate kinase isoenzyme-2; nucleoside monophosp	96.33
3hws_A	363	ATP-dependent CLP protease ATP-binding subunit CL;	96.29
2o5v_A	359	DNA replication and repair protein RECF; ABC ATPas	96.26
1w1w_A	430	Structural maintenance of chromosome 1; cohesin, c	96.24
2xb4_A	223	Adenylate kinase; ATP-binding, nucleotide-binding,	96.23
2v6i_A	431	RNA helicase; membrane, hydrolase, transmembrane,	96.22
2xj4_A	286	MIPZ; replication, cell division, ATPase, WACA; 1.	96.21
2va8_A	715	SSO2462, SKI2-type helicase; hydrolase, DNA repair	96.2
1e4v_A	214	Adenylate kinase; transferase(phosphotransferase);	96.15
1qhl_A	227	Protein (cell division protein MUKB); SMC, chromos	96.14
3a8t_A	339	Adenylate isopentenyltransferase; rossmann fold pr	96.13
3ake_A	208	Cytidylate kinase; CMP kinase, CMP complex, open c	96.12
1x6v_B	630	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	96.09
1e9r_A	437	Conjugal transfer protein TRWB; coupling protein,	96.09
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	96.07
1byi_A	224	Dethiobiotin synthase; biotin synthesis, cyclo-lig	96.06
3qks_A	203	DNA double-strand break repair RAD50 ATPase; RECA-	96.05
2hf9_A	226	Probable hydrogenase nickel incorporation protein	96.01
1m8p_A	573	Sulfate adenylyltransferase; rossmann fold, phosph	96.0
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	95.98
3tqf_A	181	HPR(Ser) kinase; transferase, hydrolase; 2.80A {Co	95.97
3pg5_A	361	Uncharacterized protein; structural genomics, PSI-	95.96
4dcu_A	456	GTP-binding protein ENGA; GTPase, GDP, protein bin	95.96
2ga8_A	359	Hypothetical 39.9 kDa protein; YFR007W, YFH7, unkn	95.96
2jlq_A	451	Serine protease subunit NS3; ribonucleoprotein, nu	95.95
2gks_A	546	Bifunctional SAT/APS kinase; transferase, sulfuryl	95.94
1ltq_A	301	Polynucleotide kinase; phosphatase, alpha/beta, P-	95.92
3exa_A	322	TRNA delta(2)-isopentenylpyrophosphate transferase	95.91
2gj8_A	172	MNME, tRNA modification GTPase TRME; G-domain dime	95.87
2grj_A	192	Dephospho-COA kinase; TM1387, EC 2.7.1.24, dephosp	95.87
3crm_A	323	TRNA delta(2)-isopentenylpyrophosphate transferase	95.85
3foz_A	316	TRNA delta(2)-isopentenylpyrophosphate transferas;	95.84
2f6r_A	281	COA synthase, bifunctional coenzyme A synthase; 18	95.83
2gk6_A	624	Regulator of nonsense transcripts 1; UPF1, helicas	95.82
2chq_A	319	Replication factor C small subunit; DNA-binding pr	95.82
3qkt_A	339	DNA double-strand break repair RAD50 ATPase; RECA-	95.76
3tmk_A	216	Thymidylate kinase; phosphotransferase; HET: T5A;	95.75
4hlc_A	205	DTMP kinase, thymidylate kinase; TMK, MRSA, pipiri	95.74
1ni3_A	392	YCHF GTPase, YCHF GTP-binding protein; structural	95.73
3sfz_A	1249	APAF-1, apoptotic peptidase activating factor 1; a	95.68
3hjn_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	95.67
2ocp_A	241	DGK, deoxyguanosine kinase; protein-nucleotide com	95.64
2r44_A	331	Uncharacterized protein; putative ATPase, structur	95.59
2wji_A	165	Ferrous iron transport protein B homolog; membrane	95.58
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	95.58
3eph_A	409	TRNA isopentenyltransferase; transferase, alternat	95.52
3ez2_A	398	Plasmid partition protein A; type IA, DNA binding,	95.5
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	95.37
3t1o_A	198	Gliding protein MGLA; G domain containing protein,	95.36
1g8p_A	350	Magnesium-chelatase 38 kDa subunit; parallel beta	95.35
2xzl_A	802	ATP-dependent helicase NAM7; hydrolase-RNA complex	95.25
3ch4_B	202	Pmkase, phosphomevalonate kinase; parallel beta-sh	95.24
1g8f_A	511	Sulfate adenylyltransferase; alpha-beta protein, b	95.23
2wjy_A	800	Regulator of nonsense transcripts 1; nonsense medi	95.23
2wjg_A	188	FEOB, ferrous iron transport protein B homolog; me	95.19
1g41_A	444	Heat shock protein HSLU; AAA-ATPase, CLPY, ATP-dep	95.16
2zj8_A	720	DNA helicase, putative SKI2-type helicase; RECA fo	95.14
3ez9_A	403	Para; DNA binding, winged-HTH, partition, biosynth	95.13
1w36_D	608	RECD, exodeoxyribonuclease V alpha chain; recombin	95.12
2h92_A	219	Cytidylate kinase; rossmann fold, transferase; HET	95.11
2qnr_A	301	Septin-2, protein NEDD5; structural genomics conso	95.05
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	95.03
3nbx_X	500	ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structu	95.03
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	95.02
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	95.02
2dyk_A	161	GTP-binding protein; GTPase, ribosome-binding prot	95.0
1p5z_B	263	DCK, deoxycytidine kinase; nucleoside kinase, P-lo	94.96
2ged_A	193	SR-beta, signal recognition particle receptor beta	94.84
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	94.84
1g16_A	170	RAS-related protein SEC4; G protein RAB, signaling	94.84
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	94.83
3auy_A	371	DNA double-strand break repair RAD50 ATPase; DNA r	94.81
1ek0_A	170	Protein (GTP-binding protein YPT51); vesicular tra	94.79
2hjg_A	436	GTP-binding protein ENGA; GTPase ENGA KH-domain, h	94.77
2c78_A	405	Elongation factor TU-A; hydrolase, GTPase, transla	94.76
1z08_A	170	RAS-related protein RAB-21; RAB GTPase, vesicular	94.76
1wms_A	177	RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, p	94.74
1z0j_A	170	RAB-22, RAS-related protein RAB-22A; RAB GTPase, R	94.73
3q85_A	169	GTP-binding protein REM 2; G-domain, CAV2 beta, si	94.73
1r8s_A	164	ADP-ribosylation factor 1; protein transport/excha	94.72
2erx_A	172	GTP-binding protein DI-RAS2; GTP hydrolysis, trans	94.72
1ega_A	301	Protein (GTP-binding protein ERA); GTPase, RNA-bin	94.71
1ky3_A	182	GTP-binding protein YPT7P; vesicular traffic, GTP	94.7
3q72_A	166	GTP-binding protein RAD; G-domain, CAV2 beta, sign	94.68

>3hr8_A Protein RECA; alpha and beta proteins (A/B, A+B), ATP-binding, cytoplasm, damage, DNA recombination, DNA repair, DNA-binding; 1.95A {Thermotoga maritima}

Probab=100.00  E-value=5.3e-32  Score=242.30  Aligned_cols=200  Identities=49%  Similarity=0.755  Sum_probs=179.6

Q ss_pred             chHHHHHHHHHHHHHHHhcCCccccccccccCCCCCCccccCcHHHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHH
Q 024705           63 IMQKDNALRLALSQLANDFGKESMLSLKRFFGSRRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIK  142 (264)
Q Consensus        63 ~~~~~~~l~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~i~tG~~~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~  142 (264)
                      ..++.++|..++.|++++||++..+++.......+.++++||+++||.+||+||+++|++++|+||||+|||||+++++.
T Consensus         4 ~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~i~TG~~~LD~~Lg~GGi~~G~i~~I~GppGsGKSTLal~la~   83 (356)
T 3hr8_A            4 EKQKKSVLEKALKRIEENFGKGSIMILGDETQVQPVEVIPTGSLAIDIATGVGGYPRGRIVEIFGQESSGKTTLALHAIA   83 (356)
T ss_dssp             CHHHHHHHHHHHHHHHHHHCTTSSCCTTCCSCCCCCCEECCSCHHHHHHTSSSSEETTEEEEEEESTTSSHHHHHHHHHH
T ss_pred             chHHHHHHHHHHHHHHHHhCCCCceechhccccCCCceecCCCHHHHHHhccCCccCCcEEEEECCCCCCHHHHHHHHHH
Confidence            35688899999999999999998888776543333789999999999999889999999999999999999999999999


Q ss_pred             HHhhcCCeEEEEecCCCCCHHHHHHcCCCccceeEeCCCCHHHHHHHHHHHhhcCCccEEEEcCccccccccccCCCcCC
Q 024705          143 EAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPING  222 (264)
Q Consensus       143 ~~~~~g~~v~~~~~e~~~~~~~~~~~g~~~~~l~~~~~~~~ee~~~~i~~~~~~~~~~~vvIDsl~~~~~~~~~~~~~~~  222 (264)
                      .+...+++|+|++.|+...+.+++++|++++++.+..+.+.++++..++.++...++++++|||++.+++..++++.+++
T Consensus        84 ~~~~~gg~VlyId~E~s~~~~ra~rlgv~~~~l~i~~~~~~e~~l~~~~~l~~~~~~dlvVIDSi~~l~~~~el~g~~G~  163 (356)
T 3hr8_A           84 EAQKMGGVAAFIDAEHALDPVYAKNLGVDLKSLLISQPDHGEQALEIVDELVRSGVVDLIVVDSVAALVPRAEIEGAMGD  163 (356)
T ss_dssp             HHHHTTCCEEEEESSCCCCHHHHHHHTCCGGGCEEECCSSHHHHHHHHHHHHHTSCCSEEEEECTTTCCCHHHHTTCCCS
T ss_pred             HHHhcCCeEEEEecccccchHHHHHcCCchhhhhhhhccCHHHHHHHHHHHhhhcCCCeEEehHhhhhcChhhhcccchh
Confidence            99999999999999999999999999999999999999999999999988888789999999999999976788887777


Q ss_pred             CCcHHHHHHHHHHHHHHHHHHhccCcEEEEEcccchHhhh
Q 024705          223 MYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVKVLLLK  262 (264)
Q Consensus       223 ~~~~~q~r~i~~~L~~l~~~l~~~g~tVi~i~h~~~~~~~  262 (264)
                      ...+.+++.+++.++.|...+++.|++||++||+++++..
T Consensus       164 ~q~~~qar~la~~L~~L~~lak~~~~tVI~inqv~~k~g~  203 (356)
T 3hr8_A          164 MQVGLQARLMSQALRKIAGSVNKSKAVVIFTNQIRMKIGV  203 (356)
T ss_dssp             SCSSHHHHHHHHHHHHHHHHHHTSSCEEEEEEESSSCSSS
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHhcCCEEEEEeeeeecccc
Confidence            6667888999999999998889999999999999766543

>2zr9_A Protein RECA, recombinase A; recombination, RECA mutants, DNA-repair, ATP-binding, DNA DA recombination, DNA repair, DNA-binding; HET: DTP; 2.50A {Mycobacterium smegmatis str} PDB: 2zr0_A* 2zra_A* 2zrb_A 2zrm_A* 1ubc_A* 1ubf_A* 1ubg_A* 1ube_A* 2g88_A* 2odw_A* 2oe2_A 2oep_A* 2oes_A 2ofo_A 2zr7_A 2odn_A* 2zrn_A 2zro_A* 2zrp_A* 2zre_A* ...

Probab=99.97  E-value=6.4e-31  Score=235.57  Aligned_cols=198  Identities=46%  Similarity=0.761  Sum_probs=168.6

Q ss_pred             hHHHHHHHHHHHHHHHhcCCccccccccccCCCCCCccccCcHHHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHH
Q 024705           64 MQKDNALRLALSQLANDFGKESMLSLKRFFGSRRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKE  143 (264)
Q Consensus        64 ~~~~~~l~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~i~tG~~~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~  143 (264)
                      .++.+.|+.+++++++.||++..+.+.+.. ......++||++.||.++++||+++|++++|+||||+|||||+++++.+
T Consensus         6 ~~~~~~~~~~~~~i~~~~~~~~~~~l~~~~-~~~~~~i~TG~~~LD~~Lg~GGl~~G~iv~I~G~pGsGKTtLal~la~~   84 (349)
T 2zr9_A            6 PDREKALELAMAQIDKNFGKGSVMRLGEEV-RQPISVIPTGSISLDVALGIGGLPRGRVIEIYGPESSGKTTVALHAVAN   84 (349)
T ss_dssp             CCHHHHHHHHHHHHHHHHCTTSSCCTTCCC-CCCCCEECCSCHHHHHHTSSSSEETTSEEEEEESTTSSHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHhhCCCCceeccccc-cccCCccccCCHHHHHHhccCCccCCeEEEEECCCCCCHHHHHHHHHHH
Confidence            357789999999999999999887776643 3567899999999999998789999999999999999999999999999


Q ss_pred             HhhcCCeEEEEecCCCCCHHHHHHcCCCccceeEeCCCCHHHHHHHHHHHhhcCCccEEEEcCccccccccccCCCcCCC
Q 024705          144 AQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGM  223 (264)
Q Consensus       144 ~~~~g~~v~~~~~e~~~~~~~~~~~g~~~~~l~~~~~~~~ee~~~~i~~~~~~~~~~~vvIDsl~~~~~~~~~~~~~~~~  223 (264)
                      ++..|++|+|++.|+...+.+++++|++.+++.+.++.+.+++++.++.++...++++|||||++.+.+..++++.+++.
T Consensus        85 ~~~~g~~vlyi~~E~~~~~~~a~~lG~~~~~l~i~~~~~~e~~l~~~~~l~~~~~~~lIVIDsl~~l~~~~e~~~~~gd~  164 (349)
T 2zr9_A           85 AQAAGGIAAFIDAEHALDPEYAKKLGVDTDSLLVSQPDTGEQALEIADMLVRSGALDIIVIDSVAALVPRAEIEGEMGDS  164 (349)
T ss_dssp             HHHTTCCEEEEESSCCCCHHHHHHTTCCGGGCEEECCSSHHHHHHHHHHHHTTTCCSEEEEECGGGCCCHHHHTTC----
T ss_pred             HHhCCCeEEEEECCCCcCHHHHHHcCCCHHHeEEecCCCHHHHHHHHHHHHhcCCCCEEEEcChHhhcchhhhccccccc
Confidence            99999999999999999888899999999999999999999999988888877889999999999998655665554443


Q ss_pred             CcHHHHHHHHHHHHHHHHHHhccCcEEEEEcccchHhhh
Q 024705          224 YSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVKVLLLK  262 (264)
Q Consensus       224 ~~~~q~r~i~~~L~~l~~~l~~~g~tVi~i~h~~~~~~~  262 (264)
                      ..+.|++.+.+.+++|...+++.|++||++||++++++.
T Consensus       165 ~~~~q~r~~~~~l~~L~~~a~~~~~tVI~inh~~~~~~~  203 (349)
T 2zr9_A          165 HVGLQARLMSQALRKMTGALNNSGTTAIFINELREKIGV  203 (349)
T ss_dssp             CCCHHHHHHHHHHHHHHHHHHHHTCEEEEEEECC-----
T ss_pred             hhhHHHHHHHHHHHHHHHHHHHhCCEEEEEeccccccCc
Confidence            333567778899999998889999999999999987653

>1u94_A RECA protein, recombinase A; homologous recombination, ATPase, DNA repair, DNA binding protein; 1.90A {Escherichia coli} SCOP: c.37.1.11 d.48.1.1 PDB: 1u98_A 1u99_A 1xms_A* 1xmv_A* 2rec_A 2reb_A 1n03_A* 1rea_A 1aa3_A

Probab=99.97  E-value=1.7e-30  Score=233.17  Aligned_cols=198  Identities=52%  Similarity=0.751  Sum_probs=163.9

Q ss_pred             HHHHHHHHHHHHHHHhcCCccccccccccCCCCCCccccCcHHHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHH
Q 024705           65 QKDNALRLALSQLANDFGKESMLSLKRFFGSRRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEA  144 (264)
Q Consensus        65 ~~~~~l~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~i~tG~~~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~  144 (264)
                      ++.+.|+.+++++++.||++..+.+.+.. ......++||++.||.++++||+++|++++|+|+||+|||||+++++.++
T Consensus         9 ~~~~~l~~~~~~i~~~~~~~~~~~l~~~~-~~~~~~i~TG~~~LD~~Lg~GGl~~G~ii~I~G~pGsGKTtLal~la~~~   87 (356)
T 1u94_A            9 NKQKALAAALGQIEKQFGKGSIMRLGEDR-SMDVETISTGSLSLDIALGAGGLPMGRIVEIYGPESSGKTTLTLQVIAAA   87 (356)
T ss_dssp             -CHHHHHHHHHHHHHHHCTTSSCCTTCCC-BCCCCEECCSCHHHHHHTSSSSEETTSEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhhCCCCceEccccc-cccCCcccCCCHHHHHHhccCCccCCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            56789999999999999999887776643 35688999999999999976899999999999999999999999999999


Q ss_pred             hhcCCeEEEEecCCCCCHHHHHHcCCCccceeEeCCCCHHHHHHHHHHHhhcCCccEEEEcCccccccccccCCCcCCCC
Q 024705          145 QKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMY  224 (264)
Q Consensus       145 ~~~g~~v~~~~~e~~~~~~~~~~~g~~~~~l~~~~~~~~ee~~~~i~~~~~~~~~~~vvIDsl~~~~~~~~~~~~~~~~~  224 (264)
                      +..|++|+|++.|+...+.+++++|++.+++.+.++.+.+++.+.++.+++..++++||||+++.+.+..++++..++..
T Consensus        88 ~~~g~~vlyid~E~s~~~~~a~~~g~~~~~l~i~~~~~~e~~~~~~~~l~~~~~~~lVVIDsl~~l~~~~e~~~~~g~~~  167 (356)
T 1u94_A           88 QREGKTCAFIDAEHALDPIYARKLGVDIDNLLCSQPDTGEQALEICDALARSGAVDVIVVDSVAALTPKAEIEGEIGDSH  167 (356)
T ss_dssp             HHTTCCEEEEESSCCCCHHHHHHTTCCGGGCEEECCSSHHHHHHHHHHHHHHTCCSEEEEECGGGCCCHHHHTTC-----
T ss_pred             HHCCCeEEEEeCCCCccHHHHHHcCCChhheeeeCCCCHHHHHHHHHHHHhccCCCEEEEcCHHHhcchhhhccccccch
Confidence            99999999999999999888899999999999999989999988888887778999999999999986555554433322


Q ss_pred             cHHHHHHHHHHHHHHHHHHhccCcEEEEEcccchHhhhc
Q 024705          225 SDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVKVLLLKH  263 (264)
Q Consensus       225 ~~~q~r~i~~~L~~l~~~l~~~g~tVi~i~h~~~~~~~~  263 (264)
                      .+.|.+.+.+.+++|...+++.|++||++||++++++.+
T Consensus       168 ~~~q~r~~~~~l~~L~~~a~~~~~~VI~~nq~~~~~~~~  206 (356)
T 1u94_A          168 MGLAARMMSQAMRKLAGNLKQSNTLLIFINQIRMKIGVM  206 (356)
T ss_dssp             -CHHHHHHHHHHHHHHHHHHHHTCEEEEEEC--------
T ss_pred             hHHHHHHHHHHHHHHHHHHHHhCCEEEEEeccccccCcc
Confidence            235667788999999999999999999999999887653

>1xp8_A RECA protein, recombinase A; recombination, radioresistance, DNA-repair, ATPase, DNA-BIND protein, DNA binding protein; HET: AGS; 2.50A {Deinococcus radiodurans} SCOP: c.37.1.11 d.48.1.1

Probab=99.97  E-value=4.7e-30  Score=230.96  Aligned_cols=200  Identities=47%  Similarity=0.748  Sum_probs=165.4

Q ss_pred             chHHHHHHHHHHHHHHHhcCCccccccccccCCCCCCccccCcHHHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHH
Q 024705           63 IMQKDNALRLALSQLANDFGKESMLSLKRFFGSRRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIK  142 (264)
Q Consensus        63 ~~~~~~~l~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~i~tG~~~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~  142 (264)
                      .+++.+.|+.+++++++.|+++..+++.+.. ......++||++.||.+|++||+++|++++|+||||+|||||+++++.
T Consensus        18 ~~~~~~~l~~~~~~i~~~~~~~~~~~l~~~~-~~~~~~i~TG~~~LD~~Lg~GGl~~G~li~I~G~pGsGKTtlal~la~   96 (366)
T 1xp8_A           18 AKERSKAIETAMSQIEKAFGKGSIMKLGAES-KLDVQVVSTGSLSLDLALGVGGIPRGRITEIYGPESGGKTTLALAIVA   96 (366)
T ss_dssp             CCHHHHHHHHHHHHHHHHHCTTSSCCTTSCC-CCCCCEECCSCHHHHHHTSSSSEETTSEEEEEESTTSSHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHhCCCcceeccccc-cccCceecCCCHHHHHHhCCCCccCCcEEEEEcCCCCChHHHHHHHHH
Confidence            3468899999999999999998877666543 356789999999999999778999999999999999999999999999


Q ss_pred             HHhhcCCeEEEEecCCCCCHHHHHHcCCCccceeEeCCCCHHHHHHHHHHHhhcCCccEEEEcCccccccccccCCCcCC
Q 024705          143 EAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPING  222 (264)
Q Consensus       143 ~~~~~g~~v~~~~~e~~~~~~~~~~~g~~~~~l~~~~~~~~ee~~~~i~~~~~~~~~~~vvIDsl~~~~~~~~~~~~~~~  222 (264)
                      +++..|++|+||+.|+...+.+++++|++.+++.+.++.+.+++.+.++.+++..++++|||||++.+.++.+++++.++
T Consensus        97 ~~~~~g~~vlyi~~E~s~~~~~a~~~g~d~~~l~i~~~~~~e~~l~~l~~l~~~~~~~lVVIDsl~~l~~~~e~~g~~gd  176 (366)
T 1xp8_A           97 QAQKAGGTCAFIDAEHALDPVYARALGVNTDELLVSQPDNGEQALEIMELLVRSGAIDVVVVDSVAALTPRAEIEGDMGD  176 (366)
T ss_dssp             HHHHTTCCEEEEESSCCCCHHHHHHTTCCGGGCEEECCSSHHHHHHHHHHHHTTTCCSEEEEECTTTCCCSTTC------
T ss_pred             HHHHCCCeEEEEECCCChhHHHHHHcCCCHHHceeecCCcHHHHHHHHHHHHhcCCCCEEEEeChHHhcccccccccccc
Confidence            99988999999999999999888999999999999999999999999998888789999999999999864555443322


Q ss_pred             CCcHHHHHHHHHHHHHHHHHHhccCcEEEEEcccchHhhhc
Q 024705          223 MYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVKVLLLKH  263 (264)
Q Consensus       223 ~~~~~q~r~i~~~L~~l~~~l~~~g~tVi~i~h~~~~~~~~  263 (264)
                      ...+.+.+.+.+.+++|...+++.|++||++||++++++.+
T Consensus       177 ~~~~~~~r~~~~~lr~L~~~a~~~~~~VI~~nq~~~~~~~~  217 (366)
T 1xp8_A          177 SLPGLQARLMSQALRKLTAILSKTGTAAIFINQVREKIGVM  217 (366)
T ss_dssp             --CCHHHHHHHHHHHHHHHHHTTTCCEEEEEEEC-------
T ss_pred             chhhHHHHHHHHHHHHHHHHHHHcCCEEEEEEecccccCcc
Confidence            22225667788999999988999999999999999877643

>3io5_A Recombination and repair protein; storage dimer, inactive conformation, RECA like core domain, binding, DNA damage, DNA recombination; 2.40A {Enterobacteria phage T4}

Probab=99.97  E-value=1.1e-30  Score=228.13  Aligned_cols=165  Identities=22%  Similarity=0.354  Sum_probs=134.3

Q ss_pred             CCCccccCcHHHHHHhc---CCCCCCCcEEEEEecCCCChHHHHHHHHHHHhhc--CCeEEEEecCCCCCHHHHHHcCCC
Q 024705           97 RGPVISTGSLKLDLALG---IGGLPKGRIVEIYGREASGKTTLALHVIKEAQKL--GGYCAYLDVENALDPSLAEAMGID  171 (264)
Q Consensus        97 ~~~~i~tG~~~LD~~l~---~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~--g~~v~~~~~e~~~~~~~~~~~g~~  171 (264)
                      ..++++||+++||.+||   +||+++| +++|+||||+|||||+++++.++++.  |++|+|++.|++..+.+++++|++
T Consensus         3 ~~~risTGi~~LD~~LGg~~~GGl~~G-iteI~G~pGsGKTtL~Lq~~~~~~~~g~g~~vlyId~E~s~~~~ra~~lGvd   81 (333)
T 3io5_A            3 HMDVVRTKIPMMNIALSGEITGGMQSG-LLILAGPSKSFKSNFGLTMVSSYMRQYPDAVCLFYDSEFGITPAYLRSMGVD   81 (333)
T ss_dssp             ---CBCCSCHHHHHHHHSSTTCCBCSE-EEEEEESSSSSHHHHHHHHHHHHHHHCTTCEEEEEESSCCCCHHHHHHTTCC
T ss_pred             CCCEecCCCHHHHHHhCCCCCCCCcCC-eEEEECCCCCCHHHHHHHHHHHHHhcCCCceEEEEeccchhhHHHHHHhCCC
Confidence            35789999999999998   5899999 99999999999999999999999876  889999999999999999999999


Q ss_pred             ccceeEeCCCCHHHH-HHHHHHH--hhcCCccEEEEcCccccccccccCCCcCCCCcH--HHHHHHHHHHHHHHHHHhcc
Q 024705          172 AENLLIAQPDSAENL-LSVVDTL--TKSGSIDVIVVDSVAALIPKCEIGVPINGMYSD--AQSRIMTQALRKIHYSLCQS  246 (264)
Q Consensus       172 ~~~l~~~~~~~~ee~-~~~i~~~--~~~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~--~q~r~i~~~L~~l~~~l~~~  246 (264)
                      .+++.+.++.+.+++ ++.++.+  ++...+++|||||+++++++.++++++++...+  .|+|.+++.|++|...++++
T Consensus        82 ~d~llv~~~~~~E~~~l~i~~~l~~i~~~~~~lvVIDSI~aL~~~~eieg~~gd~~~gsv~qaR~~s~~LrkL~~~ak~~  161 (333)
T 3io5_A           82 PERVIHTPVQSLEQLRIDMVNQLDAIERGEKVVVFIDSLGNLASKKETEDALNEKVVSDMTRAKTMKSLFRIVTPYFSTK  161 (333)
T ss_dssp             GGGEEEEECSBHHHHHHHHHHHHHTCCTTCCEEEEEECSTTCBCC--------------CTHHHHHHHHHHHHHHHHHHT
T ss_pred             HHHeEEEcCCCHHHHHHHHHHHHHHhhccCceEEEEecccccccchhccCccccccccHHHHHHHHHHHHHHHHHHHHHh
Confidence            999999999999998 8777766  677889999999999999767888776654434  68899999999999999999


Q ss_pred             CcEEEEEcccchHhhhc
Q 024705          247 HTLIIFLNQVKVLLLKH  263 (264)
Q Consensus       247 g~tVi~i~h~~~~~~~~  263 (264)
                      |++||++||+++ +...
T Consensus       162 ~i~vi~tNQV~k-~G~~  177 (333)
T 3io5_A          162 NIPCIAINHTYE-TQEM  177 (333)
T ss_dssp             TCEEEEEEEC-------
T ss_pred             CCEEEEECCeee-cCcc
Confidence            999999999987 5543

>3cmu_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 4.20A {Escherichia coli}

Probab=99.97  E-value=1.9e-29  Score=261.83  Aligned_cols=198  Identities=52%  Similarity=0.751  Sum_probs=179.1

Q ss_pred             HHHHHHHHHHHHHHHhcCCccccccccccCCCCCCccccCcHHHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHH
Q 024705           65 QKDNALRLALSQLANDFGKESMLSLKRFFGSRRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEA  144 (264)
Q Consensus        65 ~~~~~l~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~i~tG~~~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~  144 (264)
                      ++.+.|..++.|+++.||++..+++.+.. ..+.+.+|||...||.+||+||+|+|.+++|+||.+|||||++++.++++
T Consensus      1721 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~g~~~~d~~l~~gg~p~g~~~e~~~~~~~g~~~~~~~~~~~~ 1799 (2050)
T 3cmu_A         1721 NKQKALAAALGQIEKQFGKGSIMRLGEDR-SMDVETISTGSLSLDIALGAGGLPMGRIVEIYGPESSGKTTLTLQVIAAA 1799 (2050)
T ss_dssp             THHHHHHHHHHHHHHHHCTTSEEEGGGCT-TTCCCEECCSCHHHHHHHSSSSEETTSEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHhcCCcceEECCCCc-ccCCCcccCCcHHHHHhhCCCCCcCCcEEEEECCCCcCHHHHHHHHHHHH
Confidence            57889999999999999999999998743 46789999999999999999999999999999999999999999999999


Q ss_pred             hhcCCeEEEEecCCCCCHHHHHHcCCCccceeEeCCCCHHHHHHHHHHHhhcCCccEEEEcCccccccccccCCCcCCCC
Q 024705          145 QKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMY  224 (264)
Q Consensus       145 ~~~g~~v~~~~~e~~~~~~~~~~~g~~~~~l~~~~~~~~ee~~~~i~~~~~~~~~~~vvIDsl~~~~~~~~~~~~~~~~~  224 (264)
                      ++.|+.++|+|.|...++.+++.+|++.+++.+.+|++.|+.++++..+++++.+++|||||+.++.|+.+++++.++..
T Consensus      1800 ~~~~~~~~~~d~~~~~~~~~~~~~g~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~d~~~a~~p~~~~~~~~~~~~ 1879 (2050)
T 3cmu_A         1800 QREGKTCAFIDAEHALDPIYARKLGVDIDNLLCSQPDTGEQALEICDALARSGAVDVIVVDSVAALTPKAEIEGEIGDSH 1879 (2050)
T ss_dssp             HTTTCCEEEECTTSCCCHHHHHHTTCCTTTCEEECCSSHHHHHHHHHHHHHHTCCSEEEESCGGGCCCHHHHC-------
T ss_pred             hhcCCEEEEEcCccccCHHHHHHcCCCHHHeEEecCCcHHHHHHHHHHHHhcCCCcEEEEcchhhcCcHHHhcCcccccc
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cHHHHHHHHHHHHHHHHHHhccCcEEEEEcccchHhhhc
Q 024705          225 SDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVKVLLLKH  263 (264)
Q Consensus       225 ~~~q~r~i~~~L~~l~~~l~~~g~tVi~i~h~~~~~~~~  263 (264)
                      .|.|+|.|++.|+++...+.+.+|++|++||++.++.-.
T Consensus      1880 ~~~~~r~~~~~~r~~~~~~~~~~~~~~~~~q~r~~~~~~ 1918 (2050)
T 3cmu_A         1880 MGLAARMMSQAMRKLAGNLKQSNTLLIFINQIRMKIGVM 1918 (2050)
T ss_dssp             CCHHHHHHHHHHHHHHHHHHTTTCEEEEEECCC------
T ss_pred             hhHHHHHHHHHHHHHHhhhccCceEEEEhhHhHHHhccc
Confidence            999999999999999999999999999999999998644

>3cmw_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 2.80A {Escherichia coli} PDB: 3cmt_A* 3cmx_A* 3cmv_A*

Probab=99.96  E-value=4.7e-29  Score=256.76  Aligned_cols=199  Identities=51%  Similarity=0.744  Sum_probs=177.0

Q ss_pred             hHHHHHHHHHHHHHHHhcCCccccccccccCCCCCCccccCcHHHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHH
Q 024705           64 MQKDNALRLALSQLANDFGKESMLSLKRFFGSRRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKE  143 (264)
Q Consensus        64 ~~~~~~l~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~i~tG~~~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~  143 (264)
                      +.+...|..++.|+++.||++..+.+.... ....+.+|||+..||.+||+||+|+|.+++|+||+|+|||||+++++++
T Consensus      1376 ~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~i~tG~~~lD~~lg~gG~prg~~iei~g~~~sGkttl~~~~~a~ 1454 (1706)
T 3cmw_A         1376 ENKQKALAAALGQIEKQFGKGSIMRLGEDR-SMDVETISTGSLSLDIALGAGGLPMGRIVEIYGPESSGKTTLTLQVIAA 1454 (1706)
T ss_dssp             HHHHHHHHHHHHHHHHHHCGGGSEEGGGCG-GGSCCEECCSCHHHHHHTSSSSEETTSEEEEECSTTSSHHHHHHHHHHH
T ss_pred             hhhHHHHHHHHHHHHHhcCCccEEECCCCC-CCcCceecCCCHHHHHhcCCCCCCCCCEEEEEcCCCCCHHHHHHHHHHH
Confidence            467888999999999999999998777533 3468999999999999999889999999999999999999999999999


Q ss_pred             HhhcCCeEEEEecCCCCCHHHHHHcCCCccceeEeCCCCHHHHHHHHHHHhhcCCccEEEEcCccccccccccCCCcCCC
Q 024705          144 AQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGM  223 (264)
Q Consensus       144 ~~~~g~~v~~~~~e~~~~~~~~~~~g~~~~~l~~~~~~~~ee~~~~i~~~~~~~~~~~vvIDsl~~~~~~~~~~~~~~~~  223 (264)
                      ++++|+.++||+.|+..++..++.+|++.+++.+.+|++.|+.++.++.+++++.+++|||||+.++.|+.+.+++.++.
T Consensus      1455 ~~~~g~~~~~i~~e~~~~~~~~~~~Gv~~~~l~~~~p~~~e~~l~~~~~~~~s~~~~~vvvDsv~al~~~~e~~~~~~~~ 1534 (1706)
T 3cmw_A         1455 AQREGKTCAFIDAEHALDPIYARKLGVDIDNLLCSQPDTGEQALEICDALARSGAVDVIVVDSVAALTPKAEIEGEIGDS 1534 (1706)
T ss_dssp             HHHTTCCEEEECTTSCCCHHHHHHTTCCGGGCEEECCSSHHHHHHHHHHHHHHTCCSEEEESCSTTCCCTTTTC------
T ss_pred             HHhcCCeEEEEecCCCCCHHHHHHcCCCHHHeEEeCCCcHHHHHHHHHHHHHcCCCCEEEEccHHhCCcccccccccccc
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CcHHHHHHHHHHHHHHHHHHhccCcEEEEEcccchHhhhc
Q 024705          224 YSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVKVLLLKH  263 (264)
Q Consensus       224 ~~~~q~r~i~~~L~~l~~~l~~~g~tVi~i~h~~~~~~~~  263 (264)
                      ..|.|+|.+++.|++|...+++.|+++|++||++.++.-+
T Consensus      1535 ~~~~~ar~m~~~lr~l~~~~~~~~~~~i~~~~~~~~~~~~ 1574 (1706)
T 3cmw_A         1535 HMGLAARMMSQAMRKLAGNLKQSNTLLIFINQIRMKIGVM 1574 (1706)
T ss_dssp             -CCHHHHHHHHHHHHHHHHHHHHTCEEEEEECBC------
T ss_pred             chhHHHHHHHHHHHHHHHHHHhCCcEEEEeecccccccee
Confidence            9999999999999999999999999999999999887543

>3cmw_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 2.80A {Escherichia coli} PDB: 3cmt_A* 3cmx_A* 3cmv_A*

Probab=99.95  E-value=2e-27  Score=244.71  Aligned_cols=199  Identities=51%  Similarity=0.744  Sum_probs=177.2

Q ss_pred             hHHHHHHHHHHHHHHHhcCCccccccccccCCCCCCccccCcHHHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHH
Q 024705           64 MQKDNALRLALSQLANDFGKESMLSLKRFFGSRRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKE  143 (264)
Q Consensus        64 ~~~~~~l~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~i~tG~~~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~  143 (264)
                      .++...|+.++.++++.||++..+.+.+.. ......++||+++||.++++||+++|++++|+||||+|||||+++++.+
T Consensus       328 ~~~~~~l~~a~~~i~~~fg~~~~~~l~~~~-~~~~~~isTGi~~LD~lLg~GGl~~G~lilI~G~pGsGKTtLaLq~a~~  406 (1706)
T 3cmw_A          328 ENKQKALAAALGQIEKQFGKGSIMRLGEDR-SMDVETISTGSLSLDIALGAGGLPMGRIVEIYGPESSGKTTLTLQVIAA  406 (1706)
T ss_dssp             HHHHHHHHHHHHHHHHHHCGGGSEEGGGCG-GGSCCEECCSCHHHHHHTSSSSEETTSEEEEECSTTSSHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHHHhCCCcceeccccc-cccCceeccCcHHHHHHhccCCcCCCcEEEEEeCCCCCHHHHHHHHHHH
Confidence            356788999999999999999988777643 2467899999999999997789999999999999999999999999999


Q ss_pred             HhhcCCeEEEEecCCCCCHHHHHHcCCCccceeEeCCCCHHHHHHHHHHHhhcCCccEEEEcCccccccccccCCCcCCC
Q 024705          144 AQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGM  223 (264)
Q Consensus       144 ~~~~g~~v~~~~~e~~~~~~~~~~~g~~~~~l~~~~~~~~ee~~~~i~~~~~~~~~~~vvIDsl~~~~~~~~~~~~~~~~  223 (264)
                      ++..|++|+||++|++..+.+++++|++.+++.+.++.+.+++.+.++.+++..++++|||||++.+.+..+.++.+++.
T Consensus       407 ~~~~G~~vlyis~E~s~~~~~a~~lGvd~~~L~i~~~~~~e~~l~~l~~lv~~~~~~lVVIDSL~al~~~~e~e~~~g~~  486 (1706)
T 3cmw_A          407 AQREGKTCAFIDAEHALDPIYARKLGVDIDNLLCSQPDTGEQALEICDALARSGAVDVIVVDSVAALTPKAEIEGEIGDS  486 (1706)
T ss_dssp             HHHTTCCEEEECTTSCCCHHHHHHTTCCGGGCEEECCSSHHHHHHHHHHHHHHTCCSEEEESCSTTCCCHHHHHSCTTCC
T ss_pred             HHHhCCCeEEEEccCchHHHHHHHcCCCHHHeEEcCCCCHHHHHHHHHHHHHhcCCCEEEECCHHHhhcccccccccccc
Confidence            99999999999999999998899999999999999999999999999888888899999999999998655555555544


Q ss_pred             CcHHHHHHHHHHHHHHHHHHhccCcEEEEEcccchHhhhc
Q 024705          224 YSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVKVLLLKH  263 (264)
Q Consensus       224 ~~~~q~r~i~~~L~~l~~~l~~~g~tVi~i~h~~~~~~~~  263 (264)
                      ..+.+.+.+++.+++|...+++.|++||++||++++++.+
T Consensus       487 ~~~~q~r~~s~~Lr~L~~~ak~~~v~VI~inQl~~~vg~~  526 (1706)
T 3cmw_A          487 HMGLAARMMSQAMRKLAGNLKQSNTLLIFINQIRMKIGVM  526 (1706)
T ss_dssp             CTTHHHHHHHHHHHHHHHHHHHHTCEEEEEECEEECTTCC
T ss_pred             chhHHHHHHHHHHHHHHHHHHHcCCEEEEEeecccccccc
Confidence            4457888899999999999999999999999999886654

>3cmu_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 4.20A {Escherichia coli}

Probab=99.95  E-value=2.5e-27  Score=246.20  Aligned_cols=198  Identities=52%  Similarity=0.751  Sum_probs=177.2

Q ss_pred             HHHHHHHHHHHHHHHhcCCccccccccccCCCCCCccccCcHHHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHH
Q 024705           65 QKDNALRLALSQLANDFGKESMLSLKRFFGSRRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEA  144 (264)
Q Consensus        65 ~~~~~l~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~i~tG~~~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~  144 (264)
                      ++...|+.+++++++.||++..+.+.... ......++||+++||.++|+||+++|++++|+||||+|||||+++++.++
T Consensus       329 ~~~~~l~~a~~~i~~~~g~~~~~~l~~~~-~~~~~~I~TG~~~LD~lLG~GGl~~G~lilI~G~pGsGKTtLaLqia~~~  407 (2050)
T 3cmu_A          329 NKQKALAAALGQIEKQFGKGSIMRLGEDR-SMDVETISTGSLSLDIALGAGGLPMGRIVEIYGPESSGKTTLTLQVIAAA  407 (2050)
T ss_dssp             THHHHHHHHHHHHHHHHCTTSEEEGGGCT-TTSCCEECCSCHHHHHHHSSSSEETTSEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHhhCcCcceeccccc-ccCCceeeCCCHHHHHHhccCCccCCcEEEEEeCCCCCHHHHHHHHHHHH
Confidence            46788999999999999999998877643 35688999999999999987899999999999999999999999999999


Q ss_pred             hhcCCeEEEEecCCCCCHHHHHHcCCCccceeEeCCCCHHHHHHHHHHHhhcCCccEEEEcCccccccccccCCCcCCCC
Q 024705          145 QKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMY  224 (264)
Q Consensus       145 ~~~g~~v~~~~~e~~~~~~~~~~~g~~~~~l~~~~~~~~ee~~~~i~~~~~~~~~~~vvIDsl~~~~~~~~~~~~~~~~~  224 (264)
                      +..|++|+||++|++..+.+++++|++.+++.+.++.+.+++++.++.+++..++++|||||++.+.++.++++.+++..
T Consensus       408 a~~G~~vlyis~E~s~~~~~a~~lGvd~~~L~I~~~~~~e~il~~~~~lv~~~~~~lIVIDSL~al~~~~e~eg~~Gd~~  487 (2050)
T 3cmu_A          408 QREGKTCAFIDAEHALDPIYARKLGVDIDNLLCSQPDTGEQALEICDALARSGAVDVIVVDSVAALTPKAEIEGEIGDSH  487 (2050)
T ss_dssp             HTTTCCEEEECTTSCCCHHHHHHTTCCTTTCEEECCSSHHHHHHHHHHHHHHTCCSEEEESCGGGCCCHHHHHSCTTCCC
T ss_pred             HhcCCeEEEEEcCCCHHHHHHHHcCCCHHHeEEeCCCCHHHHHHHHHHHHHhcCCcEEEECCHHHhhcccccccccccch
Confidence            99999999999999999988999999999999999999999999999888888999999999999996556655555444


Q ss_pred             cHHHHHHHHHHHHHHHHHHhccCcEEEEEcccchHhhhc
Q 024705          225 SDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVKVLLLKH  263 (264)
Q Consensus       225 ~~~q~r~i~~~L~~l~~~l~~~g~tVi~i~h~~~~~~~~  263 (264)
                      .+.|.+.+++.|++|...+++.|++||++||+++.++.+
T Consensus       488 ~~~q~R~is~~Lr~L~~lake~~i~VIlinQl~~~vg~~  526 (2050)
T 3cmu_A          488 MGLAARMMSQAMRKLAGNLKQSNTLLIFINQIRMKIGVM  526 (2050)
T ss_dssp             TTHHHHHHHHHHHHHHHHHHTTTCEEEEEECCEECTTCC
T ss_pred             hhHHHHHHHHHHHHHHHHHHHcCCeEEEEeecccccccc
Confidence            457888899999999999999999999999999887654

>2z43_A DNA repair and recombination protein RADA; archaea, filament, DNA binding, molecular SWI RECA, DMC1; HET: DNA; 1.93A {Sulfolobus solfataricus} PDB: 2bke_A* 2dfl_A* 2zub_A* 2zuc_A* 2zud_A*

Probab=99.92  E-value=6.2e-25  Score=194.95  Aligned_cols=190  Identities=24%  Similarity=0.294  Sum_probs=130.5

Q ss_pred             hHHHHHHHHHHHHHHHhcCCccccccccccCCCCCCccccCcHHHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHH
Q 024705           64 MQKDNALRLALSQLANDFGKESMLSLKRFFGSRRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKE  143 (264)
Q Consensus        64 ~~~~~~l~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~i~tG~~~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~  143 (264)
                      ....+.+..+..++.+.|+++..+...    ......++||++.||.+++ ||+++|++++|+||||+|||+|+++++.+
T Consensus        56 ~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~i~TG~~~LD~~L~-GGl~~G~i~~i~G~~GsGKT~la~~la~~  130 (324)
T 2z43_A           56 STAQKIIKEARDALDIRFKTALEVKKE----RMNVKKISTGSQALDGLLA-GGIETRTMTEFFGEFGSGKTQLCHQLSVN  130 (324)
T ss_dssp             ----------------CCCCHHHHHHH----HCSCCEECCSCHHHHHHTT-TSEETTSEEEEEESTTSSHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhcccCccchhhhhhh----hccCCcccCCchhHHHhcC-CCCCCCcEEEEECCCCCCHhHHHHHHHHH
Confidence            334455555666777777777664321    1357899999999999999 99999999999999999999999999998


Q ss_pred             Hhhc------CCeEEEEecCCCCCH----HHHHHcCCCcc----ceeEeCCCCHHH---HHHHHHHHhhc-CCccEEEEc
Q 024705          144 AQKL------GGYCAYLDVENALDP----SLAEAMGIDAE----NLLIAQPDSAEN---LLSVVDTLTKS-GSIDVIVVD  205 (264)
Q Consensus       144 ~~~~------g~~v~~~~~e~~~~~----~~~~~~g~~~~----~l~~~~~~~~ee---~~~~i~~~~~~-~~~~~vvID  205 (264)
                      ++..      +++|+|+++|+....    .+++++|++++    ++.+.++.+.++   ++..+...+.. .++++||||
T Consensus       131 ~~~~~~~gg~~~~vlyi~~e~~~~~~~l~~~~~~~g~~~~~~~~~l~~~~~~~~~~~~~~l~~l~~~~~~~~~~~lvVID  210 (324)
T 2z43_A          131 VQLPPEKGGLSGKAVYIDTEGTFRWERIENMAKALGLDIDNVMNNIYYIRAINTDHQIAIVDDLQELVSKDPSIKLIVVD  210 (324)
T ss_dssp             TTSCGGGTCCSCEEEEEESSSCCCHHHHHHHHHHTTCCHHHHHHTEEEEECCSHHHHHHHHHHHHHHHHHCTTEEEEEET
T ss_pred             HhcccccCCCCCeEEEEECCCCCCHHHHHHHHHHhCCCHHHHhccEEEEeCCCHHHHHHHHHHHHHHHHhccCCCEEEEe
Confidence            7655      789999999998655    35677898874    677777777774   44556666666 789999999


Q ss_pred             CccccccccccCCCcCCCCcHHHHHHHHHHHHHHHHHHhccCcEEEEEcccchHhhh
Q 024705          206 SVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVKVLLLK  262 (264)
Q Consensus       206 sl~~~~~~~~~~~~~~~~~~~~q~r~i~~~L~~l~~~l~~~g~tVi~i~h~~~~~~~  262 (264)
                      |++.+.. .++.+. ++  .......+.+.++.|...++++|++||++||+.++.+.
T Consensus       211 sl~~l~~-~~~~~~-g~--~~~r~~~~~~~l~~L~~la~~~~~~Vi~~nq~~~~~~~  263 (324)
T 2z43_A          211 SVTSHFR-AEYPGR-EN--LAVRQQKLNKHLHQLTRLAEVYDIAVIITNQVMARPDM  263 (324)
T ss_dssp             TTTHHHH-HHSCTT-TS--HHHHHHHHHHHHHHHHHHHHHHTCEEEEEEEC------
T ss_pred             CcHHHhh-hhhcCc-cc--HHHHHHHHHHHHHHHHHHHHHhCCEEEEEcceeecCCC
Confidence            9999883 333321 11  11223346677777777779999999999999987653

>1v5w_A DMC1, meiotic recombination protein DMC1/LIM15 homolog; DNA-binding protein, ring protein, octamer, AAA ATPase; 3.20A {Homo sapiens} SCOP: c.37.1.11 PDB: 2zjb_A

Probab=99.92  E-value=1e-24  Score=195.00  Aligned_cols=189  Identities=25%  Similarity=0.332  Sum_probs=128.9

Q ss_pred             HHHHHHHHHHHHHHHhcCCccccccccccCCCCCCccccCcHHHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHH
Q 024705           65 QKDNALRLALSQLANDFGKESMLSLKRFFGSRRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEA  144 (264)
Q Consensus        65 ~~~~~l~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~i~tG~~~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~  144 (264)
                      ...+.+..+.+++.+.|+++..+.-..    .....++||++.||.+++ ||+++|++++|+||||+|||+|+++++.++
T Consensus        72 ~~~~~~~~a~~~~~~~~~~~~~~~~~~----~~~~~i~TG~~~LD~~Lg-GGl~~G~i~~I~G~~GsGKTtla~~la~~~  146 (343)
T 1v5w_A           72 KVDKIKEAANKLIEPGFLTAFEYSEKR----KMVFHITTGSQEFDKLLG-GGIESMAITEAFGEFRTGKTQLSHTLCVTA  146 (343)
T ss_dssp             --------------CCSEEHHHHHHHG----GGCCCBCCSCHHHHHHTT-SSBCSSEEEEEECCTTCTHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHhhcccCCCcHHHHHhhh----cccceeecCChhHHHHhc-CCCCCCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            334455556666666666665543211    346889999999999999 999999999999999999999999999987


Q ss_pred             hh------cCCeEEEEecCCCCCHH----HHHHcCCCc----cceeEeCCCCHHHH---HHHHHHHhhc--CCccEEEEc
Q 024705          145 QK------LGGYCAYLDVENALDPS----LAEAMGIDA----ENLLIAQPDSAENL---LSVVDTLTKS--GSIDVIVVD  205 (264)
Q Consensus       145 ~~------~g~~v~~~~~e~~~~~~----~~~~~g~~~----~~l~~~~~~~~ee~---~~~i~~~~~~--~~~~~vvID  205 (264)
                      +.      .+++++|+++|+.....    +++++|+++    +++.+.++.+.+++   +..+...+..  .++++||||
T Consensus       147 ~~~~~~gg~~~~vlyi~~E~~~~~~~l~~~~~~~g~~~~~~l~~l~~~~~~~~e~~~~ll~~l~~~i~~~~~~~~lvVID  226 (343)
T 1v5w_A          147 QLPGAGGYPGGKIIFIDTENTFRPDRLRDIADRFNVDHDAVLDNVLYARAYTSEHQMELLDYVAAKFHEEAGIFKLLIID  226 (343)
T ss_dssp             TSCBTTTBCCCEEEEEESSSCCCHHHHHHHHHHTTCCHHHHHHTEEEEECCSTTHHHHHHHHHHHHHHHSCSSEEEEEEE
T ss_pred             hcccccCCCCCeEEEEECCCCCCHHHHHHHHHHcCCCHHHHHhceeEeecCCHHHHHHHHHHHHHHHHhcCCCccEEEEe
Confidence            65      57899999999986653    677789887    47777777666644   4445566666  789999999


Q ss_pred             CccccccccccCCCcCCCCcHHHHHHHHHHHHHHHHHHhccCcEEEEEcccchHhhh
Q 024705          206 SVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVKVLLLK  262 (264)
Q Consensus       206 sl~~~~~~~~~~~~~~~~~~~~q~r~i~~~L~~l~~~l~~~g~tVi~i~h~~~~~~~  262 (264)
                      |++.++. .++.+. ++  .......+.+.++.|.+.++++|++||++||+.++.+.
T Consensus       227 sl~~l~~-~~~~~~-g~--~~~r~~~l~~~l~~L~~la~~~~~~Vi~~nq~~~~~~~  279 (343)
T 1v5w_A          227 SIMALFR-VDFSGR-GE--LAERQQKLAQMLSRLQKISEEYNVAVFVTNQMTADPGA  279 (343)
T ss_dssp             TSGGGHH-HHCCGG-GC--HHHHHHHHHHHHHHHHHHHHHHTCEEEEEECC------
T ss_pred             chHHHHH-HHhccc-cc--HHHHHHHHHHHHHHHHHHHHHhCCEEEEEeeceecCCC
Confidence            9999984 343321 11  11223346677777777779999999999999987654

>2i1q_A DNA repair and recombination protein RADA; ATPase, recombinase, ATP complex, calcium stimulation, RECA, DMC1; HET: DNA ANP; 1.90A {Methanococcus voltae} SCOP: a.60.4.1 c.37.1.11 PDB: 1xu4_A* 2b21_A* 2fpk_A* 2fpl_A* 2fpm_A* 1t4g_A* 3fyh_A* 2f1j_A* 2f1i_A* 2f1h_A* 3ntu_A* 3ewa_A* 3ew9_A* 3etl_A* 4dc9_A* 2gdj_A*

Probab=99.91  E-value=4.4e-24  Score=189.15  Aligned_cols=192  Identities=21%  Similarity=0.250  Sum_probs=141.8

Q ss_pred             cchHHHHHHHHHHHHHHHhcCCccccccccccCCCCCCccccCcHHHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHH
Q 024705           62 KIMQKDNALRLALSQLANDFGKESMLSLKRFFGSRRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVI  141 (264)
Q Consensus        62 ~~~~~~~~l~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~i~tG~~~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~  141 (264)
                      +.+...+.+..+.+++...|+++..+...    ......++||++.||.+++ ||+++|++++|+||||+|||+|+++++
T Consensus        45 s~~~a~~~i~~a~~~~~~~~~~~~~~~~~----~~~~~~i~TG~~~LD~~l~-GGl~~g~i~~i~G~~gsGKT~la~~la  119 (322)
T 2i1q_A           45 SEKAAAKMIMGARDLCDLGFKSGIDLLKQ----RSTVWKLSTSSSELDSVLG-GGLESQSVTEFAGVFGSGKTQIMHQSC  119 (322)
T ss_dssp             CHHHHHHHHHHHHHHTTCSCCCTHHHHHH----HTTCCEECCSCHHHHHHTT-SSEETTEEEEEEESTTSSHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHhhhhcCCcHHHHHHH----hccCCeecCCChhHHHhcC-CCccCCeEEEEECCCCCCHHHHHHHHH
Confidence            33444555666666777777776664221    1357899999999999999 999999999999999999999999999


Q ss_pred             HHHhh------------cC----CeEEEEecCCCCCH----HHHHHcCCCc----cceeEeCCCCHHH---HHHHHHHHh
Q 024705          142 KEAQK------------LG----GYCAYLDVENALDP----SLAEAMGIDA----ENLLIAQPDSAEN---LLSVVDTLT  194 (264)
Q Consensus       142 ~~~~~------------~g----~~v~~~~~e~~~~~----~~~~~~g~~~----~~l~~~~~~~~ee---~~~~i~~~~  194 (264)
                      .+++.            .|    ++|+|+++|+....    .+++++|++.    +++.+.++.+.++   ++..+...+
T Consensus       120 ~~~~l~~~~~~~~~~~~~gg~~~~~v~yi~~e~~~~~~~l~~~~~~~g~~~~~~~~~l~~~~~~~~~~~~~~l~~l~~~~  199 (322)
T 2i1q_A          120 VNLQNPEFLFYDEEAVSKGEVAQPKAVYIDTEGTFRPERIMQMAEHAGIDGQTVLDNTFVARAYNSDMQMLFAEKIEDLI  199 (322)
T ss_dssp             HHTTCGGGEECCTTTSCTTTTSSEEEEEEESSSCCCHHHHHHHHHHHTCCHHHHHHTEEEEECSSHHHHHHHHHTHHHHH
T ss_pred             HHHhccccccccccccccCCCCCceEEEEECCCCCCHHHHHHHHHHcCCCHHHHhcCEEEEeCCCHHHHHHHHHHHHHHH
Confidence            87532            24    79999999998655    3667789887    4677888888775   444556666


Q ss_pred             hc-CCccEEEEcCccccccccccCCCcCCCCcHHHHHHHHHHHHHHHHHHhccCcEEEEEcccchHhhh
Q 024705          195 KS-GSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVKVLLLK  262 (264)
Q Consensus       195 ~~-~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r~i~~~L~~l~~~l~~~g~tVi~i~h~~~~~~~  262 (264)
                      .. .++++|||||++.+.. .++++. +  ........+.+.++.|...++++|++||++||+.+..+.
T Consensus       200 ~~~~~~~lvVIDsl~~l~~-~~~~~~-~--~~~~r~~~~~~~~~~L~~la~~~~~~vi~~nq~~~~~~~  264 (322)
T 2i1q_A          200 QEGNNIKLVVIDSLTSTFR-NEYTGR-G--KLAERQQKLGRHMATLNKLADLFNCVVLVTNQVSAKPDA  264 (322)
T ss_dssp             HTTCEEEEEEEECSSHHHH-HHCCCT-T--SHHHHHHHHHHHHHHHHHHHHHTTCEEEEEECEECC---
T ss_pred             hhccCccEEEEECcHHHHH-HHhcCC-c--cHHHHHHHHHHHHHHHHHHHHHhCCEEEEECceeecCCC
Confidence            66 7899999999999883 333321 1  111223356777788887789999999999999877653

>4a1f_A DNAB helicase, replicative DNA helicase; hydrolase, DNA replication, ATPase; HET: FLC; 2.50A {Helicobacter pylori}

Probab=99.89  E-value=2.2e-22  Score=178.84  Aligned_cols=156  Identities=19%  Similarity=0.199  Sum_probs=120.3

Q ss_pred             CCCccccCcHHHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCHHHH----HHcCCCc
Q 024705           97 RGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLA----EAMGIDA  172 (264)
Q Consensus        97 ~~~~i~tG~~~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~~~~----~~~g~~~  172 (264)
                      ...+++||++.||.+++  |+++|++++|+|+||+|||||+++++.+++..|.+|+||+.|++..+...    ...+++.
T Consensus        25 ~~~gi~TG~~~LD~~~g--Gl~~G~LiiIaG~pG~GKTt~al~ia~~~a~~g~~Vl~fSlEms~~ql~~Rlls~~~~v~~  102 (338)
T 4a1f_A           25 EVTGIPTGFVQLDNYTS--GFNKGSLVIIGARPSMGKTSLMMNMVLSALNDDRGVAVFSLEMSAEQLALRALSDLTSINM  102 (338)
T ss_dssp             CCCSBCCSCHHHHHHHC--SBCTTCEEEEEECTTSCHHHHHHHHHHHHHHTTCEEEEEESSSCHHHHHHHHHHHHHCCCH
T ss_pred             CcCcccCCChHHHHHhc--CCCCCcEEEEEeCCCCCHHHHHHHHHHHHHHcCCeEEEEeCCCCHHHHHHHHHHHhhCCCH
Confidence            56889999999999996  99999999999999999999999999999999999999999998776221    1123332


Q ss_pred             c-------------------------ceeEeCC--CCHHHHHHHHHHHhhcC-CccEEEEcCccccccccccCCCcCCCC
Q 024705          173 E-------------------------NLLIAQP--DSAENLLSVVDTLTKSG-SIDVIVVDSVAALIPKCEIGVPINGMY  224 (264)
Q Consensus       173 ~-------------------------~l~~~~~--~~~ee~~~~i~~~~~~~-~~~~vvIDsl~~~~~~~~~~~~~~~~~  224 (264)
                      +                         ++++.+.  .+++++...++.+...+ ++++||||+++.+.......++.    
T Consensus       103 ~~l~~g~Ls~~e~~~l~~a~~~l~~~~l~I~d~~~~si~~i~~~ir~l~~~~gg~~lIVIDyLqlm~~~~~~~~r~----  178 (338)
T 4a1f_A          103 HDLESGRLDDDQWENLAKCFDHLSQKKLFFYDKSYVRIEQIRLQLRKLKSQHKELGIAFIDYLQLMSGSKATKERH----  178 (338)
T ss_dssp             HHHHHTCCCHHHHHHHHHHHHHHHHSCEEEECCTTCCHHHHHHHHHHHHHHCTTEEEEEEEEEECCCTHHHHHHCC----
T ss_pred             HHHhcCCCCHHHHHHHHHHHHHHhcCCeEEeCCCCCcHHHHHHHHHHHHHhcCCCCEEEEechHHhcCCCCCCChH----
Confidence            1                         2444443  36889999898887777 89999999999987421111111    


Q ss_pred             cHHHHHHHHHHHHHHHHHHhccCcEEEEEcccchHhhhc
Q 024705          225 SDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVKVLLLKH  263 (264)
Q Consensus       225 ~~~q~r~i~~~L~~l~~~l~~~g~tVi~i~h~~~~~~~~  263 (264)
                        .+...+++.|+.++   +++|++||+++|+++..+.|
T Consensus       179 --~ei~~isr~LK~lA---kel~vpVi~lsQl~R~~e~r  212 (338)
T 4a1f_A          179 --EQIAEISRELKTLA---RELEIPIIALVQLNRSLENR  212 (338)
T ss_dssp             --CCHHHHHHHHHHHH---HHHTSCEEEEEECCGGGGGS
T ss_pred             --HHHHHHHHHHHHHH---HHcCCeEEEEEecCcccccc
Confidence              23344555555555   99999999999999988764

>1n0w_A DNA repair protein RAD51 homolog 1; DNA repair, homologous recombination, breast cancer susceptibility, RECA-like ATPase, protein complex; HET: DNA MSE; 1.70A {Homo sapiens} SCOP: c.37.1.11

Probab=99.88  E-value=4.2e-22  Score=168.40  Aligned_cols=161  Identities=24%  Similarity=0.312  Sum_probs=113.3

Q ss_pred             CCCccccCcHHHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHHhh------cCCeEEEEecCCCCCH----HHHH
Q 024705           97 RGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQK------LGGYCAYLDVENALDP----SLAE  166 (264)
Q Consensus        97 ~~~~i~tG~~~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~------~g~~v~~~~~e~~~~~----~~~~  166 (264)
                      +.+.++||++.||.+++ ||+++|++++|+||||+|||||+.+++..++.      .+++++|++.++....    .+++
T Consensus         2 ~~~~i~tG~~~LD~~l~-ggi~~G~~~~i~G~~GsGKTtl~~~l~~~~~~~~~~g~~~~~~~~i~~~~~~~~~~~~~~~~   80 (243)
T 1n0w_A            2 EIIQITTGSKELDKLLQ-GGIETGSITEMFGEFRTGKTQICHTLAVTCQLPIDRGGGEGKAMYIDTEGTFRPERLLAVAE   80 (243)
T ss_dssp             CCCEECCSCHHHHHHTT-TSEETTSEEEEECCTTSSHHHHHHHHHHHTTSCGGGTCCSSEEEEEESSSCCCHHHHHHHHH
T ss_pred             CceEecCCChHHHHhhc-CCCcCCeEEEEECCCCCcHHHHHHHHHHHHhCchhcCCCCCeEEEEECCCCcCHHHHHHHHH
Confidence            45789999999999999 99999999999999999999999999987543      3688999999986554    3566


Q ss_pred             HcCCCc----cceeEeCCCCHHHHHHH---HHHHhhcCCccEEEEcCccccccccccCCCcCCCCcHHHHHHHHHHHHHH
Q 024705          167 AMGIDA----ENLLIAQPDSAENLLSV---VDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKI  239 (264)
Q Consensus       167 ~~g~~~----~~l~~~~~~~~ee~~~~---i~~~~~~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r~i~~~L~~l  239 (264)
                      .+|+++    +++.+..+.+.++....   +...+...++++++||+++.... ..+++..   ..+.+++.+...+..+
T Consensus        81 ~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lliiD~~~~~~~-~~~~~~~---~~~~r~~~~~~~~~~l  156 (243)
T 1n0w_A           81 RYGLSGSDVLDNVAYARAFNTDHQTQLLYQASAMMVESRYALLIVDSATALYR-TDYSGRG---ELSARQMHLARFLRML  156 (243)
T ss_dssp             HTTCCHHHHHHTEEEEECCSHHHHHHHHHHHHHHHHHSCEEEEEEETSSGGGC-----------CHHHHHHHHHHHHHHH
T ss_pred             HcCCCHHHHhhCeEEEecCCHHHHHHHHHHHHHHHhcCCceEEEEeCchHHHH-HHhcCCc---cHHHHHHHHHHHHHHH
Confidence            789887    57777777776654433   45555567899999999999874 2222210   0122233345555666


Q ss_pred             HHHHhccCcEEEEEcccchHhhh
Q 024705          240 HYSLCQSHTLIIFLNQVKVLLLK  262 (264)
Q Consensus       240 ~~~l~~~g~tVi~i~h~~~~~~~  262 (264)
                      ...+++.|++||+++|..+..+.
T Consensus       157 ~~~~~~~~~tvi~~~h~~~~~~~  179 (243)
T 1n0w_A          157 LRLADEFGVAVVITNQVVAQVDG  179 (243)
T ss_dssp             HHHHHHHCCEEEEEC--------
T ss_pred             HHHHHHcCCEEEEEeeeeecCCC
Confidence            66668899999999999877653

>3lda_A DNA repair protein RAD51; DNA binding protein, ATP-binding, DNA damage, DNA recombinat repair, nucleotide-binding; HET: DNA; 2.50A {Saccharomyces cerevisiae} PDB: 1szp_A*

Probab=99.88  E-value=4.4e-22  Score=180.92  Aligned_cols=159  Identities=28%  Similarity=0.427  Sum_probs=116.9

Q ss_pred             CCCccccCcHHHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHHhh------cCCeEEEEecCCCCCH----HHHH
Q 024705           97 RGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQK------LGGYCAYLDVENALDP----SLAE  166 (264)
Q Consensus        97 ~~~~i~tG~~~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~------~g~~v~~~~~e~~~~~----~~~~  166 (264)
                      ...+++||+++||++|+ ||+++|++++|+||||+|||||+++++.....      .+++++||+.++....    .+++
T Consensus       156 ~~~~i~TG~~~LD~lLg-GGI~~Gei~~I~G~sGsGKTTLl~~la~~~~~p~~~Gg~~~~viyid~E~~~~~~rl~~~a~  234 (400)
T 3lda_A          156 ELICLTTGSKNLDTLLG-GGVETGSITELFGEFRTGKSQLCHTLAVTCQIPLDIGGGEGKCLYIDTEGTFRPVRLVSIAQ  234 (400)
T ss_dssp             TSCEECCSCHHHHHHTT-TSEETTSEEEEEESTTSSHHHHHHHHHHHTTSCGGGTCCSSEEEEEESSSCCCHHHHHHHHH
T ss_pred             cCCccccCChhHHHHhc-CCcCCCcEEEEEcCCCCChHHHHHHHHHHhccCcccCCCCCcEEEEeCCCccCHHHHHHHHH
Confidence            46899999999999999 99999999999999999999999999876654      3678999999998765    3567


Q ss_pred             HcCCCcc----ceeEeCCCCHHHHH---HHHHHHhhcCCccEEEEcCccccccccccCCCcCCCCcHHHHHHHHHHHHHH
Q 024705          167 AMGIDAE----NLLIAQPDSAENLL---SVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKI  239 (264)
Q Consensus       167 ~~g~~~~----~l~~~~~~~~ee~~---~~i~~~~~~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r~i~~~L~~l  239 (264)
                      ++|++++    ++.+....+.++..   ..+...+...++++++||+++.++. .++.+. +  ..+.+++.+.+.+..|
T Consensus       235 ~~gl~~~~vleni~~~~~~~~~~~~~~l~~~~~~l~~~~~~llVIDs~t~~~~-~~~sg~-g--~l~~Rq~~l~~il~~L  310 (400)
T 3lda_A          235 RFGLDPDDALNNVAYARAYNADHQLRLLDAAAQMMSESRFSLIVVDSVMALYR-TDFSGR-G--ELSARQMHLAKFMRAL  310 (400)
T ss_dssp             HTTCCHHHHHHTEEEEECCSHHHHHHHHHHHHHHHHHSCEEEEEEETGGGGCC--------C--CHHHHHHHHHHHHHHH
T ss_pred             HcCCChHhHhhcEEEeccCChHHHHHHHHHHHHHHHhcCCceEEecchhhhCc-hhhcCc-c--chHHHHHHHHHHHHHH
Confidence            8899876    66777776665443   3344455557899999999999885 344331 1  1123344455566666


Q ss_pred             HHHHhccCcEEEEEcccchHh
Q 024705          240 HYSLCQSHTLIIFLNQVKVLL  260 (264)
Q Consensus       240 ~~~l~~~g~tVi~i~h~~~~~  260 (264)
                      ...++++|++||++||++...
T Consensus       311 ~~lake~gitVIlv~Hv~~~~  331 (400)
T 3lda_A          311 QRLADQFGVAVVVTNQVVAQV  331 (400)
T ss_dssp             HHHHHHHCCEEEEEEEC----
T ss_pred             HHHHHHcCCEEEEEEeecccC
Confidence            666689999999999996544

>3bh0_A DNAB-like replicative helicase; ATPase, replication; 2.35A {Bacillus phage SPP1}

Probab=99.88  E-value=7.8e-22  Score=174.34  Aligned_cols=155  Identities=19%  Similarity=0.205  Sum_probs=117.7

Q ss_pred             CCCccccCcHHHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCHH--HH--HHcCCCc
Q 024705           97 RGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPS--LA--EAMGIDA  172 (264)
Q Consensus        97 ~~~~i~tG~~~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~~--~~--~~~g~~~  172 (264)
                      ...+++||++.||.++|  |+++|++++|+|+||+|||||+++++.+++..|.+|+||+.|++..+.  +.  ...|++.
T Consensus        47 ~~~~i~TG~~~LD~~lg--Gl~~G~l~li~G~pG~GKTtl~l~ia~~~a~~g~~vl~~slE~s~~~l~~R~~~~~~~i~~  124 (315)
T 3bh0_A           47 NITGVPSGFTELDRMTY--GYKRRNFVLIAARPSMGKTAFALKQAKNMSDNDDVVNLHSLEMGKKENIKRLIVTAGSINA  124 (315)
T ss_dssp             SCCSBCCSCHHHHHHHS--SBCTTCEEEEECCTTSSHHHHHHHHHHHHHTTTCEEEEEESSSCHHHHHHHHHHHHTTCCH
T ss_pred             CCCCccCChHHHHhhcC--CCCCCcEEEEEeCCCCCHHHHHHHHHHHHHHcCCeEEEEECCCCHHHHHHHHHHHHcCCCH
Confidence            45789999999999995  999999999999999999999999999999888999999999887652  21  1224432


Q ss_pred             ---------------------------cceeEeCC--CCHHHHHHHHHHHhhcCCcc--EEEEcCccccccccccCCCcC
Q 024705          173 ---------------------------ENLLIAQP--DSAENLLSVVDTLTKSGSID--VIVVDSVAALIPKCEIGVPIN  221 (264)
Q Consensus       173 ---------------------------~~l~~~~~--~~~ee~~~~i~~~~~~~~~~--~vvIDsl~~~~~~~~~~~~~~  221 (264)
                                                 .++++.+.  .+.+++...++.+.+..+++  +||||+++.+... .   .  
T Consensus       125 ~~l~~~~~~l~~~~~~~l~~a~~~l~~~~i~i~d~~~~~~~~i~~~i~~l~~~~~~~~~lVVID~l~~l~~~-~---~--  198 (315)
T 3bh0_A          125 QKIKAARRDFASEDWGKLSMAIGEISNSNINIFDKAGQSVNYIWSKTRQTKRKNPGKRVIVMIDYLQLLEPA-K---A--  198 (315)
T ss_dssp             HHHHSCHHHHCSSCHHHHHHHHHHHHTSCEEEECCSCCBHHHHHHHHHHHHHTSSSCCEEEEEECGGGSBCS-C---T--
T ss_pred             HHHhcCCCCCCHHHHHHHHHHHHHHhCCCEEEECCCCCCHHHHHHHHHHHHHhcCCCCeEEEEeCchhcCCC-C---C--
Confidence                                       13444443  46888988888888777899  9999999998741 1   0  


Q ss_pred             CCCcHHHHHHHHHHHHHHHHHHhccCcEEEEEcccchHhhh
Q 024705          222 GMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVKVLLLK  262 (264)
Q Consensus       222 ~~~~~~q~r~i~~~L~~l~~~l~~~g~tVi~i~h~~~~~~~  262 (264)
                      ..   .....+...++.|...++++|++||+++|+++..+.
T Consensus       199 ~~---~r~~~i~~~~~~Lk~lAk~~~i~vi~lsql~r~~e~  236 (315)
T 3bh0_A          199 ND---SRTNQISQISRDLKKMARELDVVVIALSQLSRQVEQ  236 (315)
T ss_dssp             TS---CHHHHHHHHHHHHHHHHHHHTCEEEEEECCCGGGTT
T ss_pred             CC---CHHHHHHHHHHHHHHHHHHhCCeEEEEeecCccccc
Confidence            11   112234444555555559999999999999887654

>2dr3_A UPF0273 protein PH0284; RECA superfamily ATPase, hexamer, structural genomics; HET: ADP; 2.00A {Pyrococcus horikoshii}

Probab=99.87  E-value=1.1e-21  Score=166.14  Aligned_cols=146  Identities=23%  Similarity=0.319  Sum_probs=111.5

Q ss_pred             CccccCcHHHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCH--HHHHHcCCCcc---
Q 024705           99 PVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP--SLAEAMGIDAE---  173 (264)
Q Consensus        99 ~~i~tG~~~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~--~~~~~~g~~~~---  173 (264)
                      ++++||++.||.+++ ||+++|++++|+||||+|||||+.+++..+++.+++++|++.|+....  .++..+|++++   
T Consensus         3 ~~i~tG~~~LD~~l~-gGl~~G~~~~i~G~~GsGKTtl~~~~~~~~~~~~~~v~~~~~e~~~~~~~~~~~~~g~~~~~~~   81 (247)
T 2dr3_A            3 RRVKTGIPGVDEILH-GGIPERNVVLLSGGPGTGKTIFSQQFLWNGLKMGEPGIYVALEEHPVQVRQNMAQFGWDVKPYE   81 (247)
T ss_dssp             CEECCCCTTHHHHTT-TSEETTCEEEEEECTTSSHHHHHHHHHHHHHHTTCCEEEEESSSCHHHHHHHHHTTTCCCHHHH
T ss_pred             ccccCCchhHHHHcC-CCCCCCcEEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEEccCCHHHHHHHHHHcCCCHHHHh
Confidence            578999999999999 999999999999999999999999999999988999999999987554  34556777754   


Q ss_pred             ---ceeEeC-------------------CCCHHHHHHHHHHHhhcCCccEEEEcCccccccccccCCCcCCCCcHHHHHH
Q 024705          174 ---NLLIAQ-------------------PDSAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRI  231 (264)
Q Consensus       174 ---~l~~~~-------------------~~~~ee~~~~i~~~~~~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r~  231 (264)
                         ++.+.+                   +.+.+++...+...++..++++++||+++.+... +    .      .+.+ 
T Consensus        82 ~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~vviD~~~~l~~~-~----~------~~~~-  149 (247)
T 2dr3_A           82 EKGMFAMVDAFTAGIGKSKEYEKYIVHDLTDIREFIEVLRQAIRDINAKRVVVDSVTTLYIN-K----P------AMAR-  149 (247)
T ss_dssp             HHTSEEEEECSTTTTCC--CCCSCBCSCCSSHHHHHHHHHHHHHHHTCCEEEEETSGGGTTT-C----G------GGHH-
T ss_pred             hCCcEEEEecchhhcccccccccccccCccCHHHHHHHHHHHHHHhCCCEEEECCchHhhcC-C----H------HHHH-
Confidence               232222                   2356677777777776678999999999988621 1    0      1122 


Q ss_pred             HHHHHHHHHHHHhccCcEEEEEcccchH
Q 024705          232 MTQALRKIHYSLCQSHTLIIFLNQVKVL  259 (264)
Q Consensus       232 i~~~L~~l~~~l~~~g~tVi~i~h~~~~  259 (264)
                        +.+..+.+.+++.|++||+++|..+.
T Consensus       150 --~~l~~l~~~~~~~~~~vi~~~h~~~~  175 (247)
T 2dr3_A          150 --SIILQLKRVLAGTGCTSIFVSQVSVG  175 (247)
T ss_dssp             --HHHHHHHHHHHHTTCEEEEEEECC--
T ss_pred             --HHHHHHHHHHHHCCCeEEEEecCCCC
Confidence              33444555558899999999999875

>3bgw_A DNAB-like replicative helicase; ATPase, replication; 3.91A {Bacillus phage SPP1}

Probab=99.87  E-value=4.8e-21  Score=176.62  Aligned_cols=156  Identities=19%  Similarity=0.211  Sum_probs=119.6

Q ss_pred             CCCccccCcHHHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCHHH----HHHcCCCc
Q 024705           97 RGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSL----AEAMGIDA  172 (264)
Q Consensus        97 ~~~~i~tG~~~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~~~----~~~~g~~~  172 (264)
                      ...+++||+++||.++|  |+++|++++|+|+||+|||+|+++++.+++..|.+|+||+.|++..+..    +...|++.
T Consensus       176 ~~~gi~TG~~~LD~~lg--Gl~~G~liiIaG~pG~GKTtlal~ia~~~a~~g~~vl~fSlEms~~ql~~R~~~~~~~i~~  253 (444)
T 3bgw_A          176 NITGVPSGFTELDRMTY--GYKRRNFVLIAARPSMGKTAFALKQAKNMSDNDDVVNLHSLEMGKKENIKRLIVTAGSINA  253 (444)
T ss_dssp             SCCSBCCSCHHHHHHHS--SBCSSCEEEEEECSSSSHHHHHHHHHHHHHHTTCEEEEECSSSCTTHHHHHHHHHHSCCCH
T ss_pred             CCCCcCCCcHHHHhhcC--CCCCCcEEEEEeCCCCChHHHHHHHHHHHHHcCCEEEEEECCCCHHHHHHHHHHHHcCCCH
Confidence            46789999999999995  9999999999999999999999999999998899999999999988732    22234431


Q ss_pred             ---------------------------cceeEeCC--CCHHHHHHHHHHHhhcCCcc--EEEEcCccccccccccCCCcC
Q 024705          173 ---------------------------ENLLIAQP--DSAENLLSVVDTLTKSGSID--VIVVDSVAALIPKCEIGVPIN  221 (264)
Q Consensus       173 ---------------------------~~l~~~~~--~~~ee~~~~i~~~~~~~~~~--~vvIDsl~~~~~~~~~~~~~~  221 (264)
                                                 .++++.+.  .+++++...++.+.+..+++  +||||+++.+... ..     
T Consensus       254 ~~l~~g~~~l~~~~~~~l~~a~~~l~~~~l~i~d~~~~s~~~i~~~ir~l~~~~~~~~~lIVID~Lq~~~~~-~~-----  327 (444)
T 3bgw_A          254 QKIKAARRDFASEDWGKLSMAIGEISNSNINIFDKAGQSVNYIWSKTRQTKRKNPGKRVIVMIDYLQLLEPA-KA-----  327 (444)
T ss_dssp             HHHHHTGGGTCCSCHHHHHHHHHHHHTSCEEEECCSSCBHHHHHHHHHHHHHHSCSSCEEEEEECSTTSBCS-CS-----
T ss_pred             HHHhcccCCCCHHHHHHHHHHHHHHhcCCEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEEecHHhccCC-CC-----
Confidence                                       12333333  47889998888888778999  9999999998742 10     


Q ss_pred             CCCcHHHHHHHHHHHHHHHHHHhccCcEEEEEcccchHhhhc
Q 024705          222 GMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVKVLLLKH  263 (264)
Q Consensus       222 ~~~~~~q~r~i~~~L~~l~~~l~~~g~tVi~i~h~~~~~~~~  263 (264)
                      ......+   +....+.|...++++|++||+++|+++..+.+
T Consensus       328 ~~~r~~~---i~~i~~~Lk~lAke~~v~vi~lsql~r~~e~r  366 (444)
T 3bgw_A          328 NDSRTNQ---ISQISRDLKKMARELDVVVIALSQLSRQVEQR  366 (444)
T ss_dssp             SSCHHHH---HHHHHHHHHHHHHHHTCEEEEEEECCGGGGGS
T ss_pred             CCCHHHH---HHHHHHHHHHHHHHhCCeEEEEecCCcccccc
Confidence            1111223   44444555555599999999999999877653

>2zts_A Putative uncharacterized protein PH0186; KAIC like protein, ATP-binding, nucleotide-binding, ATP- binding protein; HET: ADP; 2.07A {Pyrococcus horikoshii}

Probab=99.87  E-value=4.3e-22  Score=168.80  Aligned_cols=151  Identities=21%  Similarity=0.291  Sum_probs=111.4

Q ss_pred             CCCCccccCcHHHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHHh-hcCCeEEEEecCCCCCH--HHHHHcCCCc
Q 024705           96 RRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQ-KLGGYCAYLDVENALDP--SLAEAMGIDA  172 (264)
Q Consensus        96 ~~~~~i~tG~~~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~-~~g~~v~~~~~e~~~~~--~~~~~~g~~~  172 (264)
                      .+.+++|||+++||++++ ||+++|++++|+|+||+|||+|+++++.+.+ ..+++|+|++.|++...  .++.+.+.+.
T Consensus         7 ~~i~ri~TGi~~LD~~l~-GGl~~G~l~~i~G~pG~GKT~l~l~~~~~~~~~~~~~v~~~s~E~~~~~~~~~~~~~~~~~   85 (251)
T 2zts_A            7 QPVRRVKSGIPGFDELIE-GGFPEGTTVLLTGGTGTGKTTFAAQFIYKGAEEYGEPGVFVTLEERARDLRREMASFGWDF   85 (251)
T ss_dssp             -CCCEECCSCTTTGGGTT-TSEETTCEEEEECCTTSSHHHHHHHHHHHHHHHHCCCEEEEESSSCHHHHHHHHHTTTCCH
T ss_pred             CCCCeecCCcHHHHHhhc-CCCCCCeEEEEEeCCCCCHHHHHHHHHHHHHHhcCCCceeecccCCHHHHHHHHHHcCCCh
Confidence            467899999999999999 9999999999999999999999999998765 45788999999998766  3444455443


Q ss_pred             c------ceeE------------------eCCCCHHHHHHHHHHHhhcCCccEEEEcCccccccccccCCCcCCCCcHHH
Q 024705          173 E------NLLI------------------AQPDSAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQ  228 (264)
Q Consensus       173 ~------~l~~------------------~~~~~~ee~~~~i~~~~~~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q  228 (264)
                      +      ++.+                  ......+++...+...+...++++++||+++.+....  .. .      .+
T Consensus        86 ~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vviD~~~~l~~~~--~~-~------~~  156 (251)
T 2zts_A           86 EKYEKEGKIAIVDGVSSVVGLPSEEKFVLEDRFNVDNFLRYIYRVVKAINAKRLVIDSIPSIALRL--EE-E------RK  156 (251)
T ss_dssp             HHHHHTTSEEEEC-------------------CCHHHHHHHHHHHHHHTTCSEEEEECHHHHHHHS--SS-G------GG
T ss_pred             HHHHhcCcchhhhhHHHHhhcccchhccccccccHHHHHHHHHHHHHhcCCcEEEEEcHHHHhhhc--cC-h------HH
Confidence            2      1111                  1223456777778888888899999999999886321  11 1      22


Q ss_pred             HHHHHHHHHHHHHHHhccCcEEEEEcccchH
Q 024705          229 SRIMTQALRKIHYSLCQSHTLIIFLNQVKVL  259 (264)
Q Consensus       229 ~r~i~~~L~~l~~~l~~~g~tVi~i~h~~~~  259 (264)
                      .+   ..++.|...+++.|+++++++|..+.
T Consensus       157 ~~---~~~~~L~~~a~~~~i~vi~~~q~~~~  184 (251)
T 2zts_A          157 IR---EVLLKLNTILLEMGVTTILTTEAPDP  184 (251)
T ss_dssp             HH---HHHHHHHHHHHHHCCEEEEEECCC--
T ss_pred             HH---HHHHHHHHHHHHcCCCeEEEEEEecc
Confidence            23   34455555559999999999998654

>1pzn_A RAD51, DNA repair and recombination protein RAD51, RADA; heptameric ring, heptamer, ring, oligomer, RAD51 polymerizat motif; HET: DNA; 2.85A {Pyrococcus furiosus} SCOP: a.60.4.1 c.37.1.11

Probab=99.86  E-value=5.7e-21  Score=171.06  Aligned_cols=186  Identities=24%  Similarity=0.278  Sum_probs=124.7

Q ss_pred             HHHHHHHHHHHHH-hcCCccccccccccCCCCCCccccCcHHHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHHh
Q 024705           67 DNALRLALSQLAN-DFGKESMLSLKRFFGSRRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQ  145 (264)
Q Consensus        67 ~~~l~~~l~~l~~-~~~~~~~~~~~~~~~~~~~~~i~tG~~~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~  145 (264)
                      .+.++.+.+++.+ .|.++..+.-.    ......++||++.||.+|+ ||+++|++++|+||||+|||||+++++..++
T Consensus        82 ~~~l~~~~~~~~~~~~~~~~~~~~~----~~~~~~isTG~~~LD~lL~-ggi~~G~i~~I~G~~GsGKTTL~~~l~~~~~  156 (349)
T 1pzn_A           82 LKIIQAARKAANLGTFMRADEYLKK----RATIGRISTGSKSLDKLLG-GGIETQAITEVFGEFGSGKTQLAHTLAVMVQ  156 (349)
T ss_dssp             HHHHHHHHHHCSTTSCEEHHHHHHH----HHTCCEECCSCHHHHHHHT-SSEESSEEEEEEESTTSSHHHHHHHHHHHTT
T ss_pred             HHHHHHHhhhccccCCccHHHHHhh----hccCCeecCCCHHHHHHhc-CCCCCCeEEEEECCCCCCHHHHHHHHHHHhc
Confidence            3444445555544 44444332211    1346889999999999999 9999999999999999999999999999874


Q ss_pred             hc------CCeEEEEecCCCCCH----HHHHHcCCCc----cceeEeCCCCH---HHHHHHHHHHhhc-----CCccEEE
Q 024705          146 KL------GGYCAYLDVENALDP----SLAEAMGIDA----ENLLIAQPDSA---ENLLSVVDTLTKS-----GSIDVIV  203 (264)
Q Consensus       146 ~~------g~~v~~~~~e~~~~~----~~~~~~g~~~----~~l~~~~~~~~---ee~~~~i~~~~~~-----~~~~~vv  203 (264)
                      ..      +++|+|++.+.....    .+++..+++.    +++.+....+.   .+.+..+...+..     .+++++|
T Consensus       157 ~~~~~Gg~~G~vi~i~~e~~~~~~~i~~i~q~~~~~~~~v~~ni~~~~~~~~~~~~~~l~~~~~~~~~lS~G~~~~~llI  236 (349)
T 1pzn_A          157 LPPEEGGLNGSVIWIDTENTFRPERIREIAQNRGLDPDEVLKHIYVARAFNSNHQMLLVQQAEDKIKELLNTDRPVKLLI  236 (349)
T ss_dssp             SCGGGTSCSCEEEEEESSSCCCHHHHHHHHHTTTCCHHHHGGGEEEEECCSHHHHHHHHHHHHHHHHHSSSSSSCEEEEE
T ss_pred             cchhcCCCCCeEEEEeCCCCCCHHHHHHHHHHcCCCHHHHhhCEEEEecCChHHHHHHHHHHHHHHHHhccccCCCCEEE
Confidence            32      468899999987543    2455566654    45555554443   3445556666655     6899999


Q ss_pred             EcCccccccccccCCCcCCCCcHHHHHHHHHHHHHHHHHHhccCcEEEEEcccchHhh
Q 024705          204 VDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVKVLLL  261 (264)
Q Consensus       204 IDsl~~~~~~~~~~~~~~~~~~~~q~r~i~~~L~~l~~~l~~~g~tVi~i~h~~~~~~  261 (264)
                      ||++++.+. .+..+..   ......+.+.+.+..|...+++.|++||++||+....+
T Consensus       237 lDs~ta~ld-~~~~~~~---~~~~r~~~~~~~l~~L~~la~~~~~tvii~~h~~~~~~  290 (349)
T 1pzn_A          237 VDSLTSHFR-SEYIGRG---ALAERQQKLAKHLADLHRLANLYDIAVFVTNQVQARPD  290 (349)
T ss_dssp             EETSSTTHH-HHCCSTT---THHHHHHHHHHHHHHHHHHHHHTTCEEEEEEECC----
T ss_pred             EeCchHhhh-hhhcccc---cHHHHHHHHHHHHHHHHHHHHHcCcEEEEEcccccccc
Confidence            999999883 3332210   11122233455566666666889999999999987654

>2q6t_A DNAB replication FORK helicase; hydrolase; 2.90A {Thermus aquaticus}

Probab=99.85  E-value=1.9e-20  Score=172.79  Aligned_cols=158  Identities=19%  Similarity=0.182  Sum_probs=114.6

Q ss_pred             CCCccccCcHHHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHHhh-cCCeEEEEecCCCCCHHH----HHHcCCC
Q 024705           97 RGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQK-LGGYCAYLDVENALDPSL----AEAMGID  171 (264)
Q Consensus        97 ~~~~i~tG~~~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~-~g~~v~~~~~e~~~~~~~----~~~~g~~  171 (264)
                      ...+++||++.||.++|  |+++|++++|+|+||+|||+|+++++.+++. .|.+|+||+.|++..+..    +...|++
T Consensus       179 ~~~~i~tG~~~LD~~lg--Gl~~G~l~ii~G~pg~GKT~lal~ia~~~a~~~g~~vl~~slE~~~~~l~~R~~~~~~~i~  256 (444)
T 2q6t_A          179 EVAGVRTGFKELDQLIG--TLGPGSLNIIAARPAMGKTAFALTIAQNAALKEGVGVGIYSLEMPAAQLTLRMMCSEARID  256 (444)
T ss_dssp             ----CCCSCHHHHHHHC--CCCTTCEEEEEECTTSCHHHHHHHHHHHHHHTTCCCEEEEESSSCHHHHHHHHHHHHTTCC
T ss_pred             CCCcccCCCHhhhhhcC--CcCCCcEEEEEeCCCCCHHHHHHHHHHHHHHhCCCeEEEEECCCCHHHHHHHHHHHHcCCC
Confidence            35789999999999995  9999999999999999999999999999986 478999999999876522    2334554


Q ss_pred             ccc-------------------------eeEeCC--CCHHHHHHHHHHHhhcCCccEEEEcCccccccccccCCCcCCCC
Q 024705          172 AEN-------------------------LLIAQP--DSAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMY  224 (264)
Q Consensus       172 ~~~-------------------------l~~~~~--~~~ee~~~~i~~~~~~~~~~~vvIDsl~~~~~~~~~~~~~~~~~  224 (264)
                      .++                         +++.+.  .+.+++...++.+....++++||||+++.+....  .+.. .. 
T Consensus       257 ~~~l~~g~l~~~~~~~~~~a~~~l~~~~l~i~d~~~~s~~~l~~~~~~l~~~~~~~lIvID~l~~~~~~~--~~~~-~~-  332 (444)
T 2q6t_A          257 MNRVRLGQLTDRDFSRLVDVASRLSEAPIYIDDTPDLTLMEVRARARRLVSQNQVGLIIIDYLQLMSGPG--SGKS-GE-  332 (444)
T ss_dssp             TTTCCGGGCCHHHHHHHHHHHHHHHTSCEEEECCTTCBHHHHHHHHHHHHHHSCCCEEEEECGGGCBCC-----------
T ss_pred             HHHHhCCCCCHHHHHHHHHHHHHHhcCCEEEECCCCCCHHHHHHHHHHHHHHcCCCEEEEcChhhcCCCc--CCCC-CC-
Confidence            432                         333333  3688888888888877889999999999987410  0000 01 


Q ss_pred             cHHHHHHHHHHHHHHHHHHhccCcEEEEEcccchHhhh
Q 024705          225 SDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVKVLLLK  262 (264)
Q Consensus       225 ~~~q~r~i~~~L~~l~~~l~~~g~tVi~i~h~~~~~~~  262 (264)
                        .....+...++.|...+++.|++||+++|+++..+.
T Consensus       333 --~r~~~i~~i~~~Lk~lAke~~v~vi~lsql~r~~e~  368 (444)
T 2q6t_A          333 --NRQQEIAAISRGLKALARELGIPIIALSQLSRAVEA  368 (444)
T ss_dssp             --CHHHHHHHHHHHHHHHHHHHTSCEEEEEECCGGGGS
T ss_pred             --CHHHHHHHHHHHHHHHHHHhCCeEEEEecCCccccc
Confidence              122234444455555559999999999999887664

>2cvh_A DNA repair and recombination protein RADB; filament formation, homologous recombination, ATPase domain, hyperthermophIle; HET: DNA; 2.20A {Thermococcus kodakarensis} PDB: 2cvf_A*

Probab=99.84  E-value=4.2e-20  Score=153.77  Aligned_cols=147  Identities=30%  Similarity=0.474  Sum_probs=104.9

Q ss_pred             ccccCcHHHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCHH----HHHHcCCCcc--
Q 024705          100 VISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPS----LAEAMGIDAE--  173 (264)
Q Consensus       100 ~i~tG~~~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~~----~~~~~g~~~~--  173 (264)
                      +++||++.||.+++ ||+++|++++|+||||+|||||+.+++.   ..+++++|++.+......    +.+..|++.+  
T Consensus         1 ri~tG~~~LD~~l~-Ggi~~G~~~~i~G~~GsGKTtl~~~l~~---~~~~~v~~i~~~~~~~~~~~~~~~~~~~~~~~~~   76 (220)
T 2cvh_A            1 MLSTGTKSLDSLLG-GGFAPGVLTQVYGPYASGKTTLALQTGL---LSGKKVAYVDTEGGFSPERLVQMAETRGLNPEEA   76 (220)
T ss_dssp             CBCCSCHHHHHHTT-SSBCTTSEEEEECSTTSSHHHHHHHHHH---HHCSEEEEEESSCCCCHHHHHHHHHTTTCCHHHH
T ss_pred             CcccCcHHHHHhhc-CCCcCCEEEEEECCCCCCHHHHHHHHHH---HcCCcEEEEECCCCCCHHHHHHHHHhcCCChHHH
Confidence            47999999999998 9999999999999999999999999998   568899999999855442    2344565433  


Q ss_pred             --ceeEeCCCCHHH---HHHHHHHHhhcCCccEEEEcCccccccccccCCCcCCCCcHHHHHHHHHHHHHHHHHHhccCc
Q 024705          174 --NLLIAQPDSAEN---LLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHT  248 (264)
Q Consensus       174 --~l~~~~~~~~ee---~~~~i~~~~~~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r~i~~~L~~l~~~l~~~g~  248 (264)
                        ++.+.+..+.++   .+..++.++.. ++++++||+++....... ..    .   ...+.+...+..+...+++.|+
T Consensus        77 ~~~~~~~~~~~~~~~~~~~~~~~~l~~~-~~~lliiD~~~~~l~~~~-~~----~---~~~~~~~~~~~~L~~l~~~~~~  147 (220)
T 2cvh_A           77 LSRFILFTPSDFKEQRRVIGSLKKTVDS-NFALVVVDSITAHYRAEE-NR----S---GLIAELSRQLQVLLWIARKHNI  147 (220)
T ss_dssp             HHHEEEECCTTTSHHHHHHHHHHHHCCT-TEEEEEEECCCCCTTGGG-GS----S---TTHHHHHHHHHHHHHHHHHHTC
T ss_pred             hhcEEEEecCCHHHHHHHHHHHHHHhhc-CCCEEEEcCcHHHhhhcC-ch----H---HHHHHHHHHHHHHHHHHHHcCC
Confidence              345555544433   44555555544 799999999998873211 10    1   1122334444445445588899


Q ss_pred             EEEEEcccchH
Q 024705          249 LIIFLNQVKVL  259 (264)
Q Consensus       249 tVi~i~h~~~~  259 (264)
                      +||+++|..+.
T Consensus       148 ~vi~~~h~~~~  158 (220)
T 2cvh_A          148 PVIVINQVHFD  158 (220)
T ss_dssp             CEEEEECSSSS
T ss_pred             EEEEEeeEEEc
Confidence            99999998763

>1q57_A DNA primase/helicase; dntpase, DNA replication, transferase; HET: DNA; 3.45A {Enterobacteria phage T7} SCOP: c.37.1.11 e.13.1.2

Probab=99.84  E-value=2.4e-20  Score=174.57  Aligned_cols=152  Identities=9%  Similarity=0.134  Sum_probs=117.2

Q ss_pred             CCCCcccc-CcHHHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHHhhc-CCeEEEEecCCCCCHH--H--HHHcC
Q 024705           96 RRGPVIST-GSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKL-GGYCAYLDVENALDPS--L--AEAMG  169 (264)
Q Consensus        96 ~~~~~i~t-G~~~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~-g~~v~~~~~e~~~~~~--~--~~~~g  169 (264)
                      ....+++| |++.||.++|  |+++|++++|+|+||+|||+|+++++.+++.. |.+|+||+.|++..+.  +  +...|
T Consensus       219 ~~~~~i~t~G~~~LD~~lg--Gl~~G~l~li~G~pG~GKT~lal~~a~~~a~~~g~~vl~~s~E~s~~~l~~r~~~~~~~  296 (503)
T 1q57_A          219 EESVGLLFSGCTGINDKTL--GARGGEVIMVTSGSGMVMSTFVRQQALQWGTAMGKKVGLAMLEESVEETAEDLIGLHNR  296 (503)
T ss_dssp             SCTTCSCCSSCTTHHHHHC--CCCTTCEEEEEESSCHHHHHHHHHHHHHHTTTSCCCEEEEESSSCHHHHHHHHHHHHTT
T ss_pred             cccCCccccchhhhhHhhc--ccCCCeEEEEeecCCCCchHHHHHHHHHHHHhcCCcEEEEeccCCHHHHHHHHHHHHcC
Confidence            35678999 9999999996  89999999999999999999999999999987 8899999999987652  1  23445


Q ss_pred             CCcc--------------------------ceeEeCC---CCHHHHHHHHHHHhhcCCccEEEEcCccccccccccCCCc
Q 024705          170 IDAE--------------------------NLLIAQP---DSAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPI  220 (264)
Q Consensus       170 ~~~~--------------------------~l~~~~~---~~~ee~~~~i~~~~~~~~~~~vvIDsl~~~~~~~~~~~~~  220 (264)
                      ++..                          ++.+.+.   .+.+++...++.++...++++||||+++.+... .  .  
T Consensus       297 ~~~~~~~~~~~g~l~~~~~~~~~~~~~~~~~l~i~~~~~~~~~~~i~~~i~~~~~~~~~~lvVID~l~~l~~~-~--~--  371 (503)
T 1q57_A          297 VRLRQSDSLKREIIENGKFDQWFDELFGNDTFHLYDSFAEAETDRLLAKLAYMRSGLGCDVIILDHISIVVSA-S--G--  371 (503)
T ss_dssp             SCCTTCHHHHHHHHHTSHHHHHHHHHHTTTCEEEECCC---CHHHHHHHHHHHHHTTCCSEEEEECTTCCCSC-C--S--
T ss_pred             CChhhccccccCCCCHHHHHHHHHHHhccCCEEEECCCCCCCHHHHHHHHHHHHHhcCCCEEEEccchhcCCC-C--C--
Confidence            5432                          2445443   578899999988888889999999999988631 1  0  


Q ss_pred             CCCCcHHHHHHHHHHHHHHHHHHhccCcEEEEEcccch
Q 024705          221 NGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVKV  258 (264)
Q Consensus       221 ~~~~~~~q~r~i~~~L~~l~~~l~~~g~tVi~i~h~~~  258 (264)
                       ..   .....+...++.|..+++++|++||+++|+++
T Consensus       372 -~~---~~~~~~~~~~~~Lk~lak~~~i~vi~~~q~~r  405 (503)
T 1q57_A          372 -ES---DERKMIDNLMTKLKGFAKSTGVVLVVICHLKN  405 (503)
T ss_dssp             -CC---CHHHHHHHHHHHHHHHHHHHTCEEEEEEECCC
T ss_pred             -CC---CHHHHHHHHHHHHHHHHHHHCCeEEEEEcCCc
Confidence             11   12223444555555555999999999999986

>2r6a_A DNAB helicase, replicative helicase; replication, DNAB; 2.90A {Geobacillus stearothermophilus} PDB: 2r6c_A 2r6d_A 2r6e_A 2vyf_A 2vye_A

Probab=99.83  E-value=6.4e-20  Score=169.72  Aligned_cols=156  Identities=16%  Similarity=0.237  Sum_probs=117.3

Q ss_pred             CCCccccCcHHHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHHhh-cCCeEEEEecCCCCCHHH----HHHcCCC
Q 024705           97 RGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQK-LGGYCAYLDVENALDPSL----AEAMGID  171 (264)
Q Consensus        97 ~~~~i~tG~~~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~-~g~~v~~~~~e~~~~~~~----~~~~g~~  171 (264)
                      ...+++||++.||.+++  |+++|++++|+|+||+|||||+++++.+++. .|.+|+||+.|++..+..    +...|++
T Consensus       182 ~~~~i~tG~~~LD~~~g--Gl~~G~liiI~G~pG~GKTtl~l~ia~~~~~~~g~~Vl~~s~E~s~~~l~~r~~~~~~~~~  259 (454)
T 2r6a_A          182 EITGIPTGFTELDRMTS--GFQRSDLIIVAARPSVGKTAFALNIAQNVATKTNENVAIFSLEMSAQQLVMRMLCAEGNIN  259 (454)
T ss_dssp             CCCSBCCSCHHHHHHHS--SBCTTCEEEEECCTTSCHHHHHHHHHHHHHHHSSCCEEEEESSSCHHHHHHHHHHHHHTCC
T ss_pred             CCCCCCCCcHHHHhhcC--CCCCCCEEEEECCCCCCHHHHHHHHHHHHHHhCCCcEEEEECCCCHHHHHHHHHHHHcCCC
Confidence            46799999999999995  9999999999999999999999999999987 477999999999876522    2234554


Q ss_pred             cc-------------------------ceeEeCC--CCHHHHHHHHHHHhhcCCccEEEEcCccccccccccCCCcCCCC
Q 024705          172 AE-------------------------NLLIAQP--DSAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMY  224 (264)
Q Consensus       172 ~~-------------------------~l~~~~~--~~~ee~~~~i~~~~~~~~~~~vvIDsl~~~~~~~~~~~~~~~~~  224 (264)
                      .+                         ++++.+.  .+..++...++.++...++++||||+++.+... ...    ...
T Consensus       260 ~~~l~~g~l~~~~~~~~~~a~~~l~~~~l~i~d~~~~s~~~i~~~~~~l~~~~~~~livID~l~~~~~~-~~~----~~~  334 (454)
T 2r6a_A          260 AQNLRTGKLTPEDWGKLTMAMGSLSNAGIYIDDTPSIRVSDIRAKCRRLKQESGLGMIVIDYLQLIQGS-GRS----KEN  334 (454)
T ss_dssp             HHHHHTSCCCHHHHHHHHHHHHHHHSSCEEEECCTTCCHHHHHHHHHHHHTTTCCCEEEEECGGGSCCS-CC--------
T ss_pred             HHHHhcCCCCHHHHHHHHHHHHHHhcCCEEEECCCCCCHHHHHHHHHHHHHHcCCCEEEEccHHHhccC-CCC----CCC
Confidence            32                         2333333  378888888888887778999999999998742 110    011


Q ss_pred             cHHHHHHHHHHHHHHHHHHhccCcEEEEEcccchHhhh
Q 024705          225 SDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVKVLLLK  262 (264)
Q Consensus       225 ~~~q~r~i~~~L~~l~~~l~~~g~tVi~i~h~~~~~~~  262 (264)
                      ...+...+++.|+.++   ++.|++||+++|+++..+.
T Consensus       335 ~~~~i~~i~~~Lk~lA---ke~~i~vi~~sql~r~~e~  369 (454)
T 2r6a_A          335 RQQEVSEISRSLKALA---RELEVPVIALSQLSRSVEQ  369 (454)
T ss_dssp             CHHHHHHHHHHHHHHH---HHHTCCEEEEECCCTTSTT
T ss_pred             HHHHHHHHHHHHHHHH---HHhCCeEEEEecCCccccc
Confidence            2234444555555555   8999999999998876654

>2w0m_A SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus solfataricus P2}

Probab=99.83  E-value=4.8e-20  Score=154.35  Aligned_cols=144  Identities=27%  Similarity=0.399  Sum_probs=107.9

Q ss_pred             CccccCcHHHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCH--HHHHHcCCCccce-
Q 024705           99 PVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP--SLAEAMGIDAENL-  175 (264)
Q Consensus        99 ~~i~tG~~~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~--~~~~~~g~~~~~l-  175 (264)
                      +.++||++.||.+++ ||+++|++++|+||||+|||||+.+++......+++++|++.+.....  .+...+|++.+.+ 
T Consensus         3 ~~i~tg~~~Ld~~~~-ggi~~G~~~~i~G~~GsGKTtl~~~l~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~   81 (235)
T 2w0m_A            3 SRLSTGILDFDKLIQ-GGIPQGFFIALTGEPGTGKTIFSLHFIAKGLRDGDPCIYVTTEESRDSIIRQAKQFNWDFEEYI   81 (235)
T ss_dssp             CEECCSCHHHHGGGT-TSEETTCEEEEECSTTSSHHHHHHHHHHHHHHHTCCEEEEESSSCHHHHHHHHHHTTCCCGGGB
T ss_pred             ccccCCchHHHHHhc-CCCcCCCEEEEEcCCCCCHHHHHHHHHHHHHHCCCeEEEEEcccCHHHHHHHHHHhcchHHHHh
Confidence            578999999999998 899999999999999999999999999988888999999999886443  2344567665532 


Q ss_pred             ----eEe-------------CCCCHHHHHHHHHHHhhcCCcc--EEEEcCccccccccccCCCcCCCCcHHHHHHHHHHH
Q 024705          176 ----LIA-------------QPDSAENLLSVVDTLTKSGSID--VIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQAL  236 (264)
Q Consensus       176 ----~~~-------------~~~~~ee~~~~i~~~~~~~~~~--~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r~i~~~L  236 (264)
                          .+.             ...+.+++...+...+...+++  ++++|+++.+... +    +      ...+.+...|
T Consensus        82 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~llilDe~~~~~~~-d----~------~~~~~~~~~l  150 (235)
T 2w0m_A           82 EKKLIIIDALMKEKEDQWSLVNLTPEELVNKVIEAKQKLGYGKARLVIDSVSALFLD-K----P------AMARKISYYL  150 (235)
T ss_dssp             TTTEEEEECCC----CTTBCSSCCHHHHHHHHHHHHHHHCSSCEEEEEETGGGGSSS-C----G------GGHHHHHHHH
T ss_pred             hCCEEEEeccccccCceeeecCCCHHHHHHHHHHHHHhhCCCceEEEEECchHhhcC-C----H------HHHHHHHHHH
Confidence                111             1225677776666666666899  9999999988631 1    1      2234455555


Q ss_pred             HHHHHHHhccCcEEEEEcccc
Q 024705          237 RKIHYSLCQSHTLIIFLNQVK  257 (264)
Q Consensus       237 ~~l~~~l~~~g~tVi~i~h~~  257 (264)
                      ++++   ++.|++||+++|..
T Consensus       151 ~~~~---~~~~~~vi~~~h~~  168 (235)
T 2w0m_A          151 KRVL---NKWNFTIYATSQYA  168 (235)
T ss_dssp             HHHH---HHTTEEEEEEEC--
T ss_pred             HHHH---HhCCCeEEEEeccC
Confidence            5554   78899999999998

>4a74_A DNA repair and recombination protein RADA; hydrolase, recombinase; HET: DNA ANP; 1.48A {Pyrococcus furiosus} PDB: 4a6x_A* 4a6p_A* 4a7o_A*

Probab=99.83  E-value=7e-20  Score=153.36  Aligned_cols=158  Identities=27%  Similarity=0.375  Sum_probs=110.7

Q ss_pred             CCCccccCcHHHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHHhh------cCCeEEEEecCCCCCH----HHHH
Q 024705           97 RGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQK------LGGYCAYLDVENALDP----SLAE  166 (264)
Q Consensus        97 ~~~~i~tG~~~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~------~g~~v~~~~~e~~~~~----~~~~  166 (264)
                      +.+.++||++.||.+++ ||+++|++++|.||||||||||+..++.....      .+++++|++.+.....    .+.+
T Consensus         3 ~~~~i~tG~~~LD~~l~-ggi~~G~~~~l~G~nGsGKSTll~~l~g~~~~~~~~g~~~~~~i~~~~~~~~~~~~i~~~~~   81 (231)
T 4a74_A            3 TIGRISTGSKSLDKLLG-GGIETQAITEVFGEFGSGKTQLAHTLAVMVQLPPEEGGLNGSVIWIDTENTFRPERIREIAQ   81 (231)
T ss_dssp             CCCEECCSCHHHHHHTT-SSEESSEEEEEEESTTSSHHHHHHHHHHHTTSCGGGTCCSCEEEEEESSSCCCHHHHHHHHH
T ss_pred             cCCccCCCChhHHhHhc-CCCCCCcEEEEECCCCCCHHHHHHHHHHHHhcccccCCCCCEEEEEECCCCCCHHHHHHHHH
Confidence            56889999999999998 99999999999999999999999999987654      3677999998876553    3456


Q ss_pred             HcCCCcc----ceeEeCCCCHHH---HHHHHHHHhh-----cCCccEEEEcCccccccccccCCCcCCCCcHHHHHHHHH
Q 024705          167 AMGIDAE----NLLIAQPDSAEN---LLSVVDTLTK-----SGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQ  234 (264)
Q Consensus       167 ~~g~~~~----~l~~~~~~~~ee---~~~~i~~~~~-----~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r~i~~  234 (264)
                      .+++.++    ++.+.......+   ....+...+.     ..+++++++|+++..+. .++.+..   ....+.+.+..
T Consensus        82 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~llilDe~~~~l~-~~~~~~~---~~~~r~~~~~~  157 (231)
T 4a74_A           82 NRGLDPDEVLKHIYVARAFNSNHQMLLVQQAEDKIKELLNTDRPVKLLIVDSLTSHFR-SEYIGRG---ALAERQQKLAK  157 (231)
T ss_dssp             HTTSCHHHHHHTEEEEECCSHHHHHHHHHHHHHHHHHHTTSSSCEEEEEEETSSHHHH-HHSCSTT---HHHHHHHHHHH
T ss_pred             HcCCCHHHHhhcEEEEecCChHHHHHHHHHHHHHHHHhcccCCceeEEEECChHHHhc-cccCCCc---chhHHHHHHHH
Confidence            6777654    555555544332   2333444444     57899999999998874 2332210   01122222334


Q ss_pred             HHHHHHHHHhccCcEEEEEcccchH
Q 024705          235 ALRKIHYSLCQSHTLIIFLNQVKVL  259 (264)
Q Consensus       235 ~L~~l~~~l~~~g~tVi~i~h~~~~  259 (264)
                      .+..+...+++.|+|||+++|..+.
T Consensus       158 ~~~~l~~~~~~~g~tvi~vtH~~~~  182 (231)
T 4a74_A          158 HLADLHRLANLYDIAVFVTNQVQAN  182 (231)
T ss_dssp             HHHHHHHHHHHHTCEEEEEEECC--
T ss_pred             HHHHHHHHHHHCCCeEEEEeecccC
Confidence            4555555558889999999997664

>1nlf_A Regulatory protein REPA; replicative DNA helicase structural changes, replication; 1.95A {Escherichia coli} SCOP: c.37.1.11 PDB: 1g8y_A 1olo_A

Probab=99.74  E-value=3.2e-18  Score=148.36  Aligned_cols=147  Identities=18%  Similarity=0.229  Sum_probs=100.5

Q ss_pred             CCccccCcHHHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHHhhc----------CCeEEEEecCCCCCH--HHH
Q 024705           98 GPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKL----------GGYCAYLDVENALDP--SLA  165 (264)
Q Consensus        98 ~~~i~tG~~~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~----------g~~v~~~~~e~~~~~--~~~  165 (264)
                      .+.++||+++||.+++  |+++|++++|+||||+|||||+++++..+...          +++++|++.|+....  .++
T Consensus        10 ~~~i~tg~~~ld~~lg--gl~~G~i~~i~G~~GsGKTtl~~~l~~~~~~g~~~~g~~~~~~~~v~~~~~e~~~~~~~~r~   87 (279)
T 1nlf_A           10 LEAFAAAPPPLDYVLP--NMVAGTVGALVSPGGAGKSMLALQLAAQIAGGPDLLEVGELPTGPVIYLPAEDPPTAIHHRL   87 (279)
T ss_dssp             HHHHHSCCCCCCEEET--TEETTSEEEEEESTTSSHHHHHHHHHHHHHTCCCTTCCCCCCCCCEEEEESSSCHHHHHHHH
T ss_pred             HHHhcCCCCChheeEC--CccCCCEEEEEcCCCCCHHHHHHHHHHHHhcCCCcCCCccCCCccEEEEECCCCHHHHHHHH
Confidence            4568999999999996  89999999999999999999999999877642          478999999987654  245


Q ss_pred             HHcCCCc---------cceeEeCC-------CCHHHHHHHHHHHhhcCCccEEEEcCccccccccccCCCcCCCCcHHHH
Q 024705          166 EAMGIDA---------ENLLIAQP-------DSAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQS  229 (264)
Q Consensus       166 ~~~g~~~---------~~l~~~~~-------~~~ee~~~~i~~~~~~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~  229 (264)
                      ..+|.+.         +++.+.+.       .+.. ....+..++.  +++++|||+++.+....+  .      .....
T Consensus        88 ~~~g~~~~~~~~~~~~~~l~l~~~~~~~~~~ls~g-~~~~i~~l~~--~~~livlDe~~~~~~~d~--~------~~~~~  156 (279)
T 1nlf_A           88 HALGAHLSAEERQAVADGLLIQPLIGSLPNIMAPE-WFDGLKRAAE--GRRLMVLDTLRRFHIEEE--N------ASGPM  156 (279)
T ss_dssp             HHHHTTSCHHHHHHHHHHEEECCCTTSCCCTTSHH-HHHHHHHHHT--TCSEEEEECGGGGCCSCT--T------CHHHH
T ss_pred             HHHHhhcChhhhhhccCceEEeecCCCCcccCCHH-HHHHHHHhcC--CCCEEEECCHHHhcCCCc--C------chHHH
Confidence            5566543         23443332       1222 2444555543  699999999999874211  0      11223


Q ss_pred             HHHHHHHHHHHHHHhccCcEEEEEcccchHh
Q 024705          230 RIMTQALRKIHYSLCQSHTLIIFLNQVKVLL  260 (264)
Q Consensus       230 r~i~~~L~~l~~~l~~~g~tVi~i~h~~~~~  260 (264)
                      +.+...|+.+   +++.|++||+++|..+..
T Consensus       157 ~~~~~~L~~l---~~~~g~tvi~i~H~~~~~  184 (279)
T 1nlf_A          157 AQVIGRMEAI---AADTGCSIVFLHHASKGA  184 (279)
T ss_dssp             HHHHHHHHHH---HHHHCCEEEEEEEC----
T ss_pred             HHHHHHHHHH---HHHcCCEEEEEecCCCcc
Confidence            3334444444   488899999999998764

>1cr0_A DNA primase/helicase; RECA-type protein fold, transferase; HET: DNA; 2.30A {Enterobacteria phage T7} SCOP: c.37.1.11 PDB: 1cr1_A* 1cr2_A* 1cr4_A* 1e0j_A* 1e0k_A*

Probab=99.74  E-value=5.3e-17  Score=141.68  Aligned_cols=150  Identities=11%  Similarity=0.183  Sum_probs=104.8

Q ss_pred             CCCCcccc-CcHHHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHHhhc-CCeEEEEecCCCCCHHHHH----HcC
Q 024705           96 RRGPVIST-GSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKL-GGYCAYLDVENALDPSLAE----AMG  169 (264)
Q Consensus        96 ~~~~~i~t-G~~~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~-g~~v~~~~~e~~~~~~~~~----~~g  169 (264)
                      ....+++| |++.||.+.+  |+++|++++|+||||+|||||+.+++..+... |.+|+|++.|+...+...+    ..+
T Consensus        12 ~~~~~i~t~g~~~Ld~i~~--~l~~G~~~~i~G~~G~GKTTl~~~ia~~~~~~~G~~v~~~~~e~~~~~~~~r~~~~~~~   89 (296)
T 1cr0_A           12 EESVGLLFSGCTGINDKTL--GARGGEVIMVTSGSGMGKSTFVRQQALQWGTAMGKKVGLAMLEESVEETAEDLIGLHNR   89 (296)
T ss_dssp             CCCCCBCCCSCTTHHHHHC--SBCTTCEEEEEESTTSSHHHHHHHHHHHHHHTSCCCEEEEESSSCHHHHHHHHHHHHTT
T ss_pred             CCcCCcccCCHHHHHHHhc--CCCCCeEEEEEeCCCCCHHHHHHHHHHHHHHHcCCeEEEEeCcCCHHHHHHHHHHHHcC
Confidence            35678999 9999999985  99999999999999999999999999998876 5589999998754321111    012


Q ss_pred             CCc--------------------------cceeEeC---CCCHHHHHHHHHHHhhcCCccEEEEcCccccccccccCCCc
Q 024705          170 IDA--------------------------ENLLIAQ---PDSAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPI  220 (264)
Q Consensus       170 ~~~--------------------------~~l~~~~---~~~~ee~~~~i~~~~~~~~~~~vvIDsl~~~~~~~~~~~~~  220 (264)
                      .+.                          ..+.+.+   ..+..++...+.......++++++||+++.+.....     
T Consensus        90 ~~~~~~~~l~~~~~~~~~~~~~~~~~l~~~~l~i~~~~~~~~~~~l~~~~~a~~~~~~p~llilDept~~~~~~~-----  164 (296)
T 1cr0_A           90 VRLRQSDSLKREIIENGKFDQWFDELFGNDTFHLYDSFAEAETDRLLAKLAYMRSGLGCDVIILDHISIVVSASG-----  164 (296)
T ss_dssp             CCGGGCHHHHHHHHHHTHHHHHHHHHHSSSCEEEECCCCSCCHHHHHHHHHHHHHTTCCSEEEEEEEC------------
T ss_pred             CChhhccccccCCCCHHHHHHHHHHHhccCCEEEECCCCCCCHHHHHHHHHHHHHhcCCCEEEEcCccccCCCCC-----
Confidence            221                          1233432   256778777777655567899999999999763100     


Q ss_pred             CCCCcH-HHHHHHHHHHHHHHHHHhccCcEEEEEcccc
Q 024705          221 NGMYSD-AQSRIMTQALRKIHYSLCQSHTLIIFLNQVK  257 (264)
Q Consensus       221 ~~~~~~-~q~r~i~~~L~~l~~~l~~~g~tVi~i~h~~  257 (264)
                        ..+. .+.+.+.+.|++++   ++.|++||+++|..
T Consensus       165 --~~d~~~~~~~i~~~L~~la---~~~~~~vi~vsh~~  197 (296)
T 1cr0_A          165 --ESDERKMIDNLMTKLKGFA---KSTGVVLVVICHLK  197 (296)
T ss_dssp             ------CHHHHHHHHHHHHHH---HHHCCEEEEEEECC
T ss_pred             --CCCHHHHHHHHHHHHHHHH---HHhCCeEEEEEecC
Confidence              0111 34455666666665   88899999999996

>1tf7_A KAIC; homohexamer, hexamer, circadian clock protein; HET: ATP; 2.80A {Synechococcus SP} SCOP: c.37.1.11 c.37.1.11 PDB: 3s1a_A* 1u9i_A* 2gbl_A* 3dvl_A* 3k0a_A* 3k09_A* 3jzm_A* 3k0e_A* 4dug_A* 3ua2_A* 3k0c_A* 3k0f_A*

Probab=99.69  E-value=4.1e-16  Score=146.62  Aligned_cols=147  Identities=23%  Similarity=0.236  Sum_probs=110.3

Q ss_pred             CCCccccCcHHHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCH--HHHHHcCCCcc-
Q 024705           97 RGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP--SLAEAMGIDAE-  173 (264)
Q Consensus        97 ~~~~i~tG~~~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~--~~~~~~g~~~~-  173 (264)
                      ..+.++||+++||.+++ ||+++|++++|.||||+|||||+.+++....+.|++++|+.+++...+  .++.++|++.+ 
T Consensus       259 ~~~~l~~g~~~ld~vL~-g~i~~G~i~~i~G~~GsGKSTLl~~l~g~~~~~G~~vi~~~~ee~~~~l~~~~~~~g~~~~~  337 (525)
T 1tf7_A          259 SNVRVSSGVVRLDEMCG-GGFFKDSIILATGATGTGKTLLVSRFVENACANKERAILFAYEESRAQLLRNAYSWGMDFEE  337 (525)
T ss_dssp             CCCEECCSCHHHHHHTT-SSEESSCEEEEEECTTSSHHHHHHHHHHHHHTTTCCEEEEESSSCHHHHHHHHHTTSCCHHH
T ss_pred             ccceeecChHHHHHHhC-CCCCCCcEEEEEeCCCCCHHHHHHHHHHHHHhCCCCEEEEEEeCCHHHHHHHHHHcCCCHHH
Confidence            46789999999999999 999999999999999999999999999988878888999999887544  23445666532 


Q ss_pred             -----ceeEeCC----CCHHHHHHHHHHHhhcCCccEEEEcCccccccccccCCCcCCCCcHHHHHHHHHHHHHHHHHHh
Q 024705          174 -----NLLIAQP----DSAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLC  244 (264)
Q Consensus       174 -----~l~~~~~----~~~ee~~~~i~~~~~~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r~i~~~L~~l~~~l~  244 (264)
                           .+.+...    .+..+....+...+...+++++++|+++.+...  .        .+.|.   ...+.++.+.++
T Consensus       338 ~~~~g~~~~~~~~p~~LS~g~~q~~~~a~~l~~~p~llilDp~~~Ld~~--~--------~~~~~---~~~i~~ll~~l~  404 (525)
T 1tf7_A          338 MERQNLLKIVCAYPESAGLEDHLQIIKSEINDFKPARIAIDSLSALARG--V--------SNNAF---RQFVIGVTGYAK  404 (525)
T ss_dssp             HHHTTSEEECCCCGGGSCHHHHHHHHHHHHHTTCCSEEEEECHHHHTSS--S--------CHHHH---HHHHHHHHHHHH
T ss_pred             HHhCCCEEEEEeccccCCHHHHHHHHHHHHHhhCCCEEEEcChHHHHhh--C--------ChHHH---HHHHHHHHHHHH
Confidence                 2222222    356676666666666679999999988888742  1        11232   244455555557


Q ss_pred             ccCcEEEEEcccc
Q 024705          245 QSHTLIIFLNQVK  257 (264)
Q Consensus       245 ~~g~tVi~i~h~~  257 (264)
                      +.|+|||+++|..
T Consensus       405 ~~g~tvilvsh~~  417 (525)
T 1tf7_A          405 QEEITGLFTNTSD  417 (525)
T ss_dssp             HTTCEEEEEEECS
T ss_pred             hCCCEEEEEECcc
Confidence            8899999999997

>3bs4_A Uncharacterized protein PH0321; structural genomics, unknown function, PSI-2, protein struct initiative; 1.60A {Pyrococcus horikoshii}

Probab=99.67  E-value=5.2e-16  Score=132.89  Aligned_cols=73  Identities=14%  Similarity=0.141  Sum_probs=67.9

Q ss_pred             ccccCcHHHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCH--HHHHHcCCCcc
Q 024705          100 VISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP--SLAEAMGIDAE  173 (264)
Q Consensus       100 ~i~tG~~~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~--~~~~~~g~~~~  173 (264)
                      .++||++.||.+|+ ||+++|++++|.|.||+|||+|+.+++.+.+.+|++++|+.++++..+  ..++.+|++++
T Consensus         2 ~i~tGi~~LD~~l~-GGl~~gs~~li~g~p~~~~~~l~~qfl~~g~~~Ge~~~~~~~~e~~~~l~~~~~~~G~dl~   76 (260)
T 3bs4_A            2 SLSWEIEELDREIG-KIKKHSLILIHEEDASSRGKDILFYILSRKLKSDNLVGMFSISYPLQLIIRILSRFGVDVI   76 (260)
T ss_dssp             CBCCSSHHHHHHHC-CBCTTCEEEEEECSGGGCHHHHHHHHHHHHHHTTCEEEEEECSSCHHHHHHHHHHTTCCHH
T ss_pred             cCccCcHHHHHHhC-CCCCCCcEEEEEeCCCccHHHHHHHHHHHHHHCCCcEEEEEEeCCHHHHHHHHHHcCCCHH
Confidence            57999999999999 999999999999999999999999999999999999999999999887  46778898865

>1tf7_A KAIC; homohexamer, hexamer, circadian clock protein; HET: ATP; 2.80A {Synechococcus SP} SCOP: c.37.1.11 c.37.1.11 PDB: 3s1a_A* 1u9i_A* 2gbl_A* 3dvl_A* 3k0a_A* 3k09_A* 3jzm_A* 3k0e_A* 4dug_A* 3ua2_A* 3k0c_A* 3k0f_A*

Probab=99.59  E-value=1.2e-14  Score=136.75  Aligned_cols=151  Identities=17%  Similarity=0.197  Sum_probs=106.6

Q ss_pred             CCCccccCcHHHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHH-HHHhhcCCeEEEEecCCCCCH--HHHHHcCCCcc
Q 024705           97 RGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVI-KEAQKLGGYCAYLDVENALDP--SLAEAMGIDAE  173 (264)
Q Consensus        97 ~~~~i~tG~~~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~-~~~~~~g~~v~~~~~e~~~~~--~~~~~~g~~~~  173 (264)
                      ....+++|++.||.+.. ||+++|++++|.||||||||||+.+++ ..+.+.+.+.+|++.++....  .+++.+|+.++
T Consensus        17 ~~~~~~~g~~~Ld~i~~-G~i~~Ge~~~l~G~nGsGKSTL~~~~ll~Gl~~~~~g~i~v~g~~~~~~~~~~~~~~g~~~q   95 (525)
T 1tf7_A           17 AIAKMRTMIEGFDDISH-GGLPIGRSTLVSGTSGTGKTLFSIQFLYNGIIEFDEPGVFVTFEETPQDIIKNARSFGWDLA   95 (525)
T ss_dssp             SCCEECCCCTTHHHHTT-SSEETTSEEEEEESTTSSHHHHHHHHHHHHHHHHCCCEEEEESSSCHHHHHHHHGGGTCCHH
T ss_pred             ccccccCCchhHHHhcC-CCCCCCeEEEEEcCCCCCHHHHHHHHHHHHHHhCCCCEEEEEEeCCHHHHHHHHHHcCCChH
Confidence            46789999999999987 899999999999999999999999974 455555777899998774322  34567888776


Q ss_pred             ce------eEeCC------------CCHHHHHHHHHHHhhcCCccEEEEcCccccccccccCCCcCCCCcHHHHHHHHHH
Q 024705          174 NL------LIAQP------------DSAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQA  235 (264)
Q Consensus       174 ~l------~~~~~------------~~~ee~~~~i~~~~~~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r~i~~~  235 (264)
                      +.      .....            ...+++.......+..++++++++|++.+..+..        ..+...++.+...
T Consensus        96 ~~~~~~~l~~~~~~~~~~~~~~l~~~~l~~~~~~~~~~LS~g~~~~lilDe~t~~~~~~--------~lD~~~~~~l~~l  167 (525)
T 1tf7_A           96 KLVDEGKLFILDASPDPEGQEVVGGFDLSALIERINYAIQKYRARRVSIDSVTSVFQQY--------DASSVVRRELFRL  167 (525)
T ss_dssp             HHHHTTSEEEEECCCCSSCCSCCSSHHHHHHHHHHHHHHHHHTCSEEEEECSTTTSTTT--------CCHHHHHHHHHHH
T ss_pred             HhhccCcEEEEecCcccchhhhhcccCHHHHHHHHHHHHHHcCCCEEEECCHHHHHHhc--------CCHHHHHHHHHHH
Confidence            42      22211            1133444444444555789999999999887521        1222344445555


Q ss_pred             HHHHHHHHhccCcEEEEEcccchHh
Q 024705          236 LRKIHYSLCQSHTLIIFLNQVKVLL  260 (264)
Q Consensus       236 L~~l~~~l~~~g~tVi~i~h~~~~~  260 (264)
                      ++.+    ++.|+|||+++|..+.+
T Consensus       168 l~~l----~~~g~tvl~itH~~~~~  188 (525)
T 1tf7_A          168 VARL----KQIGATTVMTTERIEEY  188 (525)
T ss_dssp             HHHH----HHHTCEEEEEEECSSSS
T ss_pred             HHHH----HHCCCEEEEEecCCCCc
Confidence            5555    55799999999998764

>2vhj_A Ntpase P4, P4; non- hydrolysable ATP analogue, hydrolase, virus dsRNA, molecular motor, packaging ATPase, hexameric helicase; HET: ADP; 1.80A {Pseudomonas phage PHI12} PDB: 2vhq_A* 1w44_A* 1w46_A* 1w47_A* 1w48_A* 1w49_A* 1w4a_A* 1w4b_A* 1w4c_A 2vht_A* 2vhu_A* 2vhc_A*

Probab=99.55  E-value=2.5e-15  Score=131.80  Aligned_cols=130  Identities=21%  Similarity=0.138  Sum_probs=92.8

Q ss_pred             CccccCcHHHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEec--CCCCCHHHHHHcCCCcccee
Q 024705           99 PVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDV--ENALDPSLAEAMGIDAENLL  176 (264)
Q Consensus        99 ~~i~tG~~~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~--e~~~~~~~~~~~g~~~~~l~  176 (264)
                      ..++||+++||.++  ||+++|.+++|+||||+|||+|+.+++.+   .|++++|++.  ++...          .    
T Consensus       104 ~~i~TGi~~LD~lL--GGi~~gsviLI~GpPGsGKTtLAlqlA~~---~G~~VlyIs~~~eE~v~----------~----  164 (331)
T 2vhj_A          104 GELVGCSPVVAEFG--GHRYASGMVIVTGKGNSGKTPLVHALGEA---LGGKDKYATVRFGEPLS----------G----  164 (331)
T ss_dssp             TTCCSBCCEEEEET--TEEEESEEEEEECSCSSSHHHHHHHHHHH---HHTTSCCEEEEBSCSST----------T----
T ss_pred             hccccCcHHHHHHh--CCCCCCcEEEEEcCCCCCHHHHHHHHHHh---CCCCEEEEEecchhhhh----------h----
Confidence            45789999999999  59999999999999999999999999886   5778999998  33211          0    


Q ss_pred             EeCCCCHHHHHHHHHHHhhcCCccEEEEcCccccccccccCCCcCCCCcHHHHHHHHHHHHHHHHHHhccCcEEEEEccc
Q 024705          177 IAQPDSAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQV  256 (264)
Q Consensus       177 ~~~~~~~ee~~~~i~~~~~~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r~i~~~L~~l~~~l~~~g~tVi~i~h~  256 (264)
                       .. ...++.+..+...+...+  ++|||++..+.....-..     ..+.+.+.+.+.+.+|...+++.|+++|++++.
T Consensus       165 -~~-~~le~~l~~i~~~l~~~~--LLVIDsI~aL~~~~~~~s-----~~G~v~~~lrqlL~~L~~~~k~~gvtVIlttnp  235 (331)
T 2vhj_A          165 -YN-TDFNVFVDDIARAMLQHR--VIVIDSLKNVIGAAGGNT-----TSGGISRGAFDLLSDIGAMAASRGCVVIASLNP  235 (331)
T ss_dssp             -CB-CCHHHHHHHHHHHHHHCS--EEEEECCTTTC----------------CCHHHHHHHHHHHHHHHHHTCEEEEECCC
T ss_pred             -hh-cCHHHHHHHHHHHHhhCC--EEEEeccccccccccccc-----ccchHHHHHHHHHHHHHHHHhhCCCEEEEEeCC
Confidence             01 456777666655555444  999999999874221111     112233456677888888889999999998774

>3tui_C Methionine import ATP-binding protein METN; ABC-transporter, type I ABC type importer, methionine uptake transporter, membrane protein; HET: ADP; 2.90A {Escherichia coli} PDB: 3tuj_C 3tuz_C* 3dhw_C

Probab=99.28  E-value=8e-12  Score=111.77  Aligned_cols=133  Identities=15%  Similarity=0.188  Sum_probs=81.8

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCC-CH-H---HHHHcCCCccceeEeCCCCHHHHHHHH
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENAL-DP-S---LAEAMGIDAENLLIAQPDSAENLLSVV  190 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~-~~-~---~~~~~g~~~~~l~~~~~~~~ee~~~~i  190 (264)
                      -+++|+++.|.||||||||||+..++....+..|.+.+...+... .. .   ..+.+|+.+|+..+....++.+.+...
T Consensus        50 ~i~~Gei~~IiGpnGaGKSTLlr~i~GL~~p~~G~I~i~G~~i~~~~~~~~~~~r~~Ig~v~Q~~~l~~~~TV~env~~~  129 (366)
T 3tui_C           50 HVPAGQIYGVIGASGAGKSTLIRCVNLLERPTEGSVLVDGQELTTLSESELTKARRQIGMIFQHFNLLSSRTVFGNVALP  129 (366)
T ss_dssp             EECTTCEEEEECCTTSSHHHHHHHHHTSSCCSEEEEEETTEECSSCCHHHHHHHHTTEEEECSSCCCCTTSCHHHHHHHH
T ss_pred             EEcCCCEEEEEcCCCchHHHHHHHHhcCCCCCceEEEECCEECCcCCHHHHHHHhCcEEEEeCCCccCCCCCHHHHHHHH
Confidence            478999999999999999998887776554445555443333221 11 1   235688888877666655655443221


Q ss_pred             H---------------HHh-----------------------------hcCCccEEEEcCccccccccccCCCcCCCCcH
Q 024705          191 D---------------TLT-----------------------------KSGSIDVIVVDSVAALIPKCEIGVPINGMYSD  226 (264)
Q Consensus       191 ~---------------~~~-----------------------------~~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~  226 (264)
                      .               .++                             -..+|+++++|..++-+             +.
T Consensus       130 ~~~~~~~~~~~~~~v~~lL~~vgL~~~~~~~~~~LSGGqkQRVaIArAL~~~P~lLLlDEPTs~L-------------D~  196 (366)
T 3tui_C          130 LELDNTPKDEVKRRVTELLSLVGLGDKHDSYPSNLSGGQKQRVAIARALASNPKVLLCDQATSAL-------------DP  196 (366)
T ss_dssp             HHHSCCCHHHHHHHHHHHHHHHTCGGGTTCCTTTSCHHHHHHHHHHHHTTTCCSEEEEESTTTTS-------------CH
T ss_pred             HHhcCCCHHHHHHHHHHHHHHcCCchHhcCChhhCCHHHHHHHHHHHHHhcCCCEEEEECCCccC-------------CH
Confidence            1               110                             01345566666544433             22


Q ss_pred             HHHHHHHHHHHHHHHHHhccCcEEEEEcccchHhhhcC
Q 024705          227 AQSRIMTQALRKIHYSLCQSHTLIIFLNQVKVLLLKHF  264 (264)
Q Consensus       227 ~q~r~i~~~L~~l~~~l~~~g~tVi~i~h~~~~~~~~~  264 (264)
                      ..++.+.+.|+++.   ++.|+|||+++|..+.+...|
T Consensus       197 ~~~~~i~~lL~~l~---~~~g~Tii~vTHdl~~~~~~a  231 (366)
T 3tui_C          197 ATTRSILELLKDIN---RRLGLTILLITHEMDVVKRIC  231 (366)
T ss_dssp             HHHHHHHHHHHHHH---HHSCCEEEEEESCHHHHHHHC
T ss_pred             HHHHHHHHHHHHHH---HhCCCEEEEEecCHHHHHHhC
Confidence            33444555666665   677999999999998876544

>3rlf_A Maltose/maltodextrin import ATP-binding protein M; integral membrane protein, ATPase, ABC transporter, membrane transmembrane; HET: UMQ MAL PGV ANP; 2.20A {Escherichia coli} PDB: 1q1e_A 1q12_A* 2awo_A* 3fh6_A 3puv_A* 3puw_A* 3pux_A* 3puy_A* 3puz_A* 3pv0_A* 2awn_A* 2r6g_A* 1q1b_A

Probab=99.27  E-value=7e-12  Score=112.77  Aligned_cols=129  Identities=16%  Similarity=0.211  Sum_probs=78.1

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCC-CCHHHHHHcCCCccceeEeCCCCHHHHHHHH----
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENA-LDPSLAEAMGIDAENLLIAQPDSAENLLSVV----  190 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~-~~~~~~~~~g~~~~~l~~~~~~~~ee~~~~i----  190 (264)
                      -+++|+++.|.||||||||||+..++....+..+.+ +++.... ......+.+|+.+|+..+++..++.+.+...    
T Consensus        25 ~i~~Ge~~~llGpsGsGKSTLLr~iaGl~~p~~G~I-~i~G~~~~~~~~~~r~ig~VfQ~~~l~p~ltV~eni~~~~~~~  103 (381)
T 3rlf_A           25 DIHEGEFVVFVGPSGCGKSTLLRMIAGLETITSGDL-FIGEKRMNDTPPAERGVGMVFQSYALYPHLSVAENMSFGLKLA  103 (381)
T ss_dssp             EECTTCEEEEECCTTSSHHHHHHHHHTSSCCSEEEE-EETTEECTTCCGGGSCEEEECTTCCCCTTSCHHHHHTHHHHHT
T ss_pred             EECCCCEEEEEcCCCchHHHHHHHHHcCCCCCCeEE-EECCEECCCCCHHHCCEEEEecCCcCCCCCCHHHHHHHHHHHc
Confidence            378999999999999999998888877655444444 4443322 1112234577777776665555554433221    


Q ss_pred             ------------------------------------------HHHhhcCCccEEEEcCccccccccccCCCcCCCCcHHH
Q 024705          191 ------------------------------------------DTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQ  228 (264)
Q Consensus       191 ------------------------------------------~~~~~~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q  228 (264)
                                                                +.++  .+|+++++|...+-+             +...
T Consensus       104 ~~~~~~~~~~v~~~l~~~~L~~~~~r~p~~LSGGqrQRVaiArAL~--~~P~lLLLDEPts~L-------------D~~~  168 (381)
T 3rlf_A          104 GAKKEVINQRVNQVAEVLQLAHLLDRKPKALSGGQRQRVAIGRTLV--AEPSVFLLDEPLSNL-------------DAAL  168 (381)
T ss_dssp             TCCHHHHHHHHHHHHHHTTCGGGTTCCGGGSCHHHHHHHHHHHHHH--HCCSEEEEESTTTTS-------------CHHH
T ss_pred             CCCHHHHHHHHHHHHHHcCCchhhcCChhHCCHHHHHHHHHHHHHH--cCCCEEEEECCCcCC-------------CHHH
Confidence                                                      1111  234555555444333             2233


Q ss_pred             HHHHHHHHHHHHHHHhccCcEEEEEcccchHhhhc
Q 024705          229 SRIMTQALRKIHYSLCQSHTLIIFLNQVKVLLLKH  263 (264)
Q Consensus       229 ~r~i~~~L~~l~~~l~~~g~tVi~i~h~~~~~~~~  263 (264)
                      +..+...|+++.   ++.|+|+|+++|..+.+...
T Consensus       169 ~~~l~~~l~~l~---~~~g~tii~vTHd~~ea~~~  200 (381)
T 3rlf_A          169 RVQMRIEISRLH---KRLGRTMIYVTHDQVEAMTL  200 (381)
T ss_dssp             HHHHHHHHHHHH---HHHCCEEEEECSCHHHHHHH
T ss_pred             HHHHHHHHHHHH---HhCCCEEEEEECCHHHHHHh
Confidence            334455556554   67799999999998877654

>4g1u_C Hemin import ATP-binding protein HMUV; membrane transporter, type II ABC importer, HMUT, plasma MEM transport protein-hydrolase complex; 3.01A {Yersinia pestis}

Probab=99.27  E-value=1.4e-11  Score=106.00  Aligned_cols=132  Identities=17%  Similarity=0.169  Sum_probs=80.4

Q ss_pred             CCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCC-C-HHHHHHcCCCccceeEeCCCCHHHH--------
Q 024705          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENAL-D-PSLAEAMGIDAENLLIAQPDSAENL--------  186 (264)
Q Consensus       117 l~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~-~-~~~~~~~g~~~~~l~~~~~~~~ee~--------  186 (264)
                      +++|+++.|.||||||||||+..++....+..|.+.+...+... . ..+.+.+|+.+++..+....++.+.        
T Consensus        34 i~~Ge~~~liG~nGsGKSTLl~~l~Gl~~p~~G~I~~~g~~~~~~~~~~~~~~i~~v~q~~~~~~~~tv~e~l~~~~~~~  113 (266)
T 4g1u_C           34 IASGEMVAIIGPNGAGKSTLLRLLTGYLSPSHGECHLLGQNLNSWQPKALARTRAVMRQYSELAFPFSVSEVIQMGRAPY  113 (266)
T ss_dssp             EETTCEEEEECCTTSCHHHHHHHHTSSSCCSSCEEEETTEETTTSCHHHHHHHEEEECSCCCCCSCCBHHHHHHGGGTTS
T ss_pred             EcCCCEEEEECCCCCcHHHHHHHHhcCCCCCCcEEEECCEECCcCCHHHHhheEEEEecCCccCCCCCHHHHHHhhhhhc
Confidence            78999999999999999999888887665555655543332221 1 1344556655554322222222211        


Q ss_pred             ------------------------------------HHHHHHHhh----cCCccEEEEcCccccccccccCCCcCCCCcH
Q 024705          187 ------------------------------------LSVVDTLTK----SGSIDVIVVDSVAALIPKCEIGVPINGMYSD  226 (264)
Q Consensus       187 ------------------------------------~~~i~~~~~----~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~  226 (264)
                                                          +.+.+.++.    ..+|+++++|..++-.             +.
T Consensus       114 ~~~~~~~~~~~~l~~~~l~~~~~~~~~~LSgGq~QRv~iAraL~~~~~~~~~p~lLllDEPts~L-------------D~  180 (266)
T 4g1u_C          114 GGSQDRQALQQVMAQTDCLALAQRDYRVLSGGEQQRVQLARVLAQLWQPQPTPRWLFLDEPTSAL-------------DL  180 (266)
T ss_dssp             CSTTHHHHHHHHHHHTTCSTTTTSBGGGCCHHHHHHHHHHHHHHHTCCSSCCCEEEEECCCCSSC-------------CH
T ss_pred             CcHHHHHHHHHHHHHcCChhHhcCCcccCCHHHHHHHHHHHHHhcccccCCCCCEEEEeCccccC-------------CH
Confidence                                                112222221    0178888888766554             22


Q ss_pred             HHHHHHHHHHHHHHHHHhccCcEEEEEcccchHhhhcC
Q 024705          227 AQSRIMTQALRKIHYSLCQSHTLIIFLNQVKVLLLKHF  264 (264)
Q Consensus       227 ~q~r~i~~~L~~l~~~l~~~g~tVi~i~h~~~~~~~~~  264 (264)
                      ..++.+.+.++++.   ++.++|||+++|..+.+...|
T Consensus       181 ~~~~~i~~~l~~l~---~~~~~tvi~vtHdl~~~~~~~  215 (266)
T 4g1u_C          181 YHQQHTLRLLRQLT---RQEPLAVCCVLHDLNLAALYA  215 (266)
T ss_dssp             HHHHHHHHHHHHHH---HHSSEEEEEECSCHHHHHHHC
T ss_pred             HHHHHHHHHHHHHH---HcCCCEEEEEEcCHHHHHHhC
Confidence            44455666666665   566789999999998876543

>3fvq_A Fe(3+) IONS import ATP-binding protein FBPC; nucleotide binding domain, ABC motor domain, ferric iron TRA ATP-binding, cell inner membrane; HET: ATP; 1.90A {Neisseria gonorrhoeae}

Probab=99.25  E-value=8.1e-12  Score=111.59  Aligned_cols=129  Identities=16%  Similarity=0.152  Sum_probs=76.6

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCC-----CCCHHHHHHcCCCccceeEeCCCCHHHHHHH-
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVEN-----ALDPSLAEAMGIDAENLLIAQPDSAENLLSV-  189 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~-----~~~~~~~~~~g~~~~~l~~~~~~~~ee~~~~-  189 (264)
                      -+++|+++.|.||||||||||+..++....+..+.+ +++...     .......+.+|+.+|+..++...++.+.+.. 
T Consensus        26 ~i~~Ge~~~llGpsGsGKSTLLr~iaGl~~p~~G~I-~i~G~~i~~~~~~~~~~~r~ig~vfQ~~~l~p~ltV~eni~~~  104 (359)
T 3fvq_A           26 SLDPGEILFIIGASGCGKTTLLRCLAGFEQPDSGEI-SLSGKTIFSKNTNLPVRERRLGYLVQEGVLFPHLTVYRNIAYG  104 (359)
T ss_dssp             EECTTCEEEEEESTTSSHHHHHHHHHTSSCCSEEEE-EETTEEEESSSCBCCGGGSCCEEECTTCCCCTTSCHHHHHHTT
T ss_pred             EEcCCCEEEEECCCCchHHHHHHHHhcCCCCCCcEE-EECCEECcccccccchhhCCEEEEeCCCcCCCCCCHHHHHHHH
Confidence            478999999999999999998888877655544544 443221     1111233457777776555444444333211 


Q ss_pred             ---------------------------------------------HHHHhhcCCccEEEEcCccccccccccCCCcCCCC
Q 024705          190 ---------------------------------------------VDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMY  224 (264)
Q Consensus       190 ---------------------------------------------i~~~~~~~~~~~vvIDsl~~~~~~~~~~~~~~~~~  224 (264)
                                                                   .+.+  -.+|+++++|...+-..            
T Consensus       105 l~~~~~~~~~~~~~v~~~l~~~gL~~~~~r~~~~LSGGq~QRValArAL--~~~P~lLLLDEPts~LD------------  170 (359)
T 3fvq_A          105 LGNGKGRTAQERQRIEAMLELTGISELAGRYPHELSGGQQQRAALARAL--APDPELILLDEPFSALD------------  170 (359)
T ss_dssp             STTSSCCSHHHHHHHHHHHHHHTCGGGTTSCGGGSCHHHHHHHHHHHHH--TTCCSEEEEESTTTTSC------------
T ss_pred             HHHcCCChHHHHHHHHHHHHHcCCchHhcCChhhCCHHHHHHHHHHHHH--HcCCCEEEEeCCcccCC------------
Confidence                                                         1111  13566666665544331            


Q ss_pred             cHHHHHHHHHHHHHHHHHHhccCcEEEEEcccchHhhhc
Q 024705          225 SDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVKVLLLKH  263 (264)
Q Consensus       225 ~~~q~r~i~~~L~~l~~~l~~~g~tVi~i~h~~~~~~~~  263 (264)
                       ...+..+...+.++.   ++.|+|+|+++|..+.+...
T Consensus       171 -~~~r~~l~~~l~~~~---~~~g~tvi~vTHd~~ea~~~  205 (359)
T 3fvq_A          171 -EQLRRQIREDMIAAL---RANGKSAVFVSHDREEALQY  205 (359)
T ss_dssp             -HHHHHHHHHHHHHHH---HHTTCEEEEECCCHHHHHHH
T ss_pred             -HHHHHHHHHHHHHHH---HhCCCEEEEEeCCHHHHHHH
Confidence             122333333444444   77899999999998877654

>1vpl_A ABC transporter, ATP-binding protein; TM0544, structural GENO joint center for structural genomics, JCSG, protein structu initiative, PSI; 2.10A {Thermotoga maritima} SCOP: c.37.1.12

Probab=99.21  E-value=3.1e-11  Score=103.26  Aligned_cols=72  Identities=15%  Similarity=0.171  Sum_probs=45.6

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCH-HHHHHcCCCccceeEeCCCCHHHHH
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP-SLAEAMGIDAENLLIAQPDSAENLL  187 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~-~~~~~~g~~~~~l~~~~~~~~ee~~  187 (264)
                      -+++|+++.|.||||||||||+..++....+..+.+.+...+..... .+.+.+|+.+++..+....++.+.+
T Consensus        37 ~i~~Gei~~l~G~NGsGKSTLlk~l~Gl~~p~~G~I~~~g~~~~~~~~~~~~~i~~v~q~~~l~~~ltv~enl  109 (256)
T 1vpl_A           37 EIEEGEIFGLIGPNGAGKTTTLRIISTLIKPSSGIVTVFGKNVVEEPHEVRKLISYLPEEAGAYRNMQGIEYL  109 (256)
T ss_dssp             EECTTCEEEEECCTTSSHHHHHHHHTTSSCCSEEEEEETTEETTTCHHHHHTTEEEECTTCCCCTTSBHHHHH
T ss_pred             EEcCCcEEEEECCCCCCHHHHHHHHhcCCCCCceEEEECCEECCccHHHHhhcEEEEcCCCCCCCCCcHHHHH
Confidence            37899999999999999999988887655444455544322222122 3345577777765544444544433

>3tif_A Uncharacterized ABC transporter ATP-binding prote; nucleotide-binding domain, ABC transporter ATPase; HET: ADP; 1.80A {Methanocaldococcus jannaschii dsm 2661ORGANISM_TAXID} PDB: 1l2t_A* 1f3o_A*

Probab=99.21  E-value=3.8e-11  Score=101.39  Aligned_cols=72  Identities=17%  Similarity=0.166  Sum_probs=46.1

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCC-CH-H----HHHHcCCCccceeEeCCCCHHHHH
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENAL-DP-S----LAEAMGIDAENLLIAQPDSAENLL  187 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~-~~-~----~~~~~g~~~~~l~~~~~~~~ee~~  187 (264)
                      -+++|+++.|.||||||||||+..++....+..|.+.+...+... .. .    +.+.+|+.+|+..++...++.+.+
T Consensus        27 ~i~~Ge~~~iiG~nGsGKSTLl~~l~Gl~~p~~G~I~~~g~~~~~~~~~~~~~~~~~~i~~v~Q~~~l~~~~tv~enl  104 (235)
T 3tif_A           27 NIKEGEFVSIMGPSGSGKSTMLNIIGCLDKPTEGEVYIDNIKTNDLDDDELTKIRRDKIGFVFQQFNLIPLLTALENV  104 (235)
T ss_dssp             EECTTCEEEEECSTTSSHHHHHHHHTTSSCCSEEEEEETTEECTTCCHHHHHHHHHHHEEEECTTCCCCTTSCHHHHH
T ss_pred             EEcCCCEEEEECCCCCcHHHHHHHHhcCCCCCceEEEECCEEcccCCHHHHHHHhhccEEEEecCCccCCCCcHHHHH
Confidence            378999999999999999998888776555544544443322211 11 1    234588888776655554554443

>1z47_A CYSA, putative ABC-transporter ATP-binding protein; alpha/beta motif, beta sandwich, ligand binding protein; 1.90A {Alicyclobacillus acidocaldarius}

Probab=99.20  E-value=1.9e-11  Score=109.12  Aligned_cols=71  Identities=18%  Similarity=0.244  Sum_probs=45.5

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCC-CCCHHHHHHcCCCccceeEeCCCCHHHHH
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVEN-ALDPSLAEAMGIDAENLLIAQPDSAENLL  187 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~-~~~~~~~~~~g~~~~~l~~~~~~~~ee~~  187 (264)
                      -+++|+++.|.||||||||||+..++....+..+.+ +++... .......+.+|+.+|+..++...++.+.+
T Consensus        37 ~i~~Ge~~~llGpnGsGKSTLLr~iaGl~~p~~G~I-~i~g~~i~~~~~~~r~ig~v~Q~~~l~~~ltv~eni  108 (355)
T 1z47_A           37 QIREGEMVGLLGPSGSGKTTILRLIAGLERPTKGDV-WIGGKRVTDLPPQKRNVGLVFQNYALFQHMTVYDNV  108 (355)
T ss_dssp             EEETTCEEEEECSTTSSHHHHHHHHHTSSCCSEEEE-EETTEECTTCCGGGSSEEEECGGGCCCTTSCHHHHH
T ss_pred             EECCCCEEEEECCCCCcHHHHHHHHhCCCCCCccEE-EECCEECCcCChhhCcEEEEecCcccCCCCCHHHHH
Confidence            377999999999999999998888776554444444 443322 11112234577777766555555555444

>2yyz_A Sugar ABC transporter, ATP-binding protein; sugar transport, alpha and beta proteins (A/B) TM0421, structural genomics, NPPSFA; 2.11A {Thermotoga maritima}

Probab=99.20  E-value=2.5e-11  Score=108.59  Aligned_cols=70  Identities=20%  Similarity=0.189  Sum_probs=43.8

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCC-CCHHHHHHcCCCccceeEeCCCCHHHH
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENA-LDPSLAEAMGIDAENLLIAQPDSAENL  186 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~-~~~~~~~~~g~~~~~l~~~~~~~~ee~  186 (264)
                      -+++|+++.|.||||||||||+..++....+..+.+ +++.... ......+.+|+.+|+..++...++.+.
T Consensus        25 ~i~~Ge~~~llGpnGsGKSTLLr~iaGl~~p~~G~I-~i~g~~i~~~~~~~r~ig~v~Q~~~l~~~ltv~en   95 (359)
T 2yyz_A           25 EVKDGEFVALLGPSGCGKTTTLLMLAGIYKPTSGEI-YFDDVLVNDIPPKYREVGMVFQNYALYPHMTVFEN   95 (359)
T ss_dssp             EECTTCEEEEECSTTSSHHHHHHHHHTSSCCSEEEE-EETTEECTTSCGGGTTEEEECSSCCCCTTSCHHHH
T ss_pred             EEcCCCEEEEEcCCCchHHHHHHHHHCCCCCCccEE-EECCEECCCCChhhCcEEEEecCcccCCCCCHHHH
Confidence            378999999999999999998888776554444444 4433221 111123457777666555444444443

>3gfo_A Cobalt import ATP-binding protein CBIO 1; structural genomics, cell membrane, cobalt transport, hydrolase, ION transport; 2.30A {Clostridium perfringens atcc 13124}

Probab=99.20  E-value=2.6e-11  Score=104.80  Aligned_cols=131  Identities=18%  Similarity=0.168  Sum_probs=76.9

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCC-CCH----HHHHHcCCCccce--eEeCCCCHHHHHH
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENA-LDP----SLAEAMGIDAENL--LIAQPDSAENLLS  188 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~-~~~----~~~~~~g~~~~~l--~~~~~~~~ee~~~  188 (264)
                      -+++|+++.|.||||||||||+..++....+..|.+ +++.... ...    .+.+.+|+.+|+.  .+. ..++.+.+.
T Consensus        30 ~i~~Ge~~~iiGpnGsGKSTLl~~l~Gl~~p~~G~I-~~~G~~i~~~~~~~~~~~~~ig~v~Q~~~~~~~-~~tv~e~l~  107 (275)
T 3gfo_A           30 NIKRGEVTAILGGNGVGKSTLFQNFNGILKPSSGRI-LFDNKPIDYSRKGIMKLRESIGIVFQDPDNQLF-SASVYQDVS  107 (275)
T ss_dssp             EEETTSEEEEECCTTSSHHHHHHHHTTSSCCSEEEE-EETTEECCCSHHHHHHHHHSEEEECSSGGGTCC-SSBHHHHHH
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHHcCCCCCCeEE-EECCEECCcccccHHHHhCcEEEEEcCcccccc-cCcHHHHHH
Confidence            378999999999999999998888877554444544 4443322 121    2345678777653  122 223322221


Q ss_pred             H---------------HHHHh-----------------------------hcCCccEEEEcCccccccccccCCCcCCCC
Q 024705          189 V---------------VDTLT-----------------------------KSGSIDVIVVDSVAALIPKCEIGVPINGMY  224 (264)
Q Consensus       189 ~---------------i~~~~-----------------------------~~~~~~~vvIDsl~~~~~~~~~~~~~~~~~  224 (264)
                      .               +..++                             -..+|+++++|..++-.             
T Consensus       108 ~~~~~~~~~~~~~~~~~~~~l~~~~L~~~~~~~~~~LSgGqkQRv~iAraL~~~P~lLlLDEPts~L-------------  174 (275)
T 3gfo_A          108 FGAVNMKLPEDEIRKRVDNALKRTGIEHLKDKPTHCLSFGQKKRVAIAGVLVMEPKVLILDEPTAGL-------------  174 (275)
T ss_dssp             HHHHTSCCCHHHHHHHHHHHHHHTTCGGGTTSBGGGSCHHHHHHHHHHHHHTTCCSEEEEECTTTTC-------------
T ss_pred             HHHHHcCCCHHHHHHHHHHHHHHcCCchhhcCCcccCCHHHHHHHHHHHHHHcCCCEEEEECccccC-------------
Confidence            1               11110                             01456677777655443             


Q ss_pred             cHHHHHHHHHHHHHHHHHHhccCcEEEEEcccchHhhhcC
Q 024705          225 SDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVKVLLLKHF  264 (264)
Q Consensus       225 ~~~q~r~i~~~L~~l~~~l~~~g~tVi~i~h~~~~~~~~~  264 (264)
                      +...++.+.+.++++.   ++.|+|||+++|..+.+...|
T Consensus       175 D~~~~~~i~~~l~~l~---~~~g~tvi~vtHdl~~~~~~~  211 (275)
T 3gfo_A          175 DPMGVSEIMKLLVEMQ---KELGITIIIATHDIDIVPLYC  211 (275)
T ss_dssp             CHHHHHHHHHHHHHHH---HHHCCEEEEEESCCSSGGGGC
T ss_pred             CHHHHHHHHHHHHHHH---hhCCCEEEEEecCHHHHHHhC
Confidence            2233444555566553   355999999999988776543

>2it1_A 362AA long hypothetical maltose/maltodextrin transport ATP-binding protein; structural genomics, NPPSFA; 1.94A {Pyrococcus horikoshii}

Probab=99.20  E-value=2.8e-11  Score=108.39  Aligned_cols=71  Identities=18%  Similarity=0.280  Sum_probs=46.1

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCC-CCCHHHHHHcCCCccceeEeCCCCHHHHH
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVEN-ALDPSLAEAMGIDAENLLIAQPDSAENLL  187 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~-~~~~~~~~~~g~~~~~l~~~~~~~~ee~~  187 (264)
                      -+++|+++.|.||||||||||+..++....+..+.+ +++... .......+.+|+.+|+..++...++.+.+
T Consensus        25 ~i~~Ge~~~llGpnGsGKSTLLr~iaGl~~p~~G~I-~i~g~~i~~~~~~~r~ig~v~Q~~~l~~~ltv~eni   96 (362)
T 2it1_A           25 KIKDGEFMALLGPSGSGKSTLLYTIAGIYKPTSGKI-YFDEKDVTELPPKDRNVGLVFQNWALYPHMTVYKNI   96 (362)
T ss_dssp             EECTTCEEEEECCTTSSHHHHHHHHHTSSCCSEEEE-EETTEECTTSCGGGTTEEEECTTCCCCTTSCHHHHH
T ss_pred             EECCCCEEEEECCCCchHHHHHHHHhcCCCCCceEE-EECCEECCcCCHhHCcEEEEecCcccCCCCCHHHHH
Confidence            378999999999999999998888877654444544 443322 11112234577777776655555655544

>2olj_A Amino acid ABC transporter; ABC domain, ATPase, hydrolase; HET: ADP; 2.05A {Geobacillus stearothermophilus} PDB: 2olk_A* 2ouk_A 2q0h_A* 3c4j_A* 3c41_J*

Probab=99.20  E-value=4.3e-11  Score=102.74  Aligned_cols=72  Identities=15%  Similarity=0.142  Sum_probs=46.8

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCC---CC-HHHHHHcCCCccceeEeCCCCHHHHH
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENA---LD-PSLAEAMGIDAENLLIAQPDSAENLL  187 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~---~~-~~~~~~~g~~~~~l~~~~~~~~ee~~  187 (264)
                      -+++|+++.|.||||||||||+..++....+..+.+.+...+..   .. ..+.+.+|+.+++..++...++.+.+
T Consensus        46 ~i~~Gei~~liG~NGsGKSTLlk~l~Gl~~p~~G~I~~~g~~i~~~~~~~~~~~~~i~~v~Q~~~l~~~~tv~e~l  121 (263)
T 2olj_A           46 HIREGEVVVVIGPSGSGKSTFLRCLNLLEDFDEGEIIIDGINLKAKDTNLNKVREEVGMVFQRFNLFPHMTVLNNI  121 (263)
T ss_dssp             EECTTCEEEEECCTTSSHHHHHHHHTTSSCCSEEEEEETTEESSSTTCCHHHHHHHEEEECSSCCCCTTSCHHHHH
T ss_pred             EEcCCCEEEEEcCCCCcHHHHHHHHHcCCCCCCcEEEECCEECCCccccHHHHhCcEEEEeCCCcCCCCCCHHHHH
Confidence            37899999999999999999888877655444455544322221   11 13355688887776555554555444

>3d31_A Sulfate/molybdate ABC transporter, ATP-binding protein; ATP-binding, nucleotide-binding, membrane, transmembrane, transport protein; 3.00A {Methanosarcina acetivorans} SCOP: b.40.6.3 c.37.1.12

Probab=99.19  E-value=7.6e-12  Score=111.49  Aligned_cols=73  Identities=15%  Similarity=0.091  Sum_probs=51.0

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCC-CCCHHHHHHcCCCccceeEeCCCCHHHHHHH
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVEN-ALDPSLAEAMGIDAENLLIAQPDSAENLLSV  189 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~-~~~~~~~~~~g~~~~~l~~~~~~~~ee~~~~  189 (264)
                      -+++|+++.|.||||||||||+..++....+..+.+ +++... .......+.+|+.+|+..++...++.+.+..
T Consensus        22 ~i~~Ge~~~llGpnGsGKSTLLr~iaGl~~p~~G~I-~~~g~~i~~~~~~~r~ig~v~Q~~~l~~~ltv~enl~~   95 (348)
T 3d31_A           22 KVESGEYFVILGPTGAGKTLFLELIAGFHVPDSGRI-LLDGKDVTDLSPEKHDIAFVYQNYSLFPHMNVKKNLEF   95 (348)
T ss_dssp             EECTTCEEEEECCCTHHHHHHHHHHHTSSCCSEEEE-EETTEECTTSCHHHHTCEEECTTCCCCTTSCHHHHHHH
T ss_pred             EEcCCCEEEEECCCCccHHHHHHHHHcCCCCCCcEE-EECCEECCCCchhhCcEEEEecCcccCCCCCHHHHHHH
Confidence            378999999999999999998888876554444554 444322 2122345668888888777776677766544

>2pcj_A ABC transporter, lipoprotein-releasing system ATP-binding protein; structural genomics; 1.70A {Aquifex aeolicus} PDB: 2pcl_A

Probab=99.19  E-value=5.1e-11  Score=99.89  Aligned_cols=72  Identities=19%  Similarity=0.143  Sum_probs=46.2

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCC-CH-H----HHHHcCCCccceeEeCCCCHHHHH
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENAL-DP-S----LAEAMGIDAENLLIAQPDSAENLL  187 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~-~~-~----~~~~~g~~~~~l~~~~~~~~ee~~  187 (264)
                      -+++|+++.|.||||||||||+..++....+..+.+.+...+... .. .    +.+.+|+.+++..++...++.+.+
T Consensus        26 ~i~~Ge~~~iiG~nGsGKSTLl~~l~Gl~~p~~G~i~~~g~~~~~~~~~~~~~~~~~~i~~v~q~~~l~~~~tv~e~l  103 (224)
T 2pcj_A           26 SVKKGEFVSIIGASGSGKSTLLYILGLLDAPTEGKVFLEGKEVDYTNEKELSLLRNRKLGFVFQFHYLIPELTALENV  103 (224)
T ss_dssp             EEETTCEEEEEECTTSCHHHHHHHHTTSSCCSEEEEEETTEECCSSCHHHHHHHHHHHEEEECSSCCCCTTSCHHHHH
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhcCCCCCceEEEECCEECCCCCHHHHHHHHhCcEEEEecCcccCCCCCHHHHH
Confidence            377999999999999999998888776554444544443222211 11 1    235688888876555555555444

>1v43_A Sugar-binding transport ATP-binding protein; ATPase, active transport, sugar uptake and regulation, transport protein; 2.20A {Pyrococcus horikoshii} SCOP: b.40.6.3 b.40.6.3 c.37.1.12 PDB: 1vci_A*

Probab=99.19  E-value=3.3e-11  Score=108.28  Aligned_cols=131  Identities=13%  Similarity=0.170  Sum_probs=73.9

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCC-CCHHHHHHcCCCccceeEeCCCCHHHHHH------
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENA-LDPSLAEAMGIDAENLLIAQPDSAENLLS------  188 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~-~~~~~~~~~g~~~~~l~~~~~~~~ee~~~------  188 (264)
                      -+++|+++.|.||||||||||+..++....+..+.+ +++.... ......+.+|+.+|+..++...++.+.+.      
T Consensus        33 ~i~~Ge~~~llGpnGsGKSTLLr~iaGl~~p~~G~I-~i~g~~i~~~~~~~r~ig~v~Q~~~l~~~ltv~eni~~~~~~~  111 (372)
T 1v43_A           33 TIKDGEFLVLLGPSGCGKTTTLRMIAGLEEPTEGRI-YFGDRDVTYLPPKDRNISMVFQSYAVWPHMTVYENIAFPLKIK  111 (372)
T ss_dssp             EECTTCEEEEECCTTSSHHHHHHHHHTSSCCSEEEE-EETTEECTTSCGGGGTEEEEEC------CCCHHHHHHTTCC--
T ss_pred             EECCCCEEEEECCCCChHHHHHHHHHcCCCCCceEE-EECCEECCCCChhhCcEEEEecCcccCCCCCHHHHHHHHHHhc
Confidence            378999999999999999998888776554444444 4443221 11112345677666654444333333221      


Q ss_pred             ---------HHHHHhh-----------------------------cCCccEEEEcCccccccccccCCCcCCCCcHHHHH
Q 024705          189 ---------VVDTLTK-----------------------------SGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSR  230 (264)
Q Consensus       189 ---------~i~~~~~-----------------------------~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r  230 (264)
                               .+..+++                             -.+|+++++|...+-+             +....+
T Consensus       112 ~~~~~~~~~~v~~~l~~~~L~~~~~r~~~~LSGGq~QRvalArAL~~~P~lLLLDEP~s~L-------------D~~~r~  178 (372)
T 1v43_A          112 KFPKDEIDKRVRWAAELLQIEELLNRYPAQLSGGQRQRVAVARAIVVEPDVLLMDEPLSNL-------------DAKLRV  178 (372)
T ss_dssp             CCCHHHHHHHHHHHHHHTTCGGGTTSCTTTCCSSCHHHHHHHHHHTTCCSEEEEESTTTTS-------------CHHHHH
T ss_pred             CCCHHHHHHHHHHHHHHcCChhHhcCChhhCCHHHHHHHHHHHHHhcCCCEEEEcCCCccC-------------CHHHHH
Confidence                     1111110                             1345666666554433             224444


Q ss_pred             HHHHHHHHHHHHHhccCcEEEEEcccchHhhhc
Q 024705          231 IMTQALRKIHYSLCQSHTLIIFLNQVKVLLLKH  263 (264)
Q Consensus       231 ~i~~~L~~l~~~l~~~g~tVi~i~h~~~~~~~~  263 (264)
                      .+...|+++.   ++.|+|+|+++|..+.+...
T Consensus       179 ~l~~~l~~l~---~~~g~tvi~vTHd~~~a~~~  208 (372)
T 1v43_A          179 AMRAEIKKLQ---QKLKVTTIYVTHDQVEAMTM  208 (372)
T ss_dssp             HHHHHHHHHH---HHHTCEEEEEESCHHHHHHH
T ss_pred             HHHHHHHHHH---HhCCCEEEEEeCCHHHHHHh
Confidence            4556666665   66799999999998876543

>2b8t_A Thymidine kinase; deoxyribonucleoside kinase, zinc-binding domain, TK1, UU-TK, transferase; HET: THM; 2.00A {Ureaplasma parvum} SCOP: c.37.1.24 g.39.1.14 PDB: 2uz3_A*

Probab=99.16  E-value=1.8e-10  Score=96.41  Aligned_cols=117  Identities=15%  Similarity=0.119  Sum_probs=82.5

Q ss_pred             CCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCC--HHHHHHcCCCccceeEeCCCCHHHHHHHHHHHhh
Q 024705          118 PKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALD--PSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTK  195 (264)
Q Consensus       118 ~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~--~~~~~~~g~~~~~l~~~~~~~~ee~~~~i~~~~~  195 (264)
                      .+|.+++++|++|+||||++++++..+..+|.+|+++.......  ...+.++|+....+.+   ...+++.+.+.....
T Consensus        10 ~~G~i~litG~mGsGKTT~ll~~~~r~~~~g~kVli~~~~~d~r~~~~i~srlG~~~~~~~~---~~~~~i~~~i~~~~~   86 (223)
T 2b8t_A           10 KIGWIEFITGPMFAGKTAELIRRLHRLEYADVKYLVFKPKIDTRSIRNIQSRTGTSLPSVEV---ESAPEILNYIMSNSF   86 (223)
T ss_dssp             -CCEEEEEECSTTSCHHHHHHHHHHHHHHTTCCEEEEEECCCGGGCSSCCCCCCCSSCCEEE---SSTHHHHHHHHSTTS
T ss_pred             CCcEEEEEECCCCCcHHHHHHHHHHHHHhcCCEEEEEEeccCchHHHHHHHhcCCCcccccc---CCHHHHHHHHHHHhh
Confidence            57899999999999999999999999999999999996554321  1234456666555443   234666666665555


Q ss_pred             cCCccEEEEcCccccccccccCCCcCCCCcHHHHHHHHHHHHHHHHHHhccCcEEEEEcccchH
Q 024705          196 SGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVKVL  259 (264)
Q Consensus       196 ~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r~i~~~L~~l~~~l~~~g~tVi~i~h~~~~  259 (264)
                      ..++++|+||+++.+..              .+    ...+..++    +.|++||++.|..+.
T Consensus        87 ~~~~dvViIDEaQ~l~~--------------~~----ve~l~~L~----~~gi~Vil~Gl~~df  128 (223)
T 2b8t_A           87 NDETKVIGIDEVQFFDD--------------RI----CEVANILA----ENGFVVIISGLDKNF  128 (223)
T ss_dssp             CTTCCEEEECSGGGSCT--------------HH----HHHHHHHH----HTTCEEEEECCSBCT
T ss_pred             CCCCCEEEEecCccCcH--------------HH----HHHHHHHH----hCCCeEEEEeccccc
Confidence            56799999999997542              12    23445543    349999999996653

>2onk_A Molybdate/tungstate ABC transporter, ATP-binding protein; membrane protein; 3.10A {Archaeoglobus fulgidus} SCOP: c.37.1.12

Probab=99.16  E-value=3.8e-11  Score=101.72  Aligned_cols=70  Identities=10%  Similarity=0.072  Sum_probs=43.5

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCHHHHHHcCCCccceeEeCCCCHHHH
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENL  186 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~~~~~~~g~~~~~l~~~~~~~~ee~  186 (264)
                      -+++ +++.|.||||||||||+..++....+..|.+.+...+........+.+|+.+++..++...++.+.
T Consensus        21 ~i~~-e~~~liG~nGsGKSTLl~~l~Gl~~p~~G~i~~~g~~~~~~~~~~~~i~~v~q~~~l~~~ltv~en   90 (240)
T 2onk_A           21 EMGR-DYCVLLGPTGAGKSVFLELIAGIVKPDRGEVRLNGADITPLPPERRGIGFVPQDYALFPHLSVYRN   90 (240)
T ss_dssp             EECS-SEEEEECCTTSSHHHHHHHHHTSSCCSEEEEEETTEECTTSCTTTSCCBCCCSSCCCCTTSCHHHH
T ss_pred             EECC-EEEEEECCCCCCHHHHHHHHhCCCCCCceEEEECCEECCcCchhhCcEEEEcCCCccCCCCcHHHH
Confidence            3678 999999999999999988887765444455544222211111123457777776555544454443

>1g29_1 MALK, maltose transport protein MALK; ATPase, active transport, maltose uptake and regulation, sugar binding protein; 1.90A {Thermococcus litoralis} SCOP: b.40.6.3 b.40.6.3 c.37.1.12 PDB: 2d62_A

Probab=99.14  E-value=3.4e-11  Score=108.24  Aligned_cols=71  Identities=13%  Similarity=0.142  Sum_probs=45.1

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCC-C------CHHHHHHcCCCccceeEeCCCCHHHHH
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENA-L------DPSLAEAMGIDAENLLIAQPDSAENLL  187 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~-~------~~~~~~~~g~~~~~l~~~~~~~~ee~~  187 (264)
                      -+++|+++.|.||||||||||+..++....+..+.+ +++.... .      .....+.+|+.+|+..++...++.+.+
T Consensus        25 ~i~~Ge~~~llGpnGsGKSTLLr~iaGl~~p~~G~I-~i~g~~~~~~~~~~~~~~~~r~ig~v~Q~~~l~~~ltv~eni  102 (372)
T 1g29_1           25 EVKDGEFMILLGPSGCGKTTTLRMIAGLEEPSRGQI-YIGDKLVADPEKGIFVPPKDRDIAMVFQSYALYPHMTVYDNI  102 (372)
T ss_dssp             EEETTCEEEEECSTTSSHHHHHHHHHTSSCCSEEEE-EETTEEEEEGGGTEECCGGGSSEEEECSCCCCCTTSCHHHHH
T ss_pred             EEcCCCEEEEECCCCcHHHHHHHHHHcCCCCCccEE-EECCEECccccccccCCHhHCCEEEEeCCCccCCCCCHHHHH
Confidence            377999999999999999998888776554444444 4432211 0      111234577777776655555655544

>1oxx_K GLCV, glucose, ABC transporter, ATP binding protein; ABC-ATPase, ATP-binding cassette, ATPase, transport protein; 1.45A {Sulfolobus solfataricus} SCOP: b.40.6.3 c.37.1.12 PDB: 1oxs_C 1oxt_A 1oxu_A* 1oxv_A*

Probab=99.11  E-value=2.4e-11  Score=108.50  Aligned_cols=37  Identities=22%  Similarity=0.214  Sum_probs=28.9

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEE
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCA  152 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~  152 (264)
                      -+++|+++.|.||||||||||+..++....+..+.+.
T Consensus        27 ~i~~Ge~~~llGpnGsGKSTLLr~iaGl~~p~~G~I~   63 (353)
T 1oxx_K           27 NIENGERFGILGPSGAGKTTFMRIIAGLDVPSTGELY   63 (353)
T ss_dssp             EECTTCEEEEECSCHHHHHHHHHHHHTSSCCSEEEEE
T ss_pred             EECCCCEEEEECCCCCcHHHHHHHHhCCCCCCceEEE
Confidence            3789999999999999999988887765544444443

>1b0u_A Histidine permease; ABC transporter, transport protein; HET: ATP; 1.50A {Salmonella typhimurium} SCOP: c.37.1.12

Probab=99.10  E-value=2.4e-10  Score=97.98  Aligned_cols=73  Identities=14%  Similarity=0.079  Sum_probs=47.2

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCC-----------CCH----HHHHHcCCCccceeEeCC
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENA-----------LDP----SLAEAMGIDAENLLIAQP  180 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~-----------~~~----~~~~~~g~~~~~l~~~~~  180 (264)
                      -+++|+++.|.||||||||||+..++....+..|.+.|...+..           ...    .+.+.+|+.+++..++..
T Consensus        28 ~i~~Ge~~~liG~nGsGKSTLlk~l~Gl~~p~~G~i~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~v~Q~~~l~~~  107 (262)
T 1b0u_A           28 QARAGDVISIIGSSGSGKSTFLRCINFLEKPSEGAIIVNGQNINLVRDKDGQLKVADKNQLRLLRTRLTMVFQHFNLWSH  107 (262)
T ss_dssp             EECTTCEEEEECCTTSSHHHHHHHHTTSSCCSEEEEEETTEECCEEECTTSSEEESCHHHHHHHHHHEEEECSSCCCCTT
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhcCCCCCCcEEEECCEEccccccccccccccChhhHHHHhcceEEEecCcccCCC
Confidence            37899999999999999999888887655444455544332221           111    234568888777655555


Q ss_pred             CCHHHHHH
Q 024705          181 DSAENLLS  188 (264)
Q Consensus       181 ~~~ee~~~  188 (264)
                      .++.+.+.
T Consensus       108 ltv~e~l~  115 (262)
T 1b0u_A          108 MTVLENVM  115 (262)
T ss_dssp             SCHHHHHH
T ss_pred             CcHHHHHH
Confidence            55554443

>2qi9_C Vitamin B12 import ATP-binding protein BTUD; inner membrane, membrane, transmembrane, transport, ATP- binding, hydrolase, nucleotide-binding, periplasm; HET: 1PE; 2.60A {Escherichia coli} PDB: 1l7v_C* 4dbl_C

Probab=99.09  E-value=1.4e-10  Score=98.81  Aligned_cols=128  Identities=16%  Similarity=0.160  Sum_probs=76.1

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCC-CC-HHHHHHcCCCccceeEeCCCCHHHHH------
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENA-LD-PSLAEAMGIDAENLLIAQPDSAENLL------  187 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~-~~-~~~~~~~g~~~~~l~~~~~~~~ee~~------  187 (264)
                      -+++|+++.|.||||||||||+..++....+. +.+.+...+.. .. ..+.+.+|+.+++..++...++.+.+      
T Consensus        22 ~i~~Ge~~~liG~NGsGKSTLlk~l~Gl~~p~-G~i~~~g~~~~~~~~~~~~~~i~~v~q~~~~~~~~tv~e~l~~~~~~  100 (249)
T 2qi9_C           22 EVRAGEILHLVGPNGAGKSTLLARMAGMTSGK-GSIQFAGQPLEAWSATKLALHRAYLSQQQTPPFATPVWHYLTLHQHD  100 (249)
T ss_dssp             EEETTCEEEEECCTTSSHHHHHHHHTTSSCCE-EEEEETTEEGGGSCHHHHHHHEEEECSCCCCCTTCBHHHHHHTTCSS
T ss_pred             EEcCCCEEEEECCCCCcHHHHHHHHhCCCCCC-eEEEECCEECCcCCHHHHhceEEEECCCCccCCCCcHHHHHHHhhcc
Confidence            37899999999999999999988887766555 54443221111 11 23445577666654333222222211      


Q ss_pred             --------HH---------------------------HHHHhhcCCcc-------EEEEcCccccccccccCCCcCCCCc
Q 024705          188 --------SV---------------------------VDTLTKSGSID-------VIVVDSVAALIPKCEIGVPINGMYS  225 (264)
Q Consensus       188 --------~~---------------------------i~~~~~~~~~~-------~vvIDsl~~~~~~~~~~~~~~~~~~  225 (264)
                              +.                           ++.++  .+++       ++++|..++-.             +
T Consensus       101 ~~~~~~~~~~l~~~~l~~~~~~~~~~LSgGq~qrv~lAraL~--~~p~~~~~~~~lllLDEPts~L-------------D  165 (249)
T 2qi9_C          101 KTRTELLNDVAGALALDDKLGRSTNQLSGGEWQRVRLAAVVL--QITPQANPAGQLLLLDEPMNSL-------------D  165 (249)
T ss_dssp             TTCHHHHHHHHHHTTCGGGTTSBGGGCCHHHHHHHHHHHHHH--HHCTTTCTTCCEEEESSTTTTC-------------C
T ss_pred             CCcHHHHHHHHHHcCChhHhcCChhhCCHHHHHHHHHHHHHH--cCCCcCCCCCeEEEEECCcccC-------------C
Confidence                    11                           11111  2456       88888766554             2


Q ss_pred             HHHHHHHHHHHHHHHHHHhccCcEEEEEcccchHhhhc
Q 024705          226 DAQSRIMTQALRKIHYSLCQSHTLIIFLNQVKVLLLKH  263 (264)
Q Consensus       226 ~~q~r~i~~~L~~l~~~l~~~g~tVi~i~h~~~~~~~~  263 (264)
                      ....+.+.+.|+++.   ++ |.|||+++|..+.+...
T Consensus       166 ~~~~~~l~~~l~~l~---~~-g~tviivtHd~~~~~~~  199 (249)
T 2qi9_C          166 VAQQSALDKILSALS---QQ-GLAIVMSSHDLNHTLRH  199 (249)
T ss_dssp             HHHHHHHHHHHHHHH---HT-TCEEEEECSCHHHHHHH
T ss_pred             HHHHHHHHHHHHHHH---hC-CCEEEEEeCCHHHHHHh
Confidence            244455566666664   44 99999999998876543

>1g6h_A High-affinity branched-chain amino acid transport ATP-binding protein; beta-core domain; HET: ADP; 1.60A {Methanocaldococcus jannaschii} SCOP: c.37.1.12 PDB: 1gaj_A 1g9x_A*

Probab=99.09  E-value=1.7e-10  Score=98.64  Aligned_cols=60  Identities=18%  Similarity=0.173  Sum_probs=38.8

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCC-CH--HHHHHcCCCccce
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENAL-DP--SLAEAMGIDAENL  175 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~-~~--~~~~~~g~~~~~l  175 (264)
                      -+++|+++.|.||||||||||+..++....+..|.+.+...+... ..  ...+.+|+.+|+.
T Consensus        29 ~i~~Ge~~~liG~nGsGKSTLlk~l~Gl~~p~~G~i~~~g~~~~~~~~~~~~~~~i~~v~q~~   91 (257)
T 1g6h_A           29 SVNKGDVTLIIGPNGSGKSTLINVITGFLKADEGRVYFENKDITNKEPAELYHYGIVRTFQTP   91 (257)
T ss_dssp             EEETTCEEEEECSTTSSHHHHHHHHTTSSCCSEEEEEETTEECTTCCHHHHHHHTEEECCCCC
T ss_pred             EEeCCCEEEEECCCCCCHHHHHHHHhCCCCCCCcEEEECCEECCCCCHHHHHhCCEEEEccCC
Confidence            478999999999999999998888877654444554443222211 11  1234577766643

>1ji0_A ABC transporter; ATP binding protein, structural genomics, PSI, protein structure initiative, midwest center for structural genomics, MCSG; HET: ATP; 2.00A {Thermotoga maritima} SCOP: c.37.1.12

Probab=99.06  E-value=2.2e-11  Score=103.19  Aligned_cols=72  Identities=18%  Similarity=0.206  Sum_probs=44.8

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCC-CH-HH-HHHcCCCccceeEeCCCCHHHHH
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENAL-DP-SL-AEAMGIDAENLLIAQPDSAENLL  187 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~-~~-~~-~~~~g~~~~~l~~~~~~~~ee~~  187 (264)
                      -+++|+++.|.||||||||||+..++....+..+.+.+...+... .. .+ .+.+|+.+++..++...++.+.+
T Consensus        28 ~i~~Ge~~~l~G~nGsGKSTLl~~l~Gl~~p~~G~i~~~g~~~~~~~~~~~~~~~i~~v~q~~~l~~~ltv~enl  102 (240)
T 1ji0_A           28 KVPRGQIVTLIGANGAGKTTTLSAIAGLVRAQKGKIIFNGQDITNKPAHVINRMGIALVPEGRRIFPELTVYENL  102 (240)
T ss_dssp             EEETTCEEEEECSTTSSHHHHHHHHTTSSCCSEEEEEETTEECTTCCHHHHHHTTEEEECSSCCCCTTSBHHHHH
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhCCCCCCCceEEECCEECCCCCHHHHHhCCEEEEecCCccCCCCcHHHHH
Confidence            377999999999999999998888876554444555443222211 12 22 23478777765544444444443

>1sgw_A Putative ABC transporter; structural genomics, P protein structure initiative, southeast collaboratory for S genomics, secsg; 1.70A {Pyrococcus furiosus} SCOP: c.37.1.12

Probab=99.05  E-value=2.2e-11  Score=101.39  Aligned_cols=71  Identities=21%  Similarity=0.251  Sum_probs=46.0

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCHHHHHHcCCCccceeEeCCCCHHHHHHH
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSV  189 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~~~~~~~g~~~~~l~~~~~~~~ee~~~~  189 (264)
                      -+++|+++.|.||||||||||+..++....+..+.+. ++.....  .+.+.+|+.+++..++...++.+.+..
T Consensus        31 ~i~~Ge~~~iiG~NGsGKSTLlk~l~Gl~~p~~G~I~-~~g~~~~--~~~~~i~~v~q~~~~~~~~tv~enl~~  101 (214)
T 1sgw_A           31 TIEKGNVVNFHGPNGIGKTTLLKTISTYLKPLKGEII-YNGVPIT--KVKGKIFFLPEEIIVPRKISVEDYLKA  101 (214)
T ss_dssp             EEETTCCEEEECCTTSSHHHHHHHHTTSSCCSEEEEE-ETTEEGG--GGGGGEEEECSSCCCCTTSBHHHHHHH
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhcCCCCCCeEEE-ECCEEhh--hhcCcEEEEeCCCcCCCCCCHHHHHHH
Confidence            3779999999999999999988887765544444444 4322111  234457777776655555566655543

>2nq2_C Hypothetical ABC transporter ATP-binding protein HI1470; putative iron chelatin ABC transporter, nucleotide binding domain; 2.40A {Haemophilus influenzae}

Probab=99.04  E-value=2.6e-10  Score=97.35  Aligned_cols=130  Identities=17%  Similarity=0.245  Sum_probs=73.0

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCe------EEEEecCCCCCH--HHHHH--cCCC---------ccc--
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGY------CAYLDVENALDP--SLAEA--MGID---------AEN--  174 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~------v~~~~~e~~~~~--~~~~~--~g~~---------~~~--  174 (264)
                      -+++|+++.|.||||||||||+..++....+..+.      +.|+..+.....  ...+.  ++..         ...  
T Consensus        27 ~i~~Ge~~~l~G~nGsGKSTLl~~l~Gl~~p~~G~I~~~~~i~~v~q~~~~~~~~tv~enl~~~~~~~~~~~~~~~~~~~  106 (253)
T 2nq2_C           27 DLNKGDILAVLGQNGCGKSTLLDLLLGIHRPIQGKIEVYQSIGFVPQFFSSPFAYSVLDIVLMGRSTHINTFAKPKSHDY  106 (253)
T ss_dssp             EEETTCEEEEECCSSSSHHHHHHHHTTSSCCSEEEEEECSCEEEECSCCCCSSCCBHHHHHHGGGGGGSCTTCCCCHHHH
T ss_pred             EECCCCEEEEECCCCCCHHHHHHHHhCCCCCCCcEEEEeccEEEEcCCCccCCCCCHHHHHHHhhhhhcccccCCCHHHH
Confidence            37799999999999999999988887765444333      445544332211  01111  1100         000  


Q ss_pred             ---------eeE-------eCCCCHH--HHHHHHHHHhhcCCccEEEEcCccccccccccCCCcCCCCcHHHHHHHHHHH
Q 024705          175 ---------LLI-------AQPDSAE--NLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQAL  236 (264)
Q Consensus       175 ---------l~~-------~~~~~~e--e~~~~i~~~~~~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r~i~~~L  236 (264)
                               +.+       ....+..  +.+.+++.++  .+|+++++|..++-..             ...++.+.+.+
T Consensus       107 ~~~~~~l~~~~l~~~~~~~~~~LSgGq~qrv~lAraL~--~~p~lllLDEPts~LD-------------~~~~~~l~~~l  171 (253)
T 2nq2_C          107 QVAMQALDYLNLTHLAKREFTSLSGGQRQLILIARAIA--SECKLILLDEPTSALD-------------LANQDIVLSLL  171 (253)
T ss_dssp             HHHHHHHHHTTCGGGTTSBGGGSCHHHHHHHHHHHHHH--TTCSEEEESSSSTTSC-------------HHHHHHHHHHH
T ss_pred             HHHHHHHHHcCChHHhcCChhhCCHHHHHHHHHHHHHH--cCCCEEEEeCCcccCC-------------HHHHHHHHHHH
Confidence                     000       0011111  2222333333  5788999997766542             24444455666


Q ss_pred             HHHHHHHhccCcEEEEEcccchHhhhc
Q 024705          237 RKIHYSLCQSHTLIIFLNQVKVLLLKH  263 (264)
Q Consensus       237 ~~l~~~l~~~g~tVi~i~h~~~~~~~~  263 (264)
                      +++.   ++.|.|||+++|..+.+...
T Consensus       172 ~~l~---~~~g~tvi~vtHd~~~~~~~  195 (253)
T 2nq2_C          172 IDLA---QSQNMTVVFTTHQPNQVVAI  195 (253)
T ss_dssp             HHHH---HTSCCEEEEEESCHHHHHHH
T ss_pred             HHHH---HhcCCEEEEEecCHHHHHHh
Confidence            6664   55599999999998877543

>2ff7_A Alpha-hemolysin translocation ATP-binding protein HLYB; ABC-transporter, transport protein; HET: ADP; 1.60A {Escherichia coli} SCOP: c.37.1.12 PDB: 2ffb_A* 2fgk_A* 2ffa_A* 2fgj_A* 2pmk_A* 3b5j_A* 1mt0_A 1xef_A*

Probab=99.00  E-value=9.7e-10  Score=93.42  Aligned_cols=61  Identities=26%  Similarity=0.415  Sum_probs=40.8

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCC-CC-C-HHHHHHcCCCccceeE
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVEN-AL-D-PSLAEAMGIDAENLLI  177 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~-~~-~-~~~~~~~g~~~~~l~~  177 (264)
                      -+++|+++.|.||||||||||+..++....+..+.+ +++... .. . ..+.+.+|+.+++..+
T Consensus        31 ~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~p~~G~I-~i~g~~~~~~~~~~~~~~i~~v~Q~~~l   94 (247)
T 2ff7_A           31 SIKQGEVIGIVGRSGSGKSTLTKLIQRFYIPENGQV-LIDGHDLALADPNWLRRQVGVVLQDNVL   94 (247)
T ss_dssp             EEETTCEEEEECSTTSSHHHHHHHHTTSSCCSEEEE-EETTEETTTSCHHHHHHHEEEECSSCCC
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhcCCCCCCcEE-EECCEEhhhCCHHHHHhcEEEEeCCCcc
Confidence            378999999999999999998888777654444554 444322 11 1 2345567877765443

>2ixe_A Antigen peptide transporter 1; ABC ATPase, hydrolase; HET: ATP; 2.0A {Rattus norvegicus} PDB: 2ixg_A* 2ixf_A* 1jj7_A*

Probab=99.00  E-value=4.5e-10  Score=96.77  Aligned_cols=62  Identities=27%  Similarity=0.319  Sum_probs=41.5

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCC--CC-HHHHHHcCCCccceeEe
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENA--LD-PSLAEAMGIDAENLLIA  178 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~--~~-~~~~~~~g~~~~~l~~~  178 (264)
                      -+++|+++.|.||||||||||+..++....+..+.+. ++....  .. ..+.+.+|+.+++..++
T Consensus        41 ~i~~Ge~~~i~G~nGsGKSTLlk~l~Gl~~p~~G~I~-~~g~~i~~~~~~~~~~~i~~v~Q~~~l~  105 (271)
T 2ixe_A           41 TLYPGKVTALVGPNGSGKSTVAALLQNLYQPTGGKVL-LDGEPLVQYDHHYLHTQVAAVGQEPLLF  105 (271)
T ss_dssp             EECTTCEEEEECSTTSSHHHHHHHHTTSSCCSEEEEE-ETTEEGGGBCHHHHHHHEEEECSSCCCC
T ss_pred             EECCCCEEEEECCCCCCHHHHHHHHhcCCCCCCCEEE-ECCEEcccCCHHHHhccEEEEecCCccc
Confidence            3789999999999999999988888776554445554 433211  11 23455678777765444

>2ihy_A ABC transporter, ATP-binding protein; ATPase, ABC cassette, hydrolase; HET: MSE; 1.90A {Staphylococcus aureus}

Probab=98.98  E-value=2.9e-10  Score=98.38  Aligned_cols=38  Identities=26%  Similarity=0.290  Sum_probs=29.9

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEE
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAY  153 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~  153 (264)
                      -+++|+++.|.||||||||||+..++....+..+.+.|
T Consensus        43 ~i~~Ge~~~liG~NGsGKSTLlk~l~Gl~~p~~G~I~~   80 (279)
T 2ihy_A           43 QIAKGDKWILYGLNGAGKTTLLNILNAYEPATSGTVNL   80 (279)
T ss_dssp             EEETTCEEEEECCTTSSHHHHHHHHTTSSCCSEEEEEE
T ss_pred             EEcCCCEEEEECCCCCcHHHHHHHHhCCCCCCCeEEEE
Confidence            37899999999999999999888877655444454444

>2yz2_A Putative ABC transporter ATP-binding protein TM_0; cobalt transport, TM02 hydrolase, inner membrane, membrane, nucleotide-binding; 2.30A {Thermotoga maritima}

Probab=98.96  E-value=9.9e-11  Score=100.64  Aligned_cols=58  Identities=22%  Similarity=0.248  Sum_probs=38.1

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCHHHHHHcCCCccc
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAEN  174 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~~~~~~~g~~~~~  174 (264)
                      -+++|+++.|.||||||||||+..++....+..|.+ +++........+.+.+|+.+++
T Consensus        29 ~i~~Ge~~~liG~nGsGKSTLl~~i~Gl~~p~~G~I-~~~g~~~~~~~~~~~i~~v~q~   86 (266)
T 2yz2_A           29 VINEGECLLVAGNTGSGKSTLLQIVAGLIEPTSGDV-LYDGERKKGYEIRRNIGIAFQY   86 (266)
T ss_dssp             EECTTCEEEEECSTTSSHHHHHHHHTTSSCCSEEEE-EETTEECCHHHHGGGEEEECSS
T ss_pred             EEcCCCEEEEECCCCCcHHHHHHHHhCCCCCCCcEE-EECCEECchHHhhhhEEEEecc
Confidence            378999999999999999998888776554444444 4433221111233456776665

>2d2e_A SUFC protein; ABC-ATPase, SUF protein, 310-helix, riken structural genomics/proteomics initiative, RSGI, structural genomics, binding; 1.70A {Thermus thermophilus} PDB: 2d2f_A*

Probab=98.94  E-value=7.6e-10  Score=94.21  Aligned_cols=73  Identities=22%  Similarity=0.270  Sum_probs=46.9

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHH--HhhcCCeEEEEecCCC-C-CH-HH-HHHcCCCccceeEeCCCCHHHHHHH
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKE--AQKLGGYCAYLDVENA-L-DP-SL-AEAMGIDAENLLIAQPDSAENLLSV  189 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~--~~~~g~~v~~~~~e~~-~-~~-~~-~~~~g~~~~~l~~~~~~~~ee~~~~  189 (264)
                      -+++|+++.|.||||||||||+..++..  ..+..+.+ +++.... . .. .+ ...+++.+++..++...++.+.+..
T Consensus        25 ~i~~Ge~~~l~G~nGsGKSTLlk~l~Gl~~~~p~~G~I-~~~g~~~~~~~~~~~~~~~i~~v~q~~~~~~~~tv~e~l~~  103 (250)
T 2d2e_A           25 VVPKGEVHALMGPNGAGKSTLGKILAGDPEYTVERGEI-LLDGENILELSPDERARKGLFLAFQYPVEVPGVTIANFLRL  103 (250)
T ss_dssp             EEETTCEEEEECSTTSSHHHHHHHHHTCTTCEEEEEEE-EETTEECTTSCHHHHHHTTBCCCCCCCC-CCSCBHHHHHHH
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhCCCCCCCCceEE-EECCEECCCCCHHHHHhCcEEEeccCCccccCCCHHHHHHH
Confidence            3779999999999999999998888775  23334444 4443221 1 12 22 2236788887766666677666544

>2kjq_A DNAA-related protein; solution structure, NESG, structural genomics, PSI-2, protei structure initiative; NMR {Neisseria meningitidis serogroup B}

Probab=98.94  E-value=5.3e-09  Score=81.96  Aligned_cols=89  Identities=18%  Similarity=0.293  Sum_probs=62.1

Q ss_pred             CCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCHHHHHHcCCCccceeEeCCCCHHHHHHHHHHHhhcCC
Q 024705          119 KGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTKSGS  198 (264)
Q Consensus       119 ~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~~~~~~~g~~~~~l~~~~~~~~ee~~~~i~~~~~~~~  198 (264)
                      +|+.++|+||+|+|||||+..++..+...|.+++|++.......                             ...  .+
T Consensus        35 ~g~~~~l~G~~G~GKTtL~~~i~~~~~~~g~~~~~~~~~~~~~~-----------------------------~~~--~~   83 (149)
T 2kjq_A           35 HGQFIYVWGEEGAGKSHLLQAWVAQALEAGKNAAYIDAASMPLT-----------------------------DAA--FE   83 (149)
T ss_dssp             CCSEEEEESSSTTTTCHHHHHHHHHHHTTTCCEEEEETTTSCCC-----------------------------GGG--GG
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHHHhcCCcEEEEcHHHhhHH-----------------------------HHH--hC
Confidence            89999999999999999999999988777777888876542211                             011  36


Q ss_pred             ccEEEEcCccccccccccCCCcCCCCcHHHHHHHHHHHHHHHHHHhccCcE-EEEEccc
Q 024705          199 IDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTL-IIFLNQV  256 (264)
Q Consensus       199 ~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r~i~~~L~~l~~~l~~~g~t-Vi~i~h~  256 (264)
                      +++++||.+..+..              ..+..+...+..+    .+.|.+ +|+++|.
T Consensus        84 ~~lLilDE~~~~~~--------------~~~~~l~~li~~~----~~~g~~~iiits~~  124 (149)
T 2kjq_A           84 AEYLAVDQVEKLGN--------------EEQALLFSIFNRF----RNSGKGFLLLGSEY  124 (149)
T ss_dssp             CSEEEEESTTCCCS--------------HHHHHHHHHHHHH----HHHTCCEEEEEESS
T ss_pred             CCEEEEeCccccCh--------------HHHHHHHHHHHHH----HHcCCcEEEEECCC
Confidence            89999999886442              1223333444433    556776 7778774

>3nh6_A ATP-binding cassette SUB-family B member 6, mitoc; ABC-transporter, ABCB6, nucleotide binding domain, heme BIOS transport protein; 2.00A {Homo sapiens} PDB: 3nh9_A* 3nha_A* 3nhb_A*

Probab=98.91  E-value=1.3e-09  Score=95.38  Aligned_cols=62  Identities=16%  Similarity=0.282  Sum_probs=41.5

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCC--C-HHHHHHcCCCccceeEe
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENAL--D-PSLAEAMGIDAENLLIA  178 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~--~-~~~~~~~g~~~~~l~~~  178 (264)
                      -+++|+++.|.||||||||||+..++....+..|.+ +++.....  . ..+.+.+|+.+|+..++
T Consensus        76 ~i~~Ge~vaivG~sGsGKSTLl~ll~gl~~p~~G~I-~i~G~~i~~~~~~~~r~~i~~v~Q~~~lf  140 (306)
T 3nh6_A           76 TVMPGQTLALVGPSGAGKSTILRLLFRFYDISSGCI-RIDGQDISQVTQASLRSHIGVVPQDTVLF  140 (306)
T ss_dssp             EECTTCEEEEESSSCHHHHHHHHHHTTSSCCSEEEE-EETTEETTSBCHHHHHHTEEEECSSCCCC
T ss_pred             EEcCCCEEEEECCCCchHHHHHHHHHcCCCCCCcEE-EECCEEcccCCHHHHhcceEEEecCCccC
Confidence            378999999999999999998887776555444544 44432211  1 13456678777765443

>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=98.91  E-value=1.3e-08  Score=81.64  Aligned_cols=109  Identities=20%  Similarity=0.196  Sum_probs=64.6

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHh-hcCCeEEEEecCCCCCHHHHHHcCCCccceeEeCCCCHHHHHHHHHHHh
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQ-KLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLT  194 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~-~~g~~v~~~~~e~~~~~~~~~~~g~~~~~l~~~~~~~~ee~~~~i~~~~  194 (264)
                      .+++|..++|+||||+|||||+..++..+. ..|..++|++..+..... ...+.  ..      ..  .+....   + 
T Consensus        34 ~~~~g~~~~l~G~~G~GKTtL~~~i~~~~~~~~g~~~~~~~~~~~~~~~-~~~~~--~~------~~--~~~~~~---~-   98 (180)
T 3ec2_A           34 NPEEGKGLTFVGSPGVGKTHLAVATLKAIYEKKGIRGYFFDTKDLIFRL-KHLMD--EG------KD--TKFLKT---V-   98 (180)
T ss_dssp             CGGGCCEEEECCSSSSSHHHHHHHHHHHHHHHSCCCCCEEEHHHHHHHH-HHHHH--HT------CC--SHHHHH---H-
T ss_pred             cccCCCEEEEECCCCCCHHHHHHHHHHHHHHHcCCeEEEEEHHHHHHHH-HHHhc--Cc------hH--HHHHHH---h-
Confidence            356689999999999999999999999887 456677787643321110 00000  00      00  112221   1 


Q ss_pred             hcCCccEEEEcCccccccccccCCCcCCCCcHHHHHHHHHHHHHHHHHHhccCcEEEEEcccc
Q 024705          195 KSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVK  257 (264)
Q Consensus       195 ~~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r~i~~~L~~l~~~l~~~g~tVi~i~h~~  257 (264)
                        .+++++++|.+.....            +.....    .+..+.....+.|+++|+++|..
T Consensus        99 --~~~~llilDE~~~~~~------------~~~~~~----~l~~ll~~~~~~~~~ii~tsn~~  143 (180)
T 3ec2_A           99 --LNSPVLVLDDLGSERL------------SDWQRE----LISYIITYRYNNLKSTIITTNYS  143 (180)
T ss_dssp             --HTCSEEEEETCSSSCC------------CHHHHH----HHHHHHHHHHHTTCEEEEECCCC
T ss_pred             --cCCCEEEEeCCCCCcC------------CHHHHH----HHHHHHHHHHHcCCCEEEEcCCC
Confidence              2789999999874321            112222    33333333355688899888865

>2ghi_A Transport protein; multidrug resistance protein, MDR, structural genomics, structural genomics consortium, SGC; 2.20A {Plasmodium yoelii yoelii str}

Probab=98.81  E-value=4.8e-09  Score=89.77  Aligned_cols=61  Identities=21%  Similarity=0.336  Sum_probs=39.3

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCC--CC-HHHHHHcCCCccceeEe
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENA--LD-PSLAEAMGIDAENLLIA  178 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~--~~-~~~~~~~g~~~~~l~~~  178 (264)
                      -+++|+++.|.||||||||||+..++.... ..+. ++++....  .. ..+.+.+|+.+++..++
T Consensus        42 ~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~-~~G~-I~i~g~~i~~~~~~~~~~~i~~v~Q~~~l~  105 (260)
T 2ghi_A           42 FIPSGTTCALVGHTGSGKSTIAKLLYRFYD-AEGD-IKIGGKNVNKYNRNSIRSIIGIVPQDTILF  105 (260)
T ss_dssp             EECTTCEEEEECSTTSSHHHHHHHHTTSSC-CEEE-EEETTEEGGGBCHHHHHTTEEEECSSCCCC
T ss_pred             EECCCCEEEEECCCCCCHHHHHHHHhccCC-CCeE-EEECCEEhhhcCHHHHhccEEEEcCCCccc
Confidence            478999999999999999999888877553 3343 44433211  11 12344567766654433

>2zu0_C Probable ATP-dependent transporter SUFC; iron-sulfur cluster, ABC-ATPase, ATP-binding, cytoplasm, nucleotide-binding; HET: MES; 2.20A {Escherichia coli} PDB: 2d3w_A

Probab=98.79  E-value=8e-09  Score=88.72  Aligned_cols=73  Identities=21%  Similarity=0.268  Sum_probs=45.2

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHH--hhcCCeEEEEecCCC--CCH-HH-HHHcCCCccceeEeCCCCHHHHHHH
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEA--QKLGGYCAYLDVENA--LDP-SL-AEAMGIDAENLLIAQPDSAENLLSV  189 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~--~~~g~~v~~~~~e~~--~~~-~~-~~~~g~~~~~l~~~~~~~~ee~~~~  189 (264)
                      -+++|+++.|.||||||||||+..++...  .+..+.+ +++....  ... .+ ...+++.+++..++...++.+++..
T Consensus        42 ~i~~Ge~~~l~G~NGsGKSTLlk~l~Gl~~~~p~~G~I-~~~g~~i~~~~~~~~~~~~i~~v~Q~~~l~~~~tv~e~~~~  120 (267)
T 2zu0_C           42 DVHPGEVHAIMGPNGSGKSTLSATLAGREDYEVTGGTV-EFKGKDLLALSPEDRAGEGIFMAFQYPVEIPGVSNQFFLQT  120 (267)
T ss_dssp             EECTTCEEEEECCTTSSHHHHHHHHHTCTTCEEEEEEE-EETTEEGGGSCHHHHHHHTEEEECSSCCCCTTCBHHHHHHH
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhCCCCCCCCCeEE-EECCEECCcCCHHHHhhCCEEEEccCccccccccHHHHHHH
Confidence            37899999999999999999988887752  2234444 4433211  111 22 2236777776655555566655543

>1mv5_A LMRA, multidrug resistance ABC transporter ATP-binding and permease protein; asymmetric dimer, tetramer, P-glycoprotein; HET: ATP ADP; 3.10A {Lactococcus lactis} SCOP: c.37.1.12

Probab=98.78  E-value=4.5e-09  Score=89.02  Aligned_cols=38  Identities=18%  Similarity=0.178  Sum_probs=31.0

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEE
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAY  153 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~  153 (264)
                      -+++|+++.|.||||||||||+..++....+..+.+.+
T Consensus        24 ~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~p~~G~i~~   61 (243)
T 1mv5_A           24 EAQPNSIIAFAGPSGGGKSTIFSLLERFYQPTAGEITI   61 (243)
T ss_dssp             EECTTEEEEEECCTTSSHHHHHHHHTTSSCCSBSCEEE
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhcCCCCCCcEEEE
Confidence            37899999999999999999988887765555565554

>3ozx_A RNAse L inhibitor; ATP binding cassette protein, hydrolase, translation; HET: ADP; 2.05A {Sulfolobus solfataricus}

Probab=98.76  E-value=2.8e-08  Score=93.42  Aligned_cols=130  Identities=18%  Similarity=0.214  Sum_probs=77.0

Q ss_pred             CCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCe-------EEEEecCCCCC------HHHHHHc-CC-Cc---------
Q 024705          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGY-------CAYLDVENALD------PSLAEAM-GI-DA---------  172 (264)
Q Consensus       117 l~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~-------v~~~~~e~~~~------~~~~~~~-g~-~~---------  172 (264)
                      +++|+++.|.||||||||||+..++....+..+.       +.|+..+....      +...... .. ..         
T Consensus       291 i~~Gei~~i~G~nGsGKSTLl~~l~Gl~~p~~G~i~~~~~~i~~~~q~~~~~~~~tv~~~l~~~~~~~~~~~~~~~~~~l  370 (538)
T 3ozx_A          291 AKEGEIIGILGPNGIGKTTFARILVGEITADEGSVTPEKQILSYKPQRIFPNYDGTVQQYLENASKDALSTSSWFFEEVT  370 (538)
T ss_dssp             EETTCEEEEECCTTSSHHHHHHHHTTSSCCSBCCEESSCCCEEEECSSCCCCCSSBHHHHHHHHCSSTTCTTSHHHHHTT
T ss_pred             ECCCCEEEEECCCCCCHHHHHHHHhCCCCCCCcEEEECCeeeEeechhcccccCCCHHHHHHHhhhhccchhHHHHHHHH
Confidence            5789999999999999999998888765544333       34444332211      0111100 00 00         


Q ss_pred             ccee-------EeCCCCHH--HHHHHHHHHhhcCCccEEEEcCccccccccccCCCcCCCCcHHHHHHHHHHHHHHHHHH
Q 024705          173 ENLL-------IAQPDSAE--NLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSL  243 (264)
Q Consensus       173 ~~l~-------~~~~~~~e--e~~~~i~~~~~~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r~i~~~L~~l~~~l  243 (264)
                      +.+.       .....+.-  +-+.+.+.+.  .+|+++++|..++-..             ...+..+.+.|++++   
T Consensus       371 ~~~~l~~~~~~~~~~LSGGq~QRv~iAraL~--~~p~lLlLDEPT~gLD-------------~~~~~~i~~~l~~l~---  432 (538)
T 3ozx_A          371 KRLNLHRLLESNVNDLSGGELQKLYIAATLA--KEADLYVLDQPSSYLD-------------VEERYIVAKAIKRVT---  432 (538)
T ss_dssp             TTTTGGGCTTSBGGGCCHHHHHHHHHHHHHH--SCCSEEEEESTTTTCC-------------HHHHHHHHHHHHHHH---
T ss_pred             HHcCCHHHhcCChhhCCHHHHHHHHHHHHHH--cCCCEEEEeCCccCCC-------------HHHHHHHHHHHHHHH---
Confidence            0000       00112222  2233344443  5899999998776652             244555667777775   


Q ss_pred             hccCcEEEEEcccchHhhhcC
Q 024705          244 CQSHTLIIFLNQVKVLLLKHF  264 (264)
Q Consensus       244 ~~~g~tVi~i~h~~~~~~~~~  264 (264)
                      ++.|+|||+++|..+.+...|
T Consensus       433 ~~~g~tvi~vsHdl~~~~~~a  453 (538)
T 3ozx_A          433 RERKAVTFIIDHDLSIHDYIA  453 (538)
T ss_dssp             HHTTCEEEEECSCHHHHHHHC
T ss_pred             HhCCCEEEEEeCCHHHHHHhC
Confidence            678999999999998876543

>3j16_B RLI1P; ribosome recycling, translation, eukarya, ribosome; HET: ATP; 7.20A {Saccharomyces cerevisiae}

Probab=98.75  E-value=5.9e-08  Score=92.39  Aligned_cols=131  Identities=18%  Similarity=0.193  Sum_probs=77.5

Q ss_pred             CCCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCC------eEEEEecCCCCC------HHHHH----------------
Q 024705          115 GGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGG------YCAYLDVENALD------PSLAE----------------  166 (264)
Q Consensus       115 gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~------~v~~~~~e~~~~------~~~~~----------------  166 (264)
                      |-+.+|+++.|.||||||||||+..++....+..+      .+.|+..+....      .....                
T Consensus       373 G~~~~GEiv~iiG~NGsGKSTLlk~l~Gl~~p~~G~~~~~~~i~~~~q~~~~~~~~tv~e~~~~~~~~~~~~~~~~~~~l  452 (608)
T 3j16_B          373 GEFSDSEILVMMGENGTGKTTLIKLLAGALKPDEGQDIPKLNVSMKPQKIAPKFPGTVRQLFFKKIRGQFLNPQFQTDVV  452 (608)
T ss_dssp             EECCTTCEEEEESCTTSSHHHHHHHHHTSSCCSBCCCCCSCCEEEECSSCCCCCCSBHHHHHHHHCSSTTTSHHHHHHTH
T ss_pred             CccccceEEEEECCCCCcHHHHHHHHhcCCCCCCCcCccCCcEEEecccccccCCccHHHHHHHHhhcccccHHHHHHHH
Confidence            45777899999999999999999888876544333      355655432211      01111                


Q ss_pred             -HcCCCccceeEeCCCCHHHH--HHHHHHHhhcCCccEEEEcCccccccccccCCCcCCCCcHHHHHHHHHHHHHHHHHH
Q 024705          167 -AMGIDAENLLIAQPDSAENL--LSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSL  243 (264)
Q Consensus       167 -~~g~~~~~l~~~~~~~~ee~--~~~i~~~~~~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r~i~~~L~~l~~~l  243 (264)
                       .+|+....-......+.-+.  +.+.+.+  ..+++++++|..++-..             ......+.+.++++.   
T Consensus       453 ~~l~l~~~~~~~~~~LSGGqkQRv~iAraL--~~~p~lLlLDEPT~gLD-------------~~~~~~i~~ll~~l~---  514 (608)
T 3j16_B          453 KPLRIDDIIDQEVQHLSGGELQRVAIVLAL--GIPADIYLIDEPSAYLD-------------SEQRIICSKVIRRFI---  514 (608)
T ss_dssp             HHHTSTTTSSSBSSSCCHHHHHHHHHHHHT--TSCCSEEEECCTTTTCC-------------HHHHHHHHHHHHHHH---
T ss_pred             HHcCChhhhcCChhhCCHHHHHHHHHHHHH--HhCCCEEEEECCCCCCC-------------HHHHHHHHHHHHHHH---
Confidence             11111000001112233222  2333333  35899999998776552             244455666777765   


Q ss_pred             hccCcEEEEEcccchHhhhc
Q 024705          244 CQSHTLIIFLNQVKVLLLKH  263 (264)
Q Consensus       244 ~~~g~tVi~i~h~~~~~~~~  263 (264)
                      ++.|.|||+++|..+.+...
T Consensus       515 ~~~g~tviivtHdl~~~~~~  534 (608)
T 3j16_B          515 LHNKKTAFIVEHDFIMATYL  534 (608)
T ss_dssp             HHHTCEEEEECSCHHHHHHH
T ss_pred             HhCCCEEEEEeCCHHHHHHh
Confidence            66799999999998877653

>1yqt_A RNAse L inhibitor; ATP-binding cassette, ribosome biogenesis, hydrolyase/translation complex; HET: ADP; 1.90A {Pyrococcus furiosus}

Probab=98.74  E-value=9.8e-09  Score=96.58  Aligned_cols=130  Identities=19%  Similarity=0.217  Sum_probs=74.4

Q ss_pred             CCCCcEEEEEecCCCChHHHHHHHHHHHhhcCC------eEEEEecCCCCCH-----HH-H----HH-------------
Q 024705          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGG------YCAYLDVENALDP-----SL-A----EA-------------  167 (264)
Q Consensus       117 l~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~------~v~~~~~e~~~~~-----~~-~----~~-------------  167 (264)
                      +++|+++.|.||||||||||+..++....+..+      ++.|+..+.....     .. .    ..             
T Consensus       309 i~~Ge~~~i~G~NGsGKSTLlk~l~Gl~~p~~G~i~~~~~i~~v~Q~~~~~~~~tv~~~~~~~~~~~~~~~~~~~~~l~~  388 (538)
T 1yqt_A          309 IKKGEVIGIVGPNGIGKTTFVKMLAGVEEPTEGKIEWDLTVAYKPQYIKADYEGTVYELLSKIDASKLNSNFYKTELLKP  388 (538)
T ss_dssp             EETTCEEEEECCTTSSHHHHHHHHHTSSCCSBCCCCCCCCEEEECSSCCCCCSSBHHHHHHHHHHHHHTCHHHHHHTTTT
T ss_pred             cCCCCEEEEECCCCCCHHHHHHHHhCCCCCCCeEEEECceEEEEecCCcCCCCCcHHHHHHhhhccCCCHHHHHHHHHHH
Confidence            368999999999999999999888876544332      3556655432210     00 0    00             


Q ss_pred             cCCCccceeEeCCCCHHHH--HHHHHHHhhcCCccEEEEcCccccccccccCCCcCCCCcHHHHHHHHHHHHHHHHHHhc
Q 024705          168 MGIDAENLLIAQPDSAENL--LSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQ  245 (264)
Q Consensus       168 ~g~~~~~l~~~~~~~~ee~--~~~i~~~~~~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r~i~~~L~~l~~~l~~  245 (264)
                      +|+....-......+.-+.  +.+.+.+  ..+++++++|..++-..             ...+..+.+.|++++   ++
T Consensus       389 ~~l~~~~~~~~~~LSGGe~qrv~lAraL--~~~p~lLlLDEPt~~LD-------------~~~~~~i~~~l~~l~---~~  450 (538)
T 1yqt_A          389 LGIIDLYDREVNELSGGELQRVAIAATL--LRDADIYLLDEPSAYLD-------------VEQRLAVSRAIRHLM---EK  450 (538)
T ss_dssp             TTCGGGTTSBGGGCCHHHHHHHHHHHHH--TSCCSEEEEECTTTTCC-------------HHHHHHHHHHHHHHH---HH
T ss_pred             cCChhhhcCChhhCCHHHHHHHHHHHHH--HhCCCEEEEeCCcccCC-------------HHHHHHHHHHHHHHH---Hh
Confidence            0110000000011222222  2223333  25788888887766552             134444566666664   56


Q ss_pred             cCcEEEEEcccchHhhhcC
Q 024705          246 SHTLIIFLNQVKVLLLKHF  264 (264)
Q Consensus       246 ~g~tVi~i~h~~~~~~~~~  264 (264)
                      .|.+||+++|....+...|
T Consensus       451 ~g~tvi~vsHd~~~~~~~~  469 (538)
T 1yqt_A          451 NEKTALVVEHDVLMIDYVS  469 (538)
T ss_dssp             HTCEEEEECSCHHHHHHHC
T ss_pred             CCCEEEEEeCCHHHHHHhC
Confidence            7999999999998876543

>4b4t_J 26S protease regulatory subunit 8 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.73  E-value=6.6e-08  Score=87.30  Aligned_cols=123  Identities=15%  Similarity=0.137  Sum_probs=74.9

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCHHHHHHcCCCccceeEeCCCCHHHHHHHHHHHhh
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTK  195 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~~~~~~~g~~~~~l~~~~~~~~ee~~~~i~~~~~  195 (264)
                      |+++..-++++||||+|||+++..++..+   +...+.++...-....                .-..+..+..+-...+
T Consensus       178 gi~~prGvLL~GPPGTGKTllAkAiA~e~---~~~f~~v~~s~l~sk~----------------vGese~~vr~lF~~Ar  238 (405)
T 4b4t_J          178 GIAQPKGVILYGPPGTGKTLLARAVAHHT---DCKFIRVSGAELVQKY----------------IGEGSRMVRELFVMAR  238 (405)
T ss_dssp             TCCCCCCEEEESCSSSSHHHHHHHHHHHH---TCEEEEEEGGGGSCSS----------------TTHHHHHHHHHHHHHH
T ss_pred             CCCCCCceEEeCCCCCCHHHHHHHHHHhh---CCCceEEEhHHhhccc----------------cchHHHHHHHHHHHHH
Confidence            67766779999999999999999998865   5566666543221110                0112333333333334


Q ss_pred             cCCccEEEEcCccccccccccCCCcCCCCcHHHHHHHHHHHHHHHHHHhccCcEEEEEcccchHh
Q 024705          196 SGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVKVLL  260 (264)
Q Consensus       196 ~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r~i~~~L~~l~~~l~~~g~tVi~i~h~~~~~  260 (264)
                      ...|.+++||.+.++.+... .+..  ..+....+.+.+.|..+-..-...++.||.+|+--+.+
T Consensus       239 ~~aP~IIFiDEiDai~~~R~-~~~~--~~~~~~~~~l~~lL~~lDg~~~~~~V~vIaATNrpd~L  300 (405)
T 4b4t_J          239 EHAPSIIFMDEIDSIGSTRV-EGSG--GGDSEVQRTMLELLNQLDGFETSKNIKIIMATNRLDIL  300 (405)
T ss_dssp             HTCSEEEEEESSSCCTTSCS-CSSS--GGGGHHHHHHHHHHHHHHTTTCCCCEEEEEEESCSSSS
T ss_pred             HhCCceEeeecchhhccCCC-CCCC--CCcHHHHHHHHHHHHhhhccCCCCCeEEEeccCChhhC
Confidence            56899999999999985321 1111  11123445566777776544455677888777654444

>3b5x_A Lipid A export ATP-binding/permease protein MSBA; ABC transporter, lipid flippase, hydrolase, inner membrane, lipid transport, membrane; 5.50A {Vibrio cholerae}

Probab=98.72  E-value=3.7e-08  Score=93.55  Aligned_cols=62  Identities=21%  Similarity=0.303  Sum_probs=42.1

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCC-C-HHHHHHcCCCccceeE
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENAL-D-PSLAEAMGIDAENLLI  177 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~-~-~~~~~~~g~~~~~l~~  177 (264)
                      -+++|+++.|.||||||||||+..++....+..|.+.+-+.+... . ..+.+.+|+.+|+..+
T Consensus       365 ~i~~G~~~~ivG~sGsGKSTll~~l~g~~~p~~G~i~~~g~~~~~~~~~~~~~~i~~v~Q~~~l  428 (582)
T 3b5x_A          365 SIPQGKTVALVGRSGSGKSTIANLFTRFYDVDSGSICLDGHDVRDYKLTNLRRHFALVSQNVHL  428 (582)
T ss_pred             EECCCCEEEEECCCCCCHHHHHHHHhcCCCCCCCEEEECCEEhhhCCHHHHhcCeEEEcCCCcc
Confidence            378999999999999999999988887766666665543322211 1 1344557776665443

>2pjz_A Hypothetical protein ST1066; ATP binding protein, structural genomics, NPPSFA; 1.90A {Sulfolobus tokodaii}

Probab=98.72  E-value=3.5e-09  Score=90.79  Aligned_cols=69  Identities=20%  Similarity=0.107  Sum_probs=44.3

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCHHHHHHcC-CCccceeEeCCCCHHHHHHH
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMG-IDAENLLIAQPDSAENLLSV  189 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~~~~~~~g-~~~~~l~~~~~~~~ee~~~~  189 (264)
                      -++ |+++.|.||||||||||+..++... +..+.+.+...+...... .+.+| +.+++..+  ..++.+.+..
T Consensus        27 ~i~-Ge~~~i~G~NGsGKSTLlk~l~Gl~-p~~G~I~~~g~~~~~~~~-~~~i~~~v~Q~~~l--~~tv~enl~~   96 (263)
T 2pjz_A           27 EVN-GEKVIILGPNGSGKTTLLRAISGLL-PYSGNIFINGMEVRKIRN-YIRYSTNLPEAYEI--GVTVNDIVYL   96 (263)
T ss_dssp             EEC-SSEEEEECCTTSSHHHHHHHHTTSS-CCEEEEEETTEEGGGCSC-CTTEEECCGGGSCT--TSBHHHHHHH
T ss_pred             EEC-CEEEEEECCCCCCHHHHHHHHhCCC-CCCcEEEECCEECcchHH-hhheEEEeCCCCcc--CCcHHHHHHH
Confidence            378 9999999999999999998888776 555555442211110011 23577 77776554  4556555543

>4gp7_A Metallophosphoesterase; polynucleotide kinase phosphatase, RNA repair, transferase; HET: ATP CIT; 2.00A {Clostridium thermocellum} PDB: 4gp6_A*

Probab=98.72  E-value=4.4e-09  Score=84.10  Aligned_cols=23  Identities=35%  Similarity=0.572  Sum_probs=21.4

Q ss_pred             CCCCcEEEEEecCCCChHHHHHH
Q 024705          117 LPKGRIVEIYGREASGKTTLALH  139 (264)
Q Consensus       117 l~~G~~~~I~G~~GsGKTtl~~~  139 (264)
                      +++|+++.|.||||||||||+..
T Consensus         6 i~~gei~~l~G~nGsGKSTl~~~   28 (171)
T 4gp7_A            6 IPELSLVVLIGSSGSGKSTFAKK   28 (171)
T ss_dssp             EESSEEEEEECCTTSCHHHHHHH
T ss_pred             CCCCEEEEEECCCCCCHHHHHHH
Confidence            57899999999999999999984

>1yqt_A RNAse L inhibitor; ATP-binding cassette, ribosome biogenesis, hydrolyase/translation complex; HET: ADP; 1.90A {Pyrococcus furiosus}

Probab=98.71  E-value=7.6e-08  Score=90.51  Aligned_cols=51  Identities=10%  Similarity=0.065  Sum_probs=36.8

Q ss_pred             CCccEEEEcCccccccccccCCCcCCCCcHHHHHHHHHHHHHHHHHHhccCcEEEEEcccchHhhhcC
Q 024705          197 GSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVKVLLLKHF  264 (264)
Q Consensus       197 ~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r~i~~~L~~l~~~l~~~g~tVi~i~h~~~~~~~~~  264 (264)
                      .+|+++++|..++-+.             ...++.+.+.|+++.   + .|+|||+++|....+...|
T Consensus       175 ~~P~lLlLDEPTs~LD-------------~~~~~~l~~~L~~l~---~-~g~tvi~vsHd~~~~~~~~  225 (538)
T 1yqt_A          175 RNATFYFFDEPSSYLD-------------IRQRLNAARAIRRLS---E-EGKSVLVVEHDLAVLDYLS  225 (538)
T ss_dssp             SCCSEEEEESTTTTCC-------------HHHHHHHHHHHHHHH---H-TTCEEEEECSCHHHHHHHC
T ss_pred             cCCCEEEEECCcccCC-------------HHHHHHHHHHHHHHH---h-cCCEEEEEeCCHHHHHHhC
Confidence            5889999998776652             244455666777664   3 5999999999988776543

>3bk7_A ABC transporter ATP-binding protein; ABC ATPase, iron-sulfur cluster, adenosine diphosphate, nucleotide-binding; HET: ADP; 2.80A {Pyrococcus abyssi} PDB: 3j15_B*

Probab=98.70  E-value=8.2e-08  Score=91.45  Aligned_cols=129  Identities=18%  Similarity=0.204  Sum_probs=76.4

Q ss_pred             CCCCcEEEEEecCCCChHHHHHHHHHHHhhcCC------eEEEEecCCCCCH-----HHH------------------HH
Q 024705          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGG------YCAYLDVENALDP-----SLA------------------EA  167 (264)
Q Consensus       117 l~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~------~v~~~~~e~~~~~-----~~~------------------~~  167 (264)
                      +++|+++.|.||||+|||||+..++....+..+      ++.|+..+.....     ...                  +.
T Consensus       379 v~~Gei~~i~G~NGsGKSTLlk~l~Gl~~p~~G~I~~~~~i~~v~Q~~~~~~~~tv~e~~~~~~~~~~~~~~~~~~~l~~  458 (607)
T 3bk7_A          379 IRKGEVIGIVGPNGIGKTTFVKMLAGVEEPTEGKVEWDLTVAYKPQYIKAEYEGTVYELLSKIDSSKLNSNFYKTELLKP  458 (607)
T ss_dssp             EETTCEEEEECCTTSSHHHHHHHHHTSSCCSBSCCCCCCCEEEECSSCCCCCSSBHHHHHHHHHHHHHHCHHHHHHTHHH
T ss_pred             cCCCCEEEEECCCCCCHHHHHHHHhcCCCCCceEEEEeeEEEEEecCccCCCCCcHHHHHHhhhccCCCHHHHHHHHHHH
Confidence            468999999999999999999888875544332      3556655432210     000                  01


Q ss_pred             cCCCccceeEeCCCCHHH--HHHHHHHHhhcCCccEEEEcCccccccccccCCCcCCCCcHHHHHHHHHHHHHHHHHHhc
Q 024705          168 MGIDAENLLIAQPDSAEN--LLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQ  245 (264)
Q Consensus       168 ~g~~~~~l~~~~~~~~ee--~~~~i~~~~~~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r~i~~~L~~l~~~l~~  245 (264)
                      +|+....-......+.-+  -+.+.+.+  ..+++++++|..++-..             ...+..+.+.|++++   ++
T Consensus       459 ~~l~~~~~~~~~~LSGGe~QRv~iAraL--~~~p~lLlLDEPt~~LD-------------~~~~~~l~~~l~~l~---~~  520 (607)
T 3bk7_A          459 LGIIDLYDRNVEDLSGGELQRVAIAATL--LRDADIYLLDEPSAYLD-------------VEQRLAVSRAIRHLM---EK  520 (607)
T ss_dssp             HTCTTTTTSBGGGCCHHHHHHHHHHHHH--TSCCSEEEEECTTTTCC-------------HHHHHHHHHHHHHHH---HH
T ss_pred             cCCchHhcCChhhCCHHHHHHHHHHHHH--HhCCCEEEEeCCccCCC-------------HHHHHHHHHHHHHHH---Hh
Confidence            122100000011122222  22333333  25789999998776652             244555666777765   66


Q ss_pred             cCcEEEEEcccchHhhhc
Q 024705          246 SHTLIIFLNQVKVLLLKH  263 (264)
Q Consensus       246 ~g~tVi~i~h~~~~~~~~  263 (264)
                      .|.|||+++|....+...
T Consensus       521 ~g~tvi~vsHd~~~~~~~  538 (607)
T 3bk7_A          521 NEKTALVVEHDVLMIDYV  538 (607)
T ss_dssp             TTCEEEEECSCHHHHHHH
T ss_pred             CCCEEEEEeCCHHHHHHh
Confidence            799999999998877643

>3qf4_B Uncharacterized ABC transporter ATP-binding prote TM_0288; multidrug transporter, transport protein; HET: ANP; 2.90A {Thermotoga maritima}

Probab=98.70  E-value=2.7e-08  Score=94.75  Aligned_cols=60  Identities=23%  Similarity=0.316  Sum_probs=39.8

Q ss_pred             CCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCC---CCHHHHHHcCCCccceeE
Q 024705          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENA---LDPSLAEAMGIDAENLLI  177 (264)
Q Consensus       117 l~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~---~~~~~~~~~g~~~~~l~~  177 (264)
                      +++|+.+.|.||||||||||+..++....+..|.+ +++....   ....+.+.+|+.+|+..+
T Consensus       378 i~~G~~~~ivG~sGsGKSTll~~l~g~~~p~~G~i-~~~g~~i~~~~~~~~r~~i~~v~Q~~~l  440 (598)
T 3qf4_B          378 IKPGQKVALVGPTGSGKTTIVNLLMRFYDVDRGQI-LVDGIDIRKIKRSSLRSSIGIVLQDTIL  440 (598)
T ss_dssp             CCTTCEEEEECCTTSSTTHHHHHHTTSSCCSEEEE-EETTEEGGGSCHHHHHHHEEEECTTCCC
T ss_pred             EcCCCEEEEECCCCCcHHHHHHHHhcCcCCCCeEE-EECCEEhhhCCHHHHHhceEEEeCCCcc
Confidence            78999999999999999998888776655544444 4433211   112345567776665443

>4b4t_L 26S protease subunit RPT4; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.69  E-value=1.3e-07  Score=86.38  Aligned_cols=125  Identities=18%  Similarity=0.134  Sum_probs=75.7

Q ss_pred             CCCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCHHHHHHcCCCccceeEeCCCCHHHHHHHHHHHh
Q 024705          115 GGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLT  194 (264)
Q Consensus       115 gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~~~~~~~g~~~~~l~~~~~~~~ee~~~~i~~~~  194 (264)
                      .|+++..-++++||||+|||+++..++..+   +...++++...-....                .-..+..+..+-...
T Consensus       210 ~g~~~prGvLL~GPPGtGKTllAkAiA~e~---~~~~~~v~~s~l~sk~----------------~Gese~~ir~~F~~A  270 (437)
T 4b4t_L          210 VGIKPPKGVLLYGPPGTGKTLLAKAVAATI---GANFIFSPASGIVDKY----------------IGESARIIREMFAYA  270 (437)
T ss_dssp             HCCCCCCEEEEESCTTSSHHHHHHHHHHHH---TCEEEEEEGGGTCCSS----------------SSHHHHHHHHHHHHH
T ss_pred             CCCCCCCeEEEECCCCCcHHHHHHHHHHHh---CCCEEEEehhhhcccc----------------chHHHHHHHHHHHHH
Confidence            468888889999999999999999999865   5566666643322110                011233333333344


Q ss_pred             hcCCccEEEEcCccccccccccCCCcCCCCcHHHHHHHHHHHHHHHHHHhccCcEEEEEcccchHhh
Q 024705          195 KSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVKVLLL  261 (264)
Q Consensus       195 ~~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r~i~~~L~~l~~~l~~~g~tVi~i~h~~~~~~  261 (264)
                      ....+.+++||.+.++.+...-.+   ...+....+.+..+|..+-..-...++.||.+|+.-+.++
T Consensus       271 ~~~~P~IifiDEiDai~~~R~~~~---~~~~~~~~~~l~~lL~~lDg~~~~~~vivI~ATNrp~~LD  334 (437)
T 4b4t_L          271 KEHEPCIIFMDEVDAIGGRRFSEG---TSADREIQRTLMELLTQMDGFDNLGQTKIIMATNRPDTLD  334 (437)
T ss_dssp             HHSCSEEEEEECCCSSSCCCSSSC---CSSTTHHHHHHHHHHHHHHSSSCTTSSEEEEEESSTTSSC
T ss_pred             HhcCCceeeeecccccccccccCC---CCcchHHHHHHHHHHHHhhcccCCCCeEEEEecCCchhhC
Confidence            456899999999999985322111   1112234445566666664333345677777666544443

>3b60_A Lipid A export ATP-binding/permease protein MSBA; ABC transporter, lipid flippase, hydrolase, inner membrane, lipid transport, membrane; HET: ANP; 3.70A {Salmonella typhimurium} SCOP: c.37.1.12 f.37.1.1 PDB: 3b5y_A* 3b5z_A* 3b5w_A

Probab=98.69  E-value=3.8e-08  Score=93.44  Aligned_cols=61  Identities=25%  Similarity=0.375  Sum_probs=41.5

Q ss_pred             CCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCC--C-HHHHHHcCCCccceeEe
Q 024705          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENAL--D-PSLAEAMGIDAENLLIA  178 (264)
Q Consensus       117 l~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~--~-~~~~~~~g~~~~~l~~~  178 (264)
                      +++|+.+.|.||||||||||+..++....+..|.+ +++.....  . ..+.+.+|+.+|+..++
T Consensus       366 i~~G~~~~ivG~sGsGKSTLl~~l~g~~~p~~G~i-~~~g~~~~~~~~~~~~~~i~~v~Q~~~l~  429 (582)
T 3b60_A          366 IPAGKTVALVGRSGSGKSTIASLITRFYDIDEGHI-LMDGHDLREYTLASLRNQVALVSQNVHLF  429 (582)
T ss_dssp             ECTTCEEEEEECTTSSHHHHHHHHTTTTCCSEEEE-EETTEETTTBCHHHHHHTEEEECSSCCCC
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhhccCCCCCeE-EECCEEccccCHHHHHhhCeEEccCCcCC
Confidence            78999999999999999998888877655444444 44432211  1 23455677777765444

>4b4t_K 26S protease regulatory subunit 6B homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.69  E-value=1.1e-07  Score=86.69  Aligned_cols=123  Identities=17%  Similarity=0.165  Sum_probs=76.4

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCHHHHHHcCCCccceeEeCCCCHHHHHHHHHHHhh
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTK  195 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~~~~~~~g~~~~~l~~~~~~~~ee~~~~i~~~~~  195 (264)
                      |+++..-++++||||+|||+++..+|..+   +...+.++...-....                .-..+..+..+-...+
T Consensus       202 g~~~prGiLL~GPPGtGKT~lakAiA~~~---~~~~~~v~~~~l~~~~----------------~Ge~e~~ir~lF~~A~  262 (428)
T 4b4t_K          202 GIDPPRGVLLYGPPGTGKTMLVKAVANST---KAAFIRVNGSEFVHKY----------------LGEGPRMVRDVFRLAR  262 (428)
T ss_dssp             CCCCCCEEEEESCTTTTHHHHHHHHHHHH---TCEEEEEEGGGTCCSS----------------CSHHHHHHHHHHHHHH
T ss_pred             CCCCCceEEEECCCCCCHHHHHHHHHHHh---CCCeEEEecchhhccc----------------cchhHHHHHHHHHHHH
Confidence            67777779999999999999999998865   5566666643321110                0011222222222333


Q ss_pred             cCCccEEEEcCccccccccccCCCcCCCCcHHHHHHHHHHHHHHHHHHhccCcEEEEEcccchHh
Q 024705          196 SGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVKVLL  260 (264)
Q Consensus       196 ~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r~i~~~L~~l~~~l~~~g~tVi~i~h~~~~~  260 (264)
                      ...|.+++||.+..+.+......   ...+....+.++.+|..+.......|+.||++|+.-+.+
T Consensus       263 ~~aP~IifiDEiD~i~~~R~~~~---~~~~~~~~r~l~~lL~~ldg~~~~~~v~vI~aTN~~~~L  324 (428)
T 4b4t_K          263 ENAPSIIFIDEVDSIATKRFDAQ---TGSDREVQRILIELLTQMDGFDQSTNVKVIMATNRADTL  324 (428)
T ss_dssp             HTCSEEEEEECTHHHHCSCSSSC---SCCCCHHHHHHHHHHHHHHHSCSSCSEEEEEEESCSSSC
T ss_pred             HcCCCeeechhhhhhhccccCCC---CCCChHHHHHHHHHHHHhhCCCCCCCEEEEEecCChhhc
Confidence            46789999999999885321111   112224456677777777655556678888777655444

>4b4t_I 26S protease regulatory subunit 4 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.67  E-value=2.4e-07  Score=84.17  Aligned_cols=125  Identities=15%  Similarity=0.102  Sum_probs=76.4

Q ss_pred             CCCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCHHHHHHcCCCccceeEeCCCCHHHHHHHHHHHh
Q 024705          115 GGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLT  194 (264)
Q Consensus       115 gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~~~~~~~g~~~~~l~~~~~~~~ee~~~~i~~~~  194 (264)
                      .|+++..-++++||||+|||+++..+|..+   +...+.++...-...                ..-..+..+..+-...
T Consensus       211 ~Gi~~prGvLLyGPPGTGKTlLAkAiA~e~---~~~fi~v~~s~l~sk----------------~vGesek~ir~lF~~A  271 (437)
T 4b4t_I          211 MGIKPPKGVILYGAPGTGKTLLAKAVANQT---SATFLRIVGSELIQK----------------YLGDGPRLCRQIFKVA  271 (437)
T ss_dssp             HTCCCCSEEEEESSTTTTHHHHHHHHHHHH---TCEEEEEESGGGCCS----------------SSSHHHHHHHHHHHHH
T ss_pred             CCCCCCCCCceECCCCchHHHHHHHHHHHh---CCCEEEEEHHHhhhc----------------cCchHHHHHHHHHHHH
Confidence            467777779999999999999999999865   455555553221111                0111233343333344


Q ss_pred             hcCCccEEEEcCccccccccccCCCcCCCCcHHHHHHHHHHHHHHHHHHhccCcEEEEEcccchHhh
Q 024705          195 KSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVKVLLL  261 (264)
Q Consensus       195 ~~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r~i~~~L~~l~~~l~~~g~tVi~i~h~~~~~~  261 (264)
                      +...+.+++||.+.++.+.....+..   .+....+.+...|..+-..-...++.||.+|+.-+.++
T Consensus       272 r~~aP~IIfiDEiDai~~~R~~~~~~---~~~~~~~~l~~LL~~lDg~~~~~~ViVIaATNrpd~LD  335 (437)
T 4b4t_I          272 GENAPSIVFIDEIDAIGTKRYDSNSG---GEREIQRTMLELLNQLDGFDDRGDVKVIMATNKIETLD  335 (437)
T ss_dssp             HHTCSEEEEEEEESSSSCCCSCSSCS---SCCHHHHHHHHHHHHHHHCCCSSSEEEEEEESCSTTCC
T ss_pred             HhcCCcEEEEehhhhhcccCCCCCCC---ccHHHHHHHHHHHHHhhCcCCCCCEEEEEeCCChhhcC
Confidence            45689999999999998532211111   11234455666666665443445778887776655554

>3e70_C DPA, signal recognition particle receptor; FTSY, SRP-GTPase, protein-targeting, transport protein; HET: GDP; 1.97A {Pyrococcus furiosus} PDB: 3dmd_B 3dm9_B*

Probab=98.67  E-value=3.8e-08  Score=86.92  Aligned_cols=54  Identities=19%  Similarity=0.165  Sum_probs=43.5

Q ss_pred             CCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCH------HHHHHcCCC
Q 024705          118 PKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP------SLAEAMGID  171 (264)
Q Consensus       118 ~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~------~~~~~~g~~  171 (264)
                      ++|+++.|.|||||||||++..++....+.++++.+.+.+.....      .+++++|+.
T Consensus       127 ~~g~vi~lvG~nGaGKTTll~~Lag~l~~~~g~V~l~g~D~~r~~a~eql~~~~~~~gv~  186 (328)
T 3e70_C          127 EKPYVIMFVGFNGSGKTTTIAKLANWLKNHGFSVVIAASDTFRAGAIEQLEEHAKRIGVK  186 (328)
T ss_dssp             CSSEEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEEECCSSTTHHHHHHHHHHHTTCE
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHHhcCCEEEEEeecccccchHHHHHHHHHHcCce
Confidence            579999999999999999999999998888999999887754322      235566643

>3ozx_A RNAse L inhibitor; ATP binding cassette protein, hydrolase, translation; HET: ADP; 2.05A {Sulfolobus solfataricus}

Probab=98.67  E-value=2.9e-08  Score=93.31  Aligned_cols=34  Identities=24%  Similarity=0.242  Sum_probs=27.4

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCC
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGG  149 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~  149 (264)
                      -.++|+++.|.||||||||||+..++....+..+
T Consensus        21 ~~~~Gei~gLiGpNGaGKSTLlkiL~Gl~~p~~G   54 (538)
T 3ozx_A           21 TPKNNTILGVLGKNGVGKTTVLKILAGEIIPNFG   54 (538)
T ss_dssp             CCCTTEEEEEECCTTSSHHHHHHHHTTSSCCCTT
T ss_pred             CCCCCCEEEEECCCCCcHHHHHHHHhcCCCCCCC
Confidence            3568999999999999999998888775544333

>2orw_A Thymidine kinase; TMTK, TP4A, transferase; HET: 4TA; 1.50A {Thermotoga maritima} PDB: 2qpo_A 2qq0_A* 2qqe_A*

Probab=98.66  E-value=3.5e-08  Score=80.01  Aligned_cols=110  Identities=15%  Similarity=0.161  Sum_probs=66.5

Q ss_pred             CCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCC---HHHHHHcCCCccceeEeCCCCHHHHHHHHHHHhh
Q 024705          119 KGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALD---PSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTK  195 (264)
Q Consensus       119 ~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~---~~~~~~~g~~~~~l~~~~~~~~ee~~~~i~~~~~  195 (264)
                      +|.+++++||+|+||||++++++..+...|.+++++.......   .....+.|.......+   .+.+++.+.+    .
T Consensus         2 ~g~i~vi~G~~gsGKTT~ll~~~~~~~~~g~~v~~~~~~~d~r~~~~~i~s~~g~~~~~~~~---~~~~~~~~~~----~   74 (184)
T 2orw_A            2 SGKLTVITGPMYSGKTTELLSFVEIYKLGKKKVAVFKPKIDSRYHSTMIVSHSGNGVEAHVI---ERPEEMRKYI----E   74 (184)
T ss_dssp             CCCEEEEEESTTSSHHHHHHHHHHHHHHTTCEEEEEEEC-----CCCEECC----CEECEEE---SSGGGGGGGC----C
T ss_pred             ccEEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEeeccccccCcccEEecCCCceeeEEE---CCHHHHHHHh----c
Confidence            4789999999999999999999999988888998886543211   0111223333222222   1222222211    1


Q ss_pred             cCCccEEEEcCccccccccccCCCcCCCCcHHHHHHHHHHHHHHHHHHhccCcEEEEEcccch
Q 024705          196 SGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVKV  258 (264)
Q Consensus       196 ~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r~i~~~L~~l~~~l~~~g~tVi~i~h~~~  258 (264)
                       .+.++|+||+++.+.+              .    +...+..+.   .+ |+.|+++.+..+
T Consensus        75 -~~~dvviIDE~Q~~~~--------------~----~~~~l~~l~---~~-~~~Vi~~Gl~~~  114 (184)
T 2orw_A           75 -EDTRGVFIDEVQFFNP--------------S----LFEVVKDLL---DR-GIDVFCAGLDLT  114 (184)
T ss_dssp             -TTEEEEEECCGGGSCT--------------T----HHHHHHHHH---HT-TCEEEEEEESBC
T ss_pred             -CCCCEEEEECcccCCH--------------H----HHHHHHHHH---HC-CCCEEEEeeccc
Confidence             3678999999997642              1    123455553   44 899998877554

>3gd7_A Fusion complex of cystic fibrosis transmembrane conductance regulator, residues 1193-1427...; CFTR, ABC transporter, nucleotide binding domain, NBD; HET: B44; 2.70A {Homo sapiens}

Probab=98.66  E-value=2.6e-08  Score=89.93  Aligned_cols=61  Identities=23%  Similarity=0.300  Sum_probs=41.8

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCC--CH-HHHHHcCCCccceeEe
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENAL--DP-SLAEAMGIDAENLLIA  178 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~--~~-~~~~~~g~~~~~l~~~  178 (264)
                      -+++|+++.|.||||||||||+..++.... ..+ -++++.....  .. .+.+.+|+.+|+..++
T Consensus        43 ~i~~Ge~~~llGpsGsGKSTLLr~iaGl~~-~~G-~I~i~G~~i~~~~~~~~rr~ig~v~Q~~~lf  106 (390)
T 3gd7_A           43 SISPGQRVGLLGRTGSGKSTLLSAFLRLLN-TEG-EIQIDGVSWDSITLEQWRKAFGVIPQKVFIF  106 (390)
T ss_dssp             EECTTCEEEEEESTTSSHHHHHHHHHTCSE-EEE-EEEESSCBTTSSCHHHHHHTEEEESCCCCCC
T ss_pred             EEcCCCEEEEECCCCChHHHHHHHHhCCCC-CCe-EEEECCEECCcCChHHHhCCEEEEcCCcccC
Confidence            378999999999999999999888876543 444 4455443221  12 3456688887765544

>1rj9_A FTSY, signal recognition protein; SRP-GTPase domain, heterodimer, nucleotide twinning, protein complex, protein transport; HET: GCP; 1.90A {Thermus aquaticus} SCOP: a.24.13.1 c.37.1.10 PDB: 2q9c_A* 2q9b_A* 2q9a_A* 1okk_D* 2xkv_D 2iyl_D* 2cnw_D* 2j7p_D*

Probab=98.64  E-value=7.2e-08  Score=84.28  Aligned_cols=41  Identities=29%  Similarity=0.355  Sum_probs=36.7

Q ss_pred             CCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCC
Q 024705          119 KGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENA  159 (264)
Q Consensus       119 ~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~  159 (264)
                      +|+++.|.|||||||||++..++....+.+++|.+.+.+..
T Consensus       101 ~g~vi~lvG~nGsGKTTll~~Lagll~~~~g~V~l~g~D~~  141 (304)
T 1rj9_A          101 KGRVVLVVGVNGVGKTTTIAKLGRYYQNLGKKVMFCAGDTF  141 (304)
T ss_dssp             SSSEEEEECSTTSSHHHHHHHHHHHHHTTTCCEEEECCCCS
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHHHhcCCEEEEEeecCC
Confidence            68999999999999999999999998888889988877643

>2pze_A Cystic fibrosis transmembrane conductance regulat; NBD, ABC transporter, CFTR, hydrolase; HET: ATP; 1.70A {Homo sapiens} PDB: 2pzg_A* 2pzf_A* 1ckx_A 1cky_A 1ckw_A 1ckz_A

Probab=98.64  E-value=2.1e-08  Score=84.18  Aligned_cols=35  Identities=23%  Similarity=0.507  Sum_probs=28.3

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCe
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGY  150 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~  150 (264)
                      -+++|+++.|.||||||||||+..++....+..+.
T Consensus        30 ~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~p~~G~   64 (229)
T 2pze_A           30 KIERGQLLAVAGSTGAGKTSLLMMIMGELEPSEGK   64 (229)
T ss_dssp             EEETTCEEEEECCTTSSHHHHHHHHTTSSCCSEEE
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhCCCcCCccE
Confidence            37899999999999999999988887765444333

>4a82_A Cystic fibrosis transmembrane conductance regulat; CFTR, ION channel, transport protein, casse protein; 2.00A {Homo sapiens} PDB: 2onj_A* 2hyd_A

Probab=98.63  E-value=2.5e-08  Score=94.68  Aligned_cols=61  Identities=25%  Similarity=0.339  Sum_probs=40.8

Q ss_pred             CCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCC---CCHHHHHHcCCCccceeEe
Q 024705          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENA---LDPSLAEAMGIDAENLLIA  178 (264)
Q Consensus       117 l~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~---~~~~~~~~~g~~~~~l~~~  178 (264)
                      +++|+++.|.||||||||||+..++....+..|.+ +++...-   ....+.+.+|+.+|+..++
T Consensus       364 i~~G~~~~ivG~sGsGKSTll~~l~g~~~p~~G~i-~~~g~~~~~~~~~~~r~~i~~v~Q~~~l~  427 (578)
T 4a82_A          364 IEKGETVAFVGMSGGGKSTLINLIPRFYDVTSGQI-LIDGHNIKDFLTGSLRNQIGLVQQDNILF  427 (578)
T ss_dssp             ECTTCEEEEECSTTSSHHHHHTTTTTSSCCSEEEE-EETTEEGGGSCHHHHHHTEEEECSSCCCC
T ss_pred             ECCCCEEEEECCCCChHHHHHHHHhcCCCCCCcEE-EECCEEhhhCCHHHHhhheEEEeCCCccC
Confidence            78999999999999999998887776655544444 4433211   1123455677777665443

>3qf4_A ABC transporter, ATP-binding protein; multidrug transporter, transport protein; HET: ANP; 2.90A {Thermotoga maritima}

Probab=98.63  E-value=2.8e-08  Score=94.43  Aligned_cols=61  Identities=18%  Similarity=0.239  Sum_probs=41.2

Q ss_pred             CCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCC--C-HHHHHHcCCCccceeEe
Q 024705          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENAL--D-PSLAEAMGIDAENLLIA  178 (264)
Q Consensus       117 l~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~--~-~~~~~~~g~~~~~l~~~  178 (264)
                      +++|+.+.|.||||||||||+..++....+..|.+ +++.....  . ..+.+.+++.+|+..++
T Consensus       366 i~~Ge~~~ivG~sGsGKSTll~~l~g~~~~~~G~i-~i~g~~i~~~~~~~~r~~i~~v~Q~~~lf  429 (587)
T 3qf4_A          366 VKPGSLVAVLGETGSGKSTLMNLIPRLIDPERGRV-EVDELDVRTVKLKDLRGHISAVPQETVLF  429 (587)
T ss_dssp             ECTTCEEEEECSSSSSHHHHHHTTTTSSCCSEEEE-EESSSBGGGBCHHHHHHHEEEECSSCCCC
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhCCccCCCcEE-EECCEEcccCCHHHHHhheEEECCCCcCc
Confidence            78999999999999999998887776555444444 44433211  1 13456678777765443

>3j16_B RLI1P; ribosome recycling, translation, eukarya, ribosome; HET: ATP; 7.20A {Saccharomyces cerevisiae}

Probab=98.63  E-value=3.7e-08  Score=93.82  Aligned_cols=34  Identities=18%  Similarity=0.221  Sum_probs=27.8

Q ss_pred             CCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCe
Q 024705          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGY  150 (264)
Q Consensus       117 l~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~  150 (264)
                      +++|+++.|.||||+|||||+..++....+..+.
T Consensus       100 ~~~Gei~~LvGpNGaGKSTLLkiL~Gll~P~~G~  133 (608)
T 3j16_B          100 PRPGQVLGLVGTNGIGKSTALKILAGKQKPNLGR  133 (608)
T ss_dssp             CCTTSEEEEECCTTSSHHHHHHHHHTSSCCCTTT
T ss_pred             CCCCCEEEEECCCCChHHHHHHHHhcCCCCCCce
Confidence            5789999999999999999988887755444443

>3bk7_A ABC transporter ATP-binding protein; ABC ATPase, iron-sulfur cluster, adenosine diphosphate, nucleotide-binding; HET: ADP; 2.80A {Pyrococcus abyssi} PDB: 3j15_B*

Probab=98.62  E-value=1.8e-07  Score=89.12  Aligned_cols=50  Identities=8%  Similarity=0.097  Sum_probs=36.4

Q ss_pred             CCccEEEEcCccccccccccCCCcCCCCcHHHHHHHHHHHHHHHHHHhccCcEEEEEcccchHhhhc
Q 024705          197 GSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVKVLLLKH  263 (264)
Q Consensus       197 ~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r~i~~~L~~l~~~l~~~g~tVi~i~h~~~~~~~~  263 (264)
                      .+|+++++|..++.+.             ...+..+.+.|+++.   + .|.|||+++|....+...
T Consensus       245 ~~P~lLlLDEPTs~LD-------------~~~~~~l~~~L~~l~---~-~g~tvIivsHdl~~~~~~  294 (607)
T 3bk7_A          245 RKAHFYFFDEPSSYLD-------------IRQRLKVARVIRRLA---N-EGKAVLVVEHDLAVLDYL  294 (607)
T ss_dssp             SCCSEEEEECTTTTCC-------------HHHHHHHHHHHHHHH---H-TTCEEEEECSCHHHHHHH
T ss_pred             cCCCEEEEECCcccCC-------------HHHHHHHHHHHHHHH---h-cCCEEEEEecChHHHHhh
Confidence            5789999998776652             244555666777764   3 499999999998876543

>1j8m_F SRP54, signal recognition 54 kDa protein; signaling protein; 2.00A {Acidianus ambivalens} SCOP: a.24.13.1 c.37.1.10 PDB: 1j8y_F

Probab=98.61  E-value=2.5e-07  Score=80.61  Aligned_cols=107  Identities=17%  Similarity=0.147  Sum_probs=73.2

Q ss_pred             cccCcHHHHHHhcCCCCCC-------CcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCH------HHHHH
Q 024705          101 ISTGSLKLDLALGIGGLPK-------GRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP------SLAEA  167 (264)
Q Consensus       101 i~tG~~~LD~~l~~gGl~~-------G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~------~~~~~  167 (264)
                      ++.+..+|...++ ++..+       |.++.+.|++|+||||++.+++..+...|+++++++.+.....      .+++.
T Consensus        73 ~~~~~~~l~~~~~-~~~~~~i~~~~~~~vi~i~G~~G~GKTT~~~~la~~~~~~g~~v~l~~~D~~r~~a~~ql~~~~~~  151 (297)
T 1j8m_F           73 IKIVYDELSNLFG-GDKEPKVIPDKIPYVIMLVGVQGTGKTTTAGKLAYFYKKKGFKVGLVGADVYRPAALEQLQQLGQQ  151 (297)
T ss_dssp             HHHHHHHHHHHTT-CSCCCCCSCSSSSEEEEEECSSCSSTTHHHHHHHHHHHHTTCCEEEEECCCSSSHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhc-cccccccccCCCCeEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEecCCCCHHHHHHHHHHhcc
Confidence            4567778888887 55333       8899999999999999999999999989999999998875543      12444


Q ss_pred             cCCCccceeEeCCCCHHHHHHHHHHHhhcCCccEEEEcCcccc
Q 024705          168 MGIDAENLLIAQPDSAENLLSVVDTLTKSGSIDVIVVDSVAAL  210 (264)
Q Consensus       168 ~g~~~~~l~~~~~~~~ee~~~~i~~~~~~~~~~~vvIDsl~~~  210 (264)
                      .|++.-.  .....++.+++.......+..++++|+||+....
T Consensus       152 ~~v~v~~--~~~~~~p~~~~~~~l~~~~~~~~D~ViIDTpg~~  192 (297)
T 1j8m_F          152 IGVPVYG--EPGEKDVVGIAKRGVEKFLSEKMEIIIVDTAGRH  192 (297)
T ss_dssp             HTCCEEC--CTTCCCHHHHHHHHHHHHHHTTCSEEEEECCCSC
T ss_pred             CCeEEEe--cCCCCCHHHHHHHHHHHHHhCCCCEEEEeCCCCc
Confidence            5554211  0012345555433323333357899999986544

>2cbz_A Multidrug resistance-associated protein 1; ABC proteins, MRP1/ABCC1, nucleotide-binding domain, ATP- binding, hydrolysis, transport; HET: ATP; 1.5A {Homo sapiens}

Probab=98.60  E-value=3.1e-08  Score=83.54  Aligned_cols=36  Identities=28%  Similarity=0.577  Sum_probs=28.9

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeE
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYC  151 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v  151 (264)
                      -+++|+++.|.||||||||||+..++....+..+.+
T Consensus        27 ~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~p~~G~I   62 (237)
T 2cbz_A           27 SIPEGALVAVVGQVGCGKSSLLSALLAEMDKVEGHV   62 (237)
T ss_dssp             EECTTCEEEEECSTTSSHHHHHHHHTTCSEEEEEEE
T ss_pred             EECCCCEEEEECCCCCCHHHHHHHHhcCCCCCCceE
Confidence            478999999999999999999888877654444433

>4b4t_M 26S protease regulatory subunit 6A; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.59  E-value=1.5e-07  Score=85.91  Aligned_cols=125  Identities=16%  Similarity=0.117  Sum_probs=73.4

Q ss_pred             CCCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCHHHHHHcCCCccceeEeCCCCHHHHHHHHHHHh
Q 024705          115 GGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLT  194 (264)
Q Consensus       115 gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~~~~~~~g~~~~~l~~~~~~~~ee~~~~i~~~~  194 (264)
                      .|+++..-++++||||+|||+++..++..+   +...+.++...-....                .-..+..+..+-...
T Consensus       210 ~g~~~prGvLLyGPPGTGKTllAkAiA~e~---~~~f~~v~~s~l~~~~----------------vGese~~ir~lF~~A  270 (434)
T 4b4t_M          210 MGIRAPKGALMYGPPGTGKTLLARACAAQT---NATFLKLAAPQLVQMY----------------IGEGAKLVRDAFALA  270 (434)
T ss_dssp             HCCCCCCEEEEESCTTSSHHHHHHHHHHHH---TCEEEEEEGGGGCSSC----------------SSHHHHHHHHHHHHH
T ss_pred             CCCCCCCeeEEECcCCCCHHHHHHHHHHHh---CCCEEEEehhhhhhcc----------------cchHHHHHHHHHHHH
Confidence            467777889999999999999999998865   5566666543211110                011233333333333


Q ss_pred             hcCCccEEEEcCccccccccccCCCcCCCCcHHHHHHHHHHHHHHHHHHhccCcEEEEEcccchHhh
Q 024705          195 KSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVKVLLL  261 (264)
Q Consensus       195 ~~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r~i~~~L~~l~~~l~~~g~tVi~i~h~~~~~~  261 (264)
                      ....|.+++||.+.++.+... .+.  ........+.+...|..+...-...++.||.+|+.-+.++
T Consensus       271 ~~~aP~IifiDEiDal~~~R~-~~~--~~~~~~~~~~~~~lL~~ldg~~~~~~ViVIaaTNrp~~LD  334 (434)
T 4b4t_M          271 KEKAPTIIFIDELDAIGTKRF-DSE--KSGDREVQRTMLELLNQLDGFSSDDRVKVLAATNRVDVLD  334 (434)
T ss_dssp             HHHCSEEEEEECTHHHHCCCS-SGG--GGTTHHHHHHHHHHHHHHTTSCSSCSSEEEEECSSCCCCC
T ss_pred             HhcCCeEEeecchhhhhhccC-CCC--CCCchHHHHHHHHHHHHhhccCCCCCEEEEEeCCCchhcC
Confidence            345789999999999875321 111  1111233344555666554333445778887776554443

>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=98.58  E-value=1.2e-07  Score=87.56  Aligned_cols=91  Identities=16%  Similarity=0.188  Sum_probs=57.0

Q ss_pred             CCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCH------HH--HHHcCCCccceeEeCCCCHHHHHH
Q 024705          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP------SL--AEAMGIDAENLLIAQPDSAENLLS  188 (264)
Q Consensus       117 l~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~------~~--~~~~g~~~~~l~~~~~~~~ee~~~  188 (264)
                      +.+|+++.|.|+|||||||++..++......+++|.+.+.+.....      .+  ...+++..++...   .....+.+
T Consensus       290 i~~GeVI~LVGpNGSGKTTLl~~LAgll~~~~G~V~l~g~D~~r~aa~eQL~~~~~r~~I~vV~Q~~~~---~p~~tV~e  366 (503)
T 2yhs_A          290 GKAPFVILMVGVNGVGKTTTIGKLARQFEQQGKSVMLAAGDTFRAAAVEQLQVWGQRNNIPVIAQHTGA---DSASVIFD  366 (503)
T ss_dssp             SCTTEEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEECCCTTCHHHHHHHHHHHHHHTCCEECCSTTC---CHHHHHHH
T ss_pred             ccCCeEEEEECCCcccHHHHHHHHHHHhhhcCCeEEEecCcccchhhHHHHHHHHHhcCceEEecccCc---CHHHHHHH
Confidence            5689999999999999999999999988888888888766543221      11  2223433333111   11112222


Q ss_pred             HHHHHhhcCCccEEEEcCccccc
Q 024705          189 VVDTLTKSGSIDVIVVDSVAALI  211 (264)
Q Consensus       189 ~i~~~~~~~~~~~vvIDsl~~~~  211 (264)
                      .+.... ..+.++++||......
T Consensus       367 ~l~~a~-~~~~DvVLIDTaGrl~  388 (503)
T 2yhs_A          367 AIQAAK-ARNIDVLIADTAGRLQ  388 (503)
T ss_dssp             HHHHHH-HTTCSEEEECCCCSCC
T ss_pred             HHHHHH-hcCCCEEEEeCCCccc
Confidence            222222 2578899999876643

>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding, nucleotide-binding, HY; HET: ADP; 3.11A {Methanocaldococcus jannaschii}

Probab=98.56  E-value=3.9e-07  Score=78.16  Aligned_cols=124  Identities=19%  Similarity=0.160  Sum_probs=70.0

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCHHHHHHcCCCccceeEeCCCCHHHHHHHHHHHhh
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTK  195 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~~~~~~~g~~~~~l~~~~~~~~ee~~~~i~~~~~  195 (264)
                      |+.++..++|+||||+|||+++..++..+   +..+++++........                ....+.....+.....
T Consensus        47 ~~~~~~~~ll~G~~GtGKT~la~~la~~~---~~~~~~v~~~~~~~~~----------------~~~~~~~~~~~~~~~~  107 (285)
T 3h4m_A           47 GIEPPKGILLYGPPGTGKTLLAKAVATET---NATFIRVVGSELVKKF----------------IGEGASLVKDIFKLAK  107 (285)
T ss_dssp             CCCCCSEEEEESSSSSSHHHHHHHHHHHT---TCEEEEEEGGGGCCCS----------------TTHHHHHHHHHHHHHH
T ss_pred             CCCCCCeEEEECCCCCcHHHHHHHHHHHh---CCCEEEEehHHHHHhc----------------cchHHHHHHHHHHHHH
Confidence            56777889999999999999999987753   5667676643221110                0111222222223334


Q ss_pred             cCCccEEEEcCccccccccccCCCcCCCCcHHHHHHHHHHHHHHHHHHhccCcEEEEEcccchHhh
Q 024705          196 SGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVKVLLL  261 (264)
Q Consensus       196 ~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r~i~~~L~~l~~~l~~~g~tVi~i~h~~~~~~  261 (264)
                      ...+.+++||.+..+.+... ....  ......++.+...+..+.......++.||++++....++
T Consensus       108 ~~~~~vl~iDEid~l~~~~~-~~~~--~~~~~~~~~l~~ll~~~~~~~~~~~~~vI~ttn~~~~l~  170 (285)
T 3h4m_A          108 EKAPSIIFIDEIDAIAAKRT-DALT--GGDREVQRTLMQLLAEMDGFDARGDVKIIGATNRPDILD  170 (285)
T ss_dssp             HTCSEEEEEETTHHHHBCCS-SSCC--GGGGHHHHHHHHHHHHHHTTCSSSSEEEEEECSCGGGBC
T ss_pred             HcCCeEEEEECHHHhcccCc-cccC--CccHHHHHHHHHHHHHhhCCCCCCCEEEEEeCCCchhcC
Confidence            45788999999999874221 1100  011123333444444442222334778888887665543

>3kl4_A SRP54, signal recognition 54 kDa protein; signal recognition particle, SRP, SRP54, FFH, signal sequenc peptide; 3.50A {Sulfolobus solfataricus} PDB: 1qzx_A 1qzw_A

Probab=98.55  E-value=1.2e-06  Score=80.09  Aligned_cols=101  Identities=19%  Similarity=0.200  Sum_probs=65.9

Q ss_pred             HHHHHHhcCCCC-------CCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCH------HHHHHcCCCc
Q 024705          106 LKLDLALGIGGL-------PKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP------SLAEAMGIDA  172 (264)
Q Consensus       106 ~~LD~~l~~gGl-------~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~------~~~~~~g~~~  172 (264)
                      .+|-.+++ ++-       .++.++.++|++|+||||++..++..+...|.+|++++.+.....      .+.+..|++.
T Consensus        77 ~eL~~~L~-~~~~~~~~~~~~~~vI~lvG~~GsGKTTt~~kLA~~l~~~G~kVllv~~D~~r~~a~eqL~~~~~~~gv~~  155 (433)
T 3kl4_A           77 DELSKLFG-GDKEPNVNPTKLPFIIMLVGVQGSGKTTTAGKLAYFYKKRGYKVGLVAADVYRPAAYDQLLQLGNQIGVQV  155 (433)
T ss_dssp             HHHHHHHC-SSSCCCCSCCSSSEEEEECCCTTSCHHHHHHHHHHHHHHTTCCEEEEEECCSCHHHHHHHHHHHHTTTCCE
T ss_pred             HHHHHhcC-ccccccccccCCCeEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEecCccchhHHHHHHHHHHhcCCce
Confidence            44555666 331       247899999999999999999999999999999999998864332      1234445432


Q ss_pred             cceeEeCCCCHHHHHHHHHHHhhcCCccEEEEcCccc
Q 024705          173 ENLLIAQPDSAENLLSVVDTLTKSGSIDVIVVDSVAA  209 (264)
Q Consensus       173 ~~l~~~~~~~~ee~~~~i~~~~~~~~~~~vvIDsl~~  209 (264)
                      -.  .....++.++...........++++++||....
T Consensus       156 ~~--~~~~~dp~~i~~~al~~a~~~~~DvvIIDTaGr  190 (433)
T 3kl4_A          156 YG--EPNNQNPIEIAKKGVDIFVKNKMDIIIVDTAGR  190 (433)
T ss_dssp             EC--CTTCSCHHHHHHHHHHHTTTTTCSEEEEEECCC
T ss_pred             ee--ccccCCHHHHHHHHHHHHHhcCCCEEEEECCCC
Confidence            11  111223444443333333345799999997753

>4b4t_H 26S protease regulatory subunit 7 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.55  E-value=3.7e-07  Score=83.60  Aligned_cols=124  Identities=12%  Similarity=0.081  Sum_probs=73.6

Q ss_pred             CCCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCHHHHHHcCCCccceeEeCCCCHHHHHHHHHHHh
Q 024705          115 GGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLT  194 (264)
Q Consensus       115 gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~~~~~~~g~~~~~l~~~~~~~~ee~~~~i~~~~  194 (264)
                      -|+++..-++++||||+|||+++..++..+   +...+.++...-....                .-..+..+..+-...
T Consensus       238 ~Gi~pprGILLyGPPGTGKTlLAkAiA~e~---~~~fi~vs~s~L~sk~----------------vGesek~ir~lF~~A  298 (467)
T 4b4t_H          238 LGIDPPKGILLYGPPGTGKTLCARAVANRT---DATFIRVIGSELVQKY----------------VGEGARMVRELFEMA  298 (467)
T ss_dssp             HTCCCCSEEEECSCTTSSHHHHHHHHHHHH---TCEEEEEEGGGGCCCS----------------SSHHHHHHHHHHHHH
T ss_pred             CCCCCCCceEeeCCCCCcHHHHHHHHHhcc---CCCeEEEEhHHhhccc----------------CCHHHHHHHHHHHHH
Confidence            367778889999999999999999998865   5556666543211110                011233333333333


Q ss_pred             hcCCccEEEEcCccccccccccCCCcCCCCcHHHHHHHHHHHHHHHHHHhccCcEEEEEcccchHh
Q 024705          195 KSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVKVLL  260 (264)
Q Consensus       195 ~~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r~i~~~L~~l~~~l~~~g~tVi~i~h~~~~~  260 (264)
                      ....+.+++||.+..+.....-.+   ........+.+...|..+.......++.||.+|+.-+.+
T Consensus       299 r~~aP~IIfiDEiDai~~~R~~~~---~~~~~~~~~~l~~lL~~lDg~~~~~~ViVIaATNrpd~L  361 (467)
T 4b4t_H          299 RTKKACIIFFDEIDAVGGARFDDG---AGGDNEVQRTMLELITQLDGFDPRGNIKVMFATNRPNTL  361 (467)
T ss_dssp             HHTCSEEEEEECCTTTSBCCSSSS---CGGGGHHHHHHHHHHHHHHSSCCTTTEEEEEECSCTTSB
T ss_pred             HhcCCceEeecccccccccccCcC---CCccHHHHHHHHHHHHHhhccCCCCcEEEEeCCCCcccC
Confidence            456899999999999885321111   111123344456666666533344567777777654443

>1c9k_A COBU, adenosylcobinamide kinase; alpha/beta structure rossmann fold P-loop, transferase; HET: 5GP; 2.20A {Salmonella typhimurium} SCOP: c.37.1.11 PDB: 1cbu_A

Probab=98.53  E-value=1.5e-07  Score=75.81  Aligned_cols=83  Identities=18%  Similarity=0.265  Sum_probs=48.6

Q ss_pred             EEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCHHHHHHc-----CCCccceeEeCCCCHHHHHHHHHHHhhc
Q 024705          122 IVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAM-----GIDAENLLIAQPDSAENLLSVVDTLTKS  196 (264)
Q Consensus       122 ~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~~~~~~~-----g~~~~~l~~~~~~~~ee~~~~i~~~~~~  196 (264)
                      +++|+|++|||||+|+.+++..    +.+++|+.+....+.++.+++     .-+..-..+..+....+.+   ...  .
T Consensus         1 ~ilV~Gg~~SGKS~~A~~la~~----~~~~~yiaT~~~~d~e~~~rI~~h~~~R~~~w~tiE~p~~l~~~l---~~~--~   71 (180)
T 1c9k_A            1 MILVTGGARSGKSRHAEALIGD----APQVLYIATSQILDDEMAARIQHHKDGRPAHWRTAECWRHLDTLI---TAD--L   71 (180)
T ss_dssp             CEEEEECTTSSHHHHHHHHHCS----CSSEEEEECCCC------CHHHHHHHTSCTTEEEECCSSCGGGTS---CTT--S
T ss_pred             CEEEECCCCCcHHHHHHHHHhc----CCCeEEEecCCCCCHHHHHHHHHHHhcCCCCcEEEEcHhhHHHHH---Hhh--c
Confidence            4789999999999999998753    678999998775544222211     1111122233333333322   111  1


Q ss_pred             CCccEEEEcCccccccc
Q 024705          197 GSIDVIVVDSVAALIPK  213 (264)
Q Consensus       197 ~~~~~vvIDsl~~~~~~  213 (264)
                      ...+.|+||+++.+...
T Consensus        72 ~~~~~VLvDclt~wl~n   88 (180)
T 1c9k_A           72 APDDAILLECITTMVTN   88 (180)
T ss_dssp             CTTCEEEEECHHHHHHH
T ss_pred             ccCCeEEEcCHHHHHHH
Confidence            22479999999998853

>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=98.52  E-value=1.1e-06  Score=76.43  Aligned_cols=82  Identities=16%  Similarity=0.197  Sum_probs=56.1

Q ss_pred             CCCcEEEEEecCCCChHHHHHHHHHHHhh-cCCeEEEEecCCCCCH------HHHHHcCCCccceeEeCCCCHHHHHHHH
Q 024705          118 PKGRIVEIYGREASGKTTLALHVIKEAQK-LGGYCAYLDVENALDP------SLAEAMGIDAENLLIAQPDSAENLLSVV  190 (264)
Q Consensus       118 ~~G~~~~I~G~~GsGKTtl~~~l~~~~~~-~g~~v~~~~~e~~~~~------~~~~~~g~~~~~l~~~~~~~~ee~~~~i  190 (264)
                      .+|+++.++|++|+||||++..++..+.. .|.+|.+++.+.....      .+++..|++..     ...+..++...+
T Consensus       103 ~~g~vi~lvG~~GsGKTTl~~~LA~~l~~~~G~~V~lv~~D~~r~~a~eqL~~~~~~~gl~~~-----~~~~~~~l~~al  177 (296)
T 2px0_A          103 IHSKYIVLFGSTGAGKTTTLAKLAAISMLEKHKKIAFITTDTYRIAAVEQLKTYAELLQAPLE-----VCYTKEEFQQAK  177 (296)
T ss_dssp             CCSSEEEEEESTTSSHHHHHHHHHHHHHHTTCCCEEEEECCCSSTTHHHHHHHHHTTTTCCCC-----BCSSHHHHHHHH
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHHHHHhcCCEEEEEecCcccchHHHHHHHHHHhcCCCeE-----ecCCHHHHHHHH
Confidence            36899999999999999999999998885 6779999998764322      12333444321     122344544444


Q ss_pred             HHHhhcCCccEEEEcCc
Q 024705          191 DTLTKSGSIDVIVVDSV  207 (264)
Q Consensus       191 ~~~~~~~~~~~vvIDsl  207 (264)
                      ...   .++++++||..
T Consensus       178 ~~~---~~~dlvIiDT~  191 (296)
T 2px0_A          178 ELF---SEYDHVFVDTA  191 (296)
T ss_dssp             HHG---GGSSEEEEECC
T ss_pred             HHh---cCCCEEEEeCC
Confidence            432   57899999943

>2eyu_A Twitching motility protein PILT; pilus retraction motor, C-terminal domain PILT, protein transport; 1.87A {Aquifex aeolicus}

Probab=98.51  E-value=4.9e-07  Score=77.28  Aligned_cols=40  Identities=18%  Similarity=0.130  Sum_probs=33.9

Q ss_pred             CCCCcEEEEEecCCCChHHHHHHHHHHHhhc-CCeEEEEec
Q 024705          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKL-GGYCAYLDV  156 (264)
Q Consensus       117 l~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~-g~~v~~~~~  156 (264)
                      +++|++++|+|||||||||++..++....+. .+.+.+...
T Consensus        22 i~~g~~v~i~Gp~GsGKSTll~~l~g~~~~~~~G~I~~~g~   62 (261)
T 2eyu_A           22 HRKMGLILVTGPTGSGKSTTIASMIDYINQTKSYHIITIED   62 (261)
T ss_dssp             GCSSEEEEEECSTTCSHHHHHHHHHHHHHHHCCCEEEEEES
T ss_pred             hCCCCEEEEECCCCccHHHHHHHHHHhCCCCCCCEEEEcCC
Confidence            7899999999999999999999998877665 677766653

>2bbs_A Cystic fibrosis transmembrane conductance regulator; ATP binding cassette, transport protein; HET: ATP; 2.05A {Homo sapiens} PDB: 2bbt_A* 1xmi_A* 1xmj_A* 2bbo_A* 3si7_A* 1r0w_A 1q3h_A 1r0x_A* 1r0y_A* 1r0z_A* 1r10_A* 1xf9_A* 1xfa_A*

Probab=98.50  E-value=6.7e-08  Score=83.93  Aligned_cols=34  Identities=24%  Similarity=0.542  Sum_probs=27.7

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCC
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGG  149 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~  149 (264)
                      -+++|+++.|.||||||||||+..++....+..|
T Consensus        60 ~i~~Ge~~~i~G~NGsGKSTLlk~l~Gl~~p~~G   93 (290)
T 2bbs_A           60 KIERGQLLAVAGSTGAGKTSLLMMIMGELEPSEG   93 (290)
T ss_dssp             EECTTCEEEEEESTTSSHHHHHHHHTTSSCEEEE
T ss_pred             EEcCCCEEEEECCCCCcHHHHHHHHhcCCCCCCc
Confidence            3789999999999999999998888776544333

>3jvv_A Twitching mobility protein; hexameric P-loop ATPase, secretion ATPase, ATP-binding, FIMB nucleotide-binding, transport; HET: ACP CIT; 2.60A {Pseudomonas aeruginosa} PDB: 3jvu_A*

Probab=98.49  E-value=4.4e-07  Score=80.99  Aligned_cols=113  Identities=10%  Similarity=0.032  Sum_probs=65.0

Q ss_pred             CCCcEEEEEecCCCChHHHHHHHHHHHhhc-CCeEEEEecCCCCCHHHHHHcCCCccceeEeCCCCHHHHHHHHHHHhhc
Q 024705          118 PKGRIVEIYGREASGKTTLALHVIKEAQKL-GGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTKS  196 (264)
Q Consensus       118 ~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~-g~~v~~~~~e~~~~~~~~~~~g~~~~~l~~~~~~~~ee~~~~i~~~~~~  196 (264)
                      .+|.+++|+||+||||||++..++....+. ++.++.+........  ....++..+.-......+..   ..+...+. 
T Consensus       121 ~~~g~i~I~GptGSGKTTlL~~l~g~~~~~~~~~i~t~ed~~e~~~--~~~~~~v~q~~~~~~~~~~~---~~La~aL~-  194 (356)
T 3jvv_A          121 VPRGLVLVTGPTGSGKSTTLAAMLDYLNNTKYHHILTIEDPIEFVH--ESKKCLVNQREVHRDTLGFS---EALRSALR-  194 (356)
T ss_dssp             CSSEEEEEECSTTSCHHHHHHHHHHHHHHHCCCEEEEEESSCCSCC--CCSSSEEEEEEBTTTBSCHH---HHHHHHTT-
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHhcccCCCCcEEEEccCcHHhhh--hccccceeeeeeccccCCHH---HHHHHHhh-
Confidence            567799999999999999999998887765 566655442211110  00000000100000112232   23444433 


Q ss_pred             CCccEEEEcCccccccccccCCCcCCCCcHHHHHHHHHHHHHHHHHHhccCcEEEEEcccchHh
Q 024705          197 GSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVKVLL  260 (264)
Q Consensus       197 ~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r~i~~~L~~l~~~l~~~g~tVi~i~h~~~~~  260 (264)
                      .+|+++++|.+...                .    ....+.++    .+.|.+|++++|..+..
T Consensus       195 ~~PdvillDEp~d~----------------e----~~~~~~~~----~~~G~~vl~t~H~~~~~  234 (356)
T 3jvv_A          195 EDPDIILVGEMRDL----------------E----TIRLALTA----AETGHLVFGTLHTTSAA  234 (356)
T ss_dssp             SCCSEEEESCCCSH----------------H----HHHHHHHH----HHTTCEEEEEESCSSHH
T ss_pred             hCcCEEecCCCCCH----------------H----HHHHHHHH----HhcCCEEEEEEccChHH
Confidence            58999999988621                0    11222333    45699999999998765

>3b9q_A Chloroplast SRP receptor homolog, alpha subunit CPFTSY; protein translocation, GTP-binding, nucleotide-binding, protein transport; 1.75A {Arabidopsis thaliana}

Probab=98.48  E-value=3.4e-07  Score=79.90  Aligned_cols=43  Identities=19%  Similarity=0.170  Sum_probs=37.5

Q ss_pred             CCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCC
Q 024705          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENA  159 (264)
Q Consensus       117 l~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~  159 (264)
                      +++|+++.|.|||||||||++..++....+.++++.+...+..
T Consensus        97 ~~~g~vi~lvG~nGsGKTTll~~Lag~l~~~~g~V~l~g~d~~  139 (302)
T 3b9q_A           97 FRKPAVIMIVGVNGGGKTTSLGKLAHRLKNEGTKVLMAAGDTF  139 (302)
T ss_dssp             SSSCEEEEEECCTTSCHHHHHHHHHHHHHHTTCCEEEECCCCS
T ss_pred             cCCCcEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeeccc
Confidence            5689999999999999999999999988888888888776543

>3b85_A Phosphate starvation-inducible protein; PHOH2, ATPase, PFAM: PF02562, ST genomics, PSI-2, protein structure initiative; 2.35A {Corynebacterium glutamicum atcc 13032}

Probab=98.48  E-value=5.9e-08  Score=80.23  Aligned_cols=35  Identities=26%  Similarity=0.195  Sum_probs=29.7

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeE
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYC  151 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v  151 (264)
                      ++++|+++.|.||||||||||+..++.. .+..+.+
T Consensus        18 ~i~~Ge~~~liG~nGsGKSTLl~~l~Gl-~p~~G~I   52 (208)
T 3b85_A           18 AIDTNTIVFGLGPAGSGKTYLAMAKAVQ-ALQSKQV   52 (208)
T ss_dssp             HHHHCSEEEEECCTTSSTTHHHHHHHHH-HHHTTSC
T ss_pred             hccCCCEEEEECCCCCCHHHHHHHHhcC-CCcCCee
Confidence            4678999999999999999999998887 6655555

>2j9r_A Thymidine kinase; TK1, DNK, lasso, transferase, ATP-binding, deoxyribonucleoside kinase, DNA synthesis, phosphate accept nucleotide-binding; HET: THM; 2.7A {Bacillus anthracis} PDB: 2ja1_A*

Probab=98.47  E-value=4.2e-07  Score=75.13  Aligned_cols=111  Identities=14%  Similarity=0.181  Sum_probs=68.1

Q ss_pred             CCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCC---HHHHHHcCCCccceeEeCCCCHHHHHHHHHHHh
Q 024705          118 PKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALD---PSLAEAMGIDAENLLIAQPDSAENLLSVVDTLT  194 (264)
Q Consensus       118 ~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~---~~~~~~~g~~~~~l~~~~~~~~ee~~~~i~~~~  194 (264)
                      .+|.+.+++|+.|+||||.++..+.++..+|.+|+++.......   .....++|+......+..   .+++.+.+    
T Consensus        26 ~~G~l~vitG~MgsGKTT~lL~~a~r~~~~g~kVli~k~~~d~R~ge~~i~s~~g~~~~a~~~~~---~~~~~~~~----   98 (214)
T 2j9r_A           26 QNGWIEVICGSMFSGKSEELIRRVRRTQFAKQHAIVFKPCIDNRYSEEDVVSHNGLKVKAVPVSA---SKDIFKHI----   98 (214)
T ss_dssp             CSCEEEEEECSTTSCHHHHHHHHHHHHHHTTCCEEEEECC-----------------CCEEECSS---GGGGGGGC----
T ss_pred             CCCEEEEEECCCCCcHHHHHHHHHHHHHHCCCEEEEEEeccCCcchHHHHHhhcCCeeEEeecCC---HHHHHHHH----
Confidence            56899999999999999999999999999999999986443221   134555666544433211   12222211    


Q ss_pred             hcCCccEEEEcCccccccccccCCCcCCCCcHHHHHHHHHHHHHHHHHHhccCcEEEEEcccch
Q 024705          195 KSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVKV  258 (264)
Q Consensus       195 ~~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r~i~~~L~~l~~~l~~~g~tVi~i~h~~~  258 (264)
                      . ..+++|+||..+.+..              .    ....+..++    ..|+.||+.....+
T Consensus        99 ~-~~~dvViIDEaQF~~~--------------~----~V~~l~~l~----~~~~~Vi~~Gl~~D  139 (214)
T 2j9r_A           99 T-EEMDVIAIDEVQFFDG--------------D----IVEVVQVLA----NRGYRVIVAGLDQD  139 (214)
T ss_dssp             C-SSCCEEEECCGGGSCT--------------T----HHHHHHHHH----HTTCEEEEEECSBC
T ss_pred             h-cCCCEEEEECcccCCH--------------H----HHHHHHHHh----hCCCEEEEEecccc
Confidence            1 3589999999998642              1    113455553    45999999887544

>2qby_A CDC6 homolog 1, cell division control protein 6 homolog 1; winged-helix domain, helix-turn-helix, AAA+ ATPase domain, protein-DNA complex; HET: DNA SPD ADP; 3.35A {Sulfolobus solfataricus}

Probab=98.46  E-value=1.2e-06  Score=77.64  Aligned_cols=90  Identities=22%  Similarity=0.275  Sum_probs=58.5

Q ss_pred             CCCcEEEEEecCCCChHHHHHHHHHHHhhc---CCeEEEEecCCCCCH-HH----HHHcCCCccceeEeCCCCHHHHHHH
Q 024705          118 PKGRIVEIYGREASGKTTLALHVIKEAQKL---GGYCAYLDVENALDP-SL----AEAMGIDAENLLIAQPDSAENLLSV  189 (264)
Q Consensus       118 ~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~---g~~v~~~~~e~~~~~-~~----~~~~g~~~~~l~~~~~~~~ee~~~~  189 (264)
                      ..+..++|+||+|+||||++..++..+...   +..++|++....... ..    ...+|....    ....+..+....
T Consensus        43 ~~~~~vli~G~~G~GKTtl~~~l~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~i~~~l~~~~~----~~~~~~~~~~~~  118 (386)
T 2qby_A           43 EKPNNIFIYGLTGTGKTAVVKFVLSKLHKKFLGKFKHVYINTRQIDTPYRVLADLLESLDVKVP----FTGLSIAELYRR  118 (386)
T ss_dssp             CCCCCEEEEECTTSSHHHHHHHHHHHHHHHTCSSCEEEEEEHHHHCSHHHHHHHHTTTTSCCCC----SSSCCHHHHHHH
T ss_pred             CCCCeEEEECCCCCCHHHHHHHHHHHHHHHhcCCceEEEEECCCCCCHHHHHHHHHHHhCCCCC----CCCCCHHHHHHH
Confidence            356789999999999999999999887655   667888885433222 11    122232211    112345565555


Q ss_pred             HHHHhhcC-CccEEEEcCccccc
Q 024705          190 VDTLTKSG-SIDVIVVDSVAALI  211 (264)
Q Consensus       190 i~~~~~~~-~~~~vvIDsl~~~~  211 (264)
                      +....... .+.+++||.+..+.
T Consensus       119 l~~~l~~~~~~~vlilDE~~~l~  141 (386)
T 2qby_A          119 LVKAVRDYGSQVVIVLDEIDAFV  141 (386)
T ss_dssp             HHHHHHTCCSCEEEEEETHHHHH
T ss_pred             HHHHHhccCCeEEEEEcChhhhh
Confidence            55554433 48899999999876

>1xx6_A Thymidine kinase; NESG, northeast structural genomics consortium, protein STRU initiative, PSI, structural genomics, DNA synthesis; HET: ADP; 2.00A {Clostridium acetobutylicum} SCOP: c.37.1.24 g.39.1.14

Probab=98.43  E-value=7.3e-07  Score=72.62  Aligned_cols=110  Identities=19%  Similarity=0.210  Sum_probs=69.9

Q ss_pred             CCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCC--CH-HHHHHcCCCccceeEeCCCCHHHHHHHHHHHh
Q 024705          118 PKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENAL--DP-SLAEAMGIDAENLLIAQPDSAENLLSVVDTLT  194 (264)
Q Consensus       118 ~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~--~~-~~~~~~g~~~~~l~~~~~~~~ee~~~~i~~~~  194 (264)
                      .+|.++.++||.|+||||.++.++.++..+|.+|+++......  .. ....++|+......+...   +++.+.+.   
T Consensus         6 ~~g~i~v~~G~mgsGKTT~ll~~a~r~~~~g~kV~v~k~~~d~r~~~~~i~s~~g~~~~a~~~~~~---~~i~~~~~---   79 (191)
T 1xx6_A            6 DHGWVEVIVGPMYSGKSEELIRRIRRAKIAKQKIQVFKPEIDNRYSKEDVVSHMGEKEQAVAIKNS---REILKYFE---   79 (191)
T ss_dssp             TCCEEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEEEC-------CEEECTTSCEEECEEESSS---THHHHHCC---
T ss_pred             CCCEEEEEECCCCCcHHHHHHHHHHHHHHCCCEEEEEEeccCccchHHHHHhhcCCceeeEeeCCH---HHHHHHHh---
Confidence            4688999999999999999999999999899999988533211  11 123334544333333222   23332221   


Q ss_pred             hcCCccEEEEcCccccccccccCCCcCCCCcHHHHHHHHHHHHHHHHHHhccCcEEEEEcccc
Q 024705          195 KSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVK  257 (264)
Q Consensus       195 ~~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r~i~~~L~~l~~~l~~~g~tVi~i~h~~  257 (264)
                        ...++|+||..+.+.+              .+    ...++.++    +.|++||+.....
T Consensus        80 --~~~dvViIDEaqfl~~--------------~~----v~~l~~l~----~~~~~Vi~~Gl~~  118 (191)
T 1xx6_A           80 --EDTEVIAIDEVQFFDD--------------EI----VEIVNKIA----ESGRRVICAGLDM  118 (191)
T ss_dssp             --TTCSEEEECSGGGSCT--------------HH----HHHHHHHH----HTTCEEEEEECSB
T ss_pred             --ccCCEEEEECCCCCCH--------------HH----HHHHHHHH----hCCCEEEEEeccc
Confidence              2589999999887542              11    23455553    3499999987654

>2og2_A Putative signal recognition particle receptor; nucleotide-binding, protein transport; 2.00A {Arabidopsis thaliana}

Probab=98.41  E-value=5.6e-07  Score=80.33  Aligned_cols=43  Identities=19%  Similarity=0.170  Sum_probs=37.4

Q ss_pred             CCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCC
Q 024705          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENA  159 (264)
Q Consensus       117 l~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~  159 (264)
                      +++|+++.|.|||||||||++..++....+.+++|.+...+..
T Consensus       154 ~~~g~vi~lvG~nGsGKTTll~~Lag~l~~~~G~V~l~g~D~~  196 (359)
T 2og2_A          154 FRKPAVIMIVGVNGGGKTTSLGKLAHRLKNEGTKVLMAAGDTF  196 (359)
T ss_dssp             SSSSEEEEEECCTTSCHHHHHHHHHHHHHHTTCCEEEECCCCS
T ss_pred             cCCCeEEEEEcCCCChHHHHHHHHHhhccccCCEEEEeccccc
Confidence            4589999999999999999999999988888888888776543

>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo sapiens}

Probab=98.41  E-value=2.4e-06  Score=75.06  Aligned_cols=119  Identities=19%  Similarity=0.214  Sum_probs=66.6

Q ss_pred             CCCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCHHHHHHcCCCccceeEeCCCCHHHHHHHHHHHh
Q 024705          115 GGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLT  194 (264)
Q Consensus       115 gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~~~~~~~g~~~~~l~~~~~~~~ee~~~~i~~~~  194 (264)
                      |+..++.-++|+||||+|||+++..++..+  .+...++++...-....    .           . ..+.....+-...
T Consensus        40 ~~~~~~~~iLL~GppGtGKT~la~ala~~~--~~~~~~~i~~~~l~~~~----~-----------g-~~~~~~~~lf~~a  101 (322)
T 1xwi_A           40 GKRTPWRGILLFGPPGTGKSYLAKAVATEA--NNSTFFSISSSDLVSKW----L-----------G-ESEKLVKNLFQLA  101 (322)
T ss_dssp             TTCCCCSEEEEESSSSSCHHHHHHHHHHHT--TSCEEEEEECCSSCCSS----C-----------C-SCHHHHHHHHHHH
T ss_pred             CCCCCCceEEEECCCCccHHHHHHHHHHHc--CCCcEEEEEhHHHHhhh----h-----------h-HHHHHHHHHHHHH
Confidence            456667789999999999999999998865  24556666653321110    0           1 1123333333333


Q ss_pred             hcCCccEEEEcCccccccccccCCCcCCCCcHHHHHHHHHHHHHHHHHHh-ccCcEEEEEcccc
Q 024705          195 KSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLC-QSHTLIIFLNQVK  257 (264)
Q Consensus       195 ~~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r~i~~~L~~l~~~l~-~~g~tVi~i~h~~  257 (264)
                      ....+.+++||.+..+.+... ..     ..+...+.+.+.+..+..... ..++.||.+++.-
T Consensus       102 ~~~~~~vl~iDEid~l~~~~~-~~-----~~~~~~~~~~~ll~~ld~~~~~~~~v~vI~atn~~  159 (322)
T 1xwi_A          102 RENKPSIIFIDEIDSLCGSRS-EN-----ESEAARRIKTEFLVQMQGVGVDNDGILVLGATNIP  159 (322)
T ss_dssp             HHTSSEEEEEETTTGGGCCSS-SC-----CTTHHHHHHHHHHHHHHCSSSCCTTEEEEEEESCT
T ss_pred             HhcCCcEEEeecHHHhccccc-cc-----cchHHHHHHHHHHHHHhcccccCCCEEEEEecCCc
Confidence            346789999999999875211 11     111223333444444432111 2456666666543

>3ux8_A Excinuclease ABC, A subunit; UVRA, nucleotide excision repair, DNA repair, ABC ATPase, DN binding protein; HET: ADP; 2.10A {Geobacillus}

Probab=98.41  E-value=1.1e-06  Score=84.76  Aligned_cols=22  Identities=41%  Similarity=0.807  Sum_probs=20.4

Q ss_pred             CCCCCcEEEEEecCCCChHHHH
Q 024705          116 GLPKGRIVEIYGREASGKTTLA  137 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~  137 (264)
                      -+++|+++.|.||||||||||+
T Consensus        40 ~i~~Ge~~~liGpNGaGKSTLl   61 (670)
T 3ux8_A           40 EIPRGKLVVLTGLSGSGKSSLA   61 (670)
T ss_dssp             EEETTSEEEEECSTTSSHHHHH
T ss_pred             EECCCCEEEEECCCCCCHHHHh
Confidence            3789999999999999999996

>2orv_A Thymidine kinase; TP4A (P1-(5'-adenosyl)P4-(5'- (2'deoxythymidil))tetraphosphate, transferase; HET: 4TA; 2.30A {Homo sapiens} SCOP: c.37.1.24 g.39.1.14

Probab=98.41  E-value=2.3e-06  Score=71.39  Aligned_cols=109  Identities=16%  Similarity=0.132  Sum_probs=69.7

Q ss_pred             CCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCC--HHHHHHcCCCccceeEeCCCCHHHHHHHHHHHhh
Q 024705          118 PKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALD--PSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTK  195 (264)
Q Consensus       118 ~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~--~~~~~~~g~~~~~l~~~~~~~~ee~~~~i~~~~~  195 (264)
                      ..|.+.+++|+.|+||||.++..+.++..+|.+|+++....+..  .....++|+......+...   +++.+.+     
T Consensus        17 ~~g~l~v~~G~MgsGKTT~lL~~~~r~~~~g~kvli~kp~~D~Ryg~~i~sr~G~~~~a~~i~~~---~di~~~~-----   88 (234)
T 2orv_A           17 TRGQIQVILGPMFSGKSTELMRRVRRFQIAQYKCLVIKYAKDTRYSSSFCTHDRNTMEALPACLL---RDVAQEA-----   88 (234)
T ss_dssp             -CCEEEEEECCTTSCHHHHHHHHHHHHHTTTCCEEEEEETTCCCC-----------CEEEEESSG---GGGHHHH-----
T ss_pred             CceEEEEEECCCCCcHHHHHHHHHHHHHHCCCeEEEEeecCCccchHHHHhhcCCeeEEEecCCH---HHHHHHh-----
Confidence            35899999999999999999999999999999999987443321  3345556666554443322   3333322     


Q ss_pred             cCCccEEEEcCccccccccccCCCcCCCCcHHHHHHHHHHHHHHHHHHhccCcEEEEEcccch
Q 024705          196 SGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVKV  258 (264)
Q Consensus       196 ~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r~i~~~L~~l~~~l~~~g~tVi~i~h~~~  258 (264)
                       .++++|+||..+.+..                   +.+.+..+    .+.|+.||+.....+
T Consensus        89 -~~~dvViIDEaQF~~~-------------------v~el~~~l----~~~gi~VI~~GL~~D  127 (234)
T 2orv_A           89 -LGVAVIGIDEGQFFPD-------------------IVEFCEAM----ANAGKTVIVAALDGT  127 (234)
T ss_dssp             -TTCSEEEESSGGGCTT-------------------HHHHHHHH----HHTTCEEEEECCSBC
T ss_pred             -ccCCEEEEEchhhhhh-------------------HHHHHHHH----HhCCCEEEEEecccc
Confidence             4689999999997741                   12333333    557999999887744

>3g5u_A MCG1178, multidrug resistance protein 1A; P-glycoprotein, PGP, cyclic peptide, membrane protein; 3.80A {Mus musculus} PDB: 3g61_A* 3g60_A*

Probab=98.40  E-value=3.9e-07  Score=93.77  Aligned_cols=62  Identities=19%  Similarity=0.354  Sum_probs=41.9

Q ss_pred             CCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCC--CC-HHHHHHcCCCccceeEeC
Q 024705          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENA--LD-PSLAEAMGIDAENLLIAQ  179 (264)
Q Consensus       117 l~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~--~~-~~~~~~~g~~~~~l~~~~  179 (264)
                      +++|+.+.|.||+|||||||+..+.....+..|. ++++....  .. ..+.+.+|+.+|+..++.
T Consensus       413 i~~G~~~~ivG~sGsGKSTl~~ll~g~~~~~~G~-i~i~g~~i~~~~~~~~r~~i~~v~Q~~~l~~  477 (1284)
T 3g5u_A          413 VKSGQTVALVGNSGCGKSTTVQLMQRLYDPLDGM-VSIDGQDIRTINVRYLREIIGVVSQEPVLFA  477 (1284)
T ss_dssp             ECTTCEEEEECCSSSSHHHHHHHTTTSSCCSEEE-EEETTEEGGGSCHHHHHHHEEEECSSCCCCS
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhCCCCCCCeE-EEECCEEHHhCCHHHHHhheEEEcCCCccCC
Confidence            7899999999999999999888877655444444 44443221  11 244556888777665543

>1vma_A Cell division protein FTSY; TM0570, structural genomics, JCS protein structure initiative, PSI, joint center for structu genomics; HET: CIT; 1.60A {Thermotoga maritima} SCOP: a.24.13.1 c.37.1.10

Probab=98.39  E-value=1.5e-06  Score=75.99  Aligned_cols=89  Identities=15%  Similarity=0.186  Sum_probs=58.6

Q ss_pred             CCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCH------HHHHHcCCCccceeEeCCCCHHHH-HHHH
Q 024705          118 PKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP------SLAEAMGIDAENLLIAQPDSAENL-LSVV  190 (264)
Q Consensus       118 ~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~------~~~~~~g~~~~~l~~~~~~~~ee~-~~~i  190 (264)
                      .+|+++.|+|+||+||||++..++..+.+.|++|++++.+.....      .+.+..|++.  +.......+..+ ...+
T Consensus       102 ~~~~vi~ivG~~GsGKTTl~~~LA~~l~~~g~kV~lv~~D~~r~~a~eqL~~~~~~~gl~~--~~~~s~~~~~~v~~~al  179 (306)
T 1vma_A          102 EPPFVIMVVGVNGTGKTTSCGKLAKMFVDEGKSVVLAAADTFRAAAIEQLKIWGERVGATV--ISHSEGADPAAVAFDAV  179 (306)
T ss_dssp             SSCEEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEEECTTCHHHHHHHHHHHHHHTCEE--ECCSTTCCHHHHHHHHH
T ss_pred             CCCeEEEEEcCCCChHHHHHHHHHHHHHhcCCEEEEEccccccHHHHHHHHHHHHHcCCcE--EecCCccCHHHHHHHHH
Confidence            468999999999999999999999999888999999998754322      2344445432  100111223333 2223


Q ss_pred             HHHhhcCCccEEEEcCccc
Q 024705          191 DTLTKSGSIDVIVVDSVAA  209 (264)
Q Consensus       191 ~~~~~~~~~~~vvIDsl~~  209 (264)
                      ... ...++++++||....
T Consensus       180 ~~a-~~~~~dvvIiDtpg~  197 (306)
T 1vma_A          180 AHA-LARNKDVVIIDTAGR  197 (306)
T ss_dssp             HHH-HHTTCSEEEEEECCC
T ss_pred             HHH-HhcCCCEEEEECCCc
Confidence            222 235789999997754

>1fnn_A CDC6P, cell division control protein 6; ORC1, AAA protein, DNA replication initation factor, cell cycle control factor; HET: ADP; 2.00A {Pyrobaculum aerophilum} SCOP: a.4.5.11 c.37.1.20

Probab=98.38  E-value=3.2e-06  Score=75.23  Aligned_cols=85  Identities=15%  Similarity=0.156  Sum_probs=57.6

Q ss_pred             EEEEEecCCCChHHHHHHHHHHHhhc-CCeEEEEecCCCCCH-----HHHHHcCCCccceeEeCCCCHHHHHHHHHHHhh
Q 024705          122 IVEIYGREASGKTTLALHVIKEAQKL-GGYCAYLDVENALDP-----SLAEAMGIDAENLLIAQPDSAENLLSVVDTLTK  195 (264)
Q Consensus       122 ~~~I~G~~GsGKTtl~~~l~~~~~~~-g~~v~~~~~e~~~~~-----~~~~~~g~~~~~l~~~~~~~~ee~~~~i~~~~~  195 (264)
                      .++|+||+|+||||++..++..+... +..+++++.......     .....+|.....    ...+..++...+.....
T Consensus        46 ~~li~G~~G~GKTtl~~~l~~~~~~~~~~~~~~i~~~~~~~~~~~~~~l~~~l~~~~~~----~~~~~~~~~~~l~~~l~  121 (389)
T 1fnn_A           46 RATLLGRPGTGKTVTLRKLWELYKDKTTARFVYINGFIYRNFTAIIGEIARSLNIPFPR----RGLSRDEFLALLVEHLR  121 (389)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHTTSCCCEEEEEETTTCCSHHHHHHHHHHHTTCCCCS----SCCCHHHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHHHhhhcCeeEEEEeCccCCCHHHHHHHHHHHhCccCCC----CCCCHHHHHHHHHHHHh
Confidence            89999999999999999999887666 578888886554432     223445543211    12345566655555443


Q ss_pred             -cCCccEEEEcCcccc
Q 024705          196 -SGSIDVIVVDSVAAL  210 (264)
Q Consensus       196 -~~~~~~vvIDsl~~~  210 (264)
                       ..++.+++||.+..+
T Consensus       122 ~~~~~~vlilDE~~~l  137 (389)
T 1fnn_A          122 ERDLYMFLVLDDAFNL  137 (389)
T ss_dssp             HTTCCEEEEEETGGGS
T ss_pred             hcCCeEEEEEECcccc
Confidence             345889999998877

>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=98.38  E-value=2.3e-06  Score=72.08  Aligned_cols=78  Identities=18%  Similarity=0.123  Sum_probs=44.3

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCHHHHHHcCCCccceeEeCCCCHHHHHHHHHHHhh
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTK  195 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~~~~~~~g~~~~~l~~~~~~~~ee~~~~i~~~~~  195 (264)
                      |+.....++|+||||+|||+++..++...   +.+.++++........               .......+...+... .
T Consensus        35 g~~~~~~vll~G~~GtGKT~la~~la~~~---~~~~~~~~~~~~~~~~---------------~~~~~~~~~~~~~~a-~   95 (262)
T 2qz4_A           35 GAKVPKGALLLGPPGCGKTLLAKAVATEA---QVPFLAMAGAEFVEVI---------------GGLGAARVRSLFKEA-R   95 (262)
T ss_dssp             -CCCCCEEEEESCTTSSHHHHHHHHHHHH---TCCEEEEETTTTSSSS---------------TTHHHHHHHHHHHHH-H
T ss_pred             CCCCCceEEEECCCCCCHHHHHHHHHHHh---CCCEEEechHHHHhhc---------------cChhHHHHHHHHHHH-H
Confidence            45566679999999999999999998865   4566666654321110               000111222222222 2


Q ss_pred             cCCccEEEEcCcccccc
Q 024705          196 SGSIDVIVVDSVAALIP  212 (264)
Q Consensus       196 ~~~~~~vvIDsl~~~~~  212 (264)
                      ...+.+++||.+..+..
T Consensus        96 ~~~~~vl~iDeid~l~~  112 (262)
T 2qz4_A           96 ARAPCIVYIDEIDAVGK  112 (262)
T ss_dssp             HTCSEEEEEECC-----
T ss_pred             hcCCeEEEEeCcchhhc
Confidence            34688999999998864

>3dm5_A SRP54, signal recognition 54 kDa protein; protein-RNA, signal recognition particle, SRP-GTPase, protein targeting, cytoplasm, GTP-binding; HET: GDP; 2.51A {Pyrococcus furiosus}

Probab=98.37  E-value=5.9e-06  Score=75.54  Aligned_cols=90  Identities=24%  Similarity=0.200  Sum_probs=61.1

Q ss_pred             CCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCH------HHHHHcCCCccceeEeCCCCHHHHHHHHHH
Q 024705          119 KGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP------SLAEAMGIDAENLLIAQPDSAENLLSVVDT  192 (264)
Q Consensus       119 ~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~------~~~~~~g~~~~~l~~~~~~~~ee~~~~i~~  192 (264)
                      ++.+++++|++|+||||++..++..+...|.+|++++.+.....      .+++..|++.-.  .....++.+++.....
T Consensus        99 ~p~vIlivG~~G~GKTTt~~kLA~~l~~~G~kVllv~~D~~R~aa~eqL~~~~~~~gvpv~~--~~~~~dp~~i~~~al~  176 (443)
T 3dm5_A           99 KPTILLMVGIQGSGKTTTVAKLARYFQKRGYKVGVVCSDTWRPGAYHQLRQLLDRYHIEVFG--NPQEKDAIKLAKEGVD  176 (443)
T ss_dssp             SSEEEEEECCTTSSHHHHHHHHHHHHHTTTCCEEEEECCCSSTHHHHHHHHHHGGGTCEEEC--CTTCCCHHHHHHHHHH
T ss_pred             CCeEEEEECcCCCCHHHHHHHHHHHHHHCCCeEEEEeCCCcchhHHHHHHHHHHhcCCcEEe--cCCCCCHHHHHHHHHH
Confidence            46899999999999999999999999989999999998765443      233444443211  0112334444433333


Q ss_pred             HhhcCCccEEEEcCcccc
Q 024705          193 LTKSGSIDVIVVDSVAAL  210 (264)
Q Consensus       193 ~~~~~~~~~vvIDsl~~~  210 (264)
                      .....++++|+||+....
T Consensus       177 ~a~~~~~DvVIIDTaGrl  194 (443)
T 3dm5_A          177 YFKSKGVDIIIVDTAGRH  194 (443)
T ss_dssp             HHHHTTCSEEEEECCCCS
T ss_pred             HHHhCCCCEEEEECCCcc
Confidence            334467999999987543

>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=98.35  E-value=1.5e-06  Score=71.87  Aligned_cols=49  Identities=22%  Similarity=0.281  Sum_probs=39.5

Q ss_pred             HHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCC
Q 024705          107 KLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVEN  158 (264)
Q Consensus       107 ~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~  158 (264)
                      .+..+.. ++  ++..++|+||+|+|||+++..++..+...+..+.|++...
T Consensus        42 ~l~~~~~-~~--~~~~~ll~G~~G~GKT~la~~l~~~~~~~~~~~~~~~~~~   90 (242)
T 3bos_A           42 ALKSAAS-GD--GVQAIYLWGPVKSGRTHLIHAACARANELERRSFYIPLGI   90 (242)
T ss_dssp             HHHHHHH-TC--SCSEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEEGGG
T ss_pred             HHHHHHh-CC--CCCeEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEEHHH
Confidence            3555554 32  6788999999999999999999999888888899988643

>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=98.33  E-value=2.2e-06  Score=74.44  Aligned_cols=124  Identities=16%  Similarity=0.168  Sum_probs=68.4

Q ss_pred             CCCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCHHHHHHcCCCccceeEeCCCCHHHHHHHHHHHh
Q 024705          115 GGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLT  194 (264)
Q Consensus       115 gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~~~~~~~g~~~~~l~~~~~~~~ee~~~~i~~~~  194 (264)
                      -|++++..++|+||||+|||+++..++...   +...++++...    .....+|-..        .....++...    
T Consensus        44 ~~~~~~~~vLL~Gp~GtGKT~la~ala~~~---~~~~i~v~~~~----l~~~~~g~~~--------~~~~~~f~~a----  104 (301)
T 3cf0_A           44 FGMTPSKGVLFYGPPGCGKTLLAKAIANEC---QANFISIKGPE----LLTMWFGESE--------ANVREIFDKA----  104 (301)
T ss_dssp             HCCCCCSEEEEECSSSSSHHHHHHHHHHHT---TCEEEEECHHH----HHHHHHTTCT--------THHHHHHHHH----
T ss_pred             cCCCCCceEEEECCCCcCHHHHHHHHHHHh---CCCEEEEEhHH----HHhhhcCchH--------HHHHHHHHHH----
Confidence            368889999999999999999999988754   45555554211    1112223211        1122222222    


Q ss_pred             hcCCccEEEEcCccccccccccC-CCcCCCCcHHHHHHHHHHHHHHHHHHhccCcEEEEEcccchHhh
Q 024705          195 KSGSIDVIVVDSVAALIPKCEIG-VPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVKVLLL  261 (264)
Q Consensus       195 ~~~~~~~vvIDsl~~~~~~~~~~-~~~~~~~~~~q~r~i~~~L~~l~~~l~~~g~tVi~i~h~~~~~~  261 (264)
                      ....+.+++||.+..+.+..... +..+....    +.+...+..+.......++.||.+++....++
T Consensus       105 ~~~~p~il~iDEid~l~~~~~~~~~~~~~~~~----~~~~~lL~~l~~~~~~~~v~vi~atn~~~~ld  168 (301)
T 3cf0_A          105 RQAAPCVLFFDELDSIAKARGGNIGDGGGAAD----RVINQILTEMDGMSTKKNVFIIGATNRPDIID  168 (301)
T ss_dssp             HHTCSEEEEECSTTHHHHHHTTTTCCSSCSCC----HHHHHHHHHHHSSCTTSSEEEEEEESCGGGSC
T ss_pred             HhcCCeEEEEEChHHHhhccCCCcCCcchHHH----HHHHHHHHHhhcccCCCCEEEEEecCCccccC
Confidence            23468899999999887422111 01111111    12233444443222345788888887665543

>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A {Escherichia coli} SCOP: c.37.1.20

Probab=98.31  E-value=5.4e-06  Score=69.98  Aligned_cols=117  Identities=17%  Similarity=0.140  Sum_probs=61.7

Q ss_pred             EEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCHHHHHHcCCCccceeEeCCCCHHHHHHHHHHHhhcCCccE
Q 024705          122 IVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTKSGSIDV  201 (264)
Q Consensus       122 ~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~~~~~~~g~~~~~l~~~~~~~~ee~~~~i~~~~~~~~~~~  201 (264)
                      -++|+||||+||||++..++...   +.+.++++...-...             .  .......+...+... ....+.+
T Consensus        47 ~vll~G~~GtGKT~la~~la~~~---~~~~~~i~~~~~~~~-------------~--~~~~~~~~~~~~~~a-~~~~~~i  107 (257)
T 1lv7_A           47 GVLMVGPPGTGKTLLAKAIAGEA---KVPFFTISGSDFVEM-------------F--VGVGASRVRDMFEQA-KKAAPCI  107 (257)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHH---TCCEEEECSCSSTTS-------------C--CCCCHHHHHHHHHHH-HTTCSEE
T ss_pred             eEEEECcCCCCHHHHHHHHHHHc---CCCEEEEeHHHHHHH-------------h--hhhhHHHHHHHHHHH-HHcCCee
Confidence            38999999999999999998765   445666654321110             0  011222223333322 3346789


Q ss_pred             EEEcCccccccccccCCCcCCCCcHHHHHHHHHHHHHHHHHHhccCcEEEEEcccchHh
Q 024705          202 IVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVKVLL  260 (264)
Q Consensus       202 vvIDsl~~~~~~~~~~~~~~~~~~~~q~r~i~~~L~~l~~~l~~~g~tVi~i~h~~~~~  260 (264)
                      ++||.+..+..... .+ ..... ....+.+...+..+.......++.||.+++..+.+
T Consensus       108 l~iDeid~l~~~~~-~~-~~~~~-~~~~~~~~~ll~~l~~~~~~~~~~vI~~tn~~~~l  163 (257)
T 1lv7_A          108 IFIDEIDAVGRQRG-AG-LGGGH-DEREQTLNQMLVEMDGFEGNEGIIVIAATNRPDVL  163 (257)
T ss_dssp             EEETTHHHHTCCCS-TT-SCCTT-CHHHHHHHHHHHHHHTCCSSSCEEEEEEESCTTTS
T ss_pred             ehhhhhhhhccCCC-CC-cCCCc-hHHHHHHHHHHHHhhCcccCCCEEEEEeeCCchhC
Confidence            99999988764211 11 00111 12223344445444322223467777777655444

>3thx_A DNA mismatch repair protein MSH2; ABC family ATPase, mismatch recognition, mismatched unpaired DNA binding protein-DNA complex; HET: DNA ADP; 2.70A {Homo sapiens} PDB: 2o8c_A* 2o8d_A* 2o8f_A* 3thw_A* 2o8b_A* 3thy_A* 3thz_A* 2o8e_A*

Probab=98.29  E-value=1.2e-06  Score=86.96  Aligned_cols=27  Identities=22%  Similarity=0.070  Sum_probs=23.7

Q ss_pred             CCCCcEEEEEecCCCChHHHHHHHHHH
Q 024705          117 LPKGRIVEIYGREASGKTTLALHVIKE  143 (264)
Q Consensus       117 l~~G~~~~I~G~~GsGKTtl~~~l~~~  143 (264)
                      +.+|++++|+||||+||||++.+++..
T Consensus       659 ~~~g~i~~ItGpNGsGKSTlLr~ial~  685 (934)
T 3thx_A          659 KDKQMFHIITGPNMGGKSTYIRQTGVI  685 (934)
T ss_dssp             TTTBCEEEEECCTTSSHHHHHHHHHHH
T ss_pred             cCCCeEEEEECCCCCCHHHHHHHHHHH
Confidence            567999999999999999999988543

>2v1u_A Cell division control protein 6 homolog; DNA replication, nucleotide-binding, replication, archaea; HET: ADP; 3.10A {Aeropyrum pernix}

Probab=98.28  E-value=7.6e-06  Score=72.54  Aligned_cols=90  Identities=22%  Similarity=0.257  Sum_probs=60.1

Q ss_pred             CCCcEEEEEecCCCChHHHHHHHHHHHhhc------CCeEEEEecCCCCCH-----HHHHHcCCCccceeEeCCCCHHHH
Q 024705          118 PKGRIVEIYGREASGKTTLALHVIKEAQKL------GGYCAYLDVENALDP-----SLAEAMGIDAENLLIAQPDSAENL  186 (264)
Q Consensus       118 ~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~------g~~v~~~~~e~~~~~-----~~~~~~g~~~~~l~~~~~~~~ee~  186 (264)
                      ..+..++|+||+|+|||+++..++..+...      +..++|++.......     .....+|....    ....+..++
T Consensus        42 ~~~~~vll~G~~G~GKT~l~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~l~~~l~~~~~----~~~~~~~~~  117 (387)
T 2v1u_A           42 EKPSNALLYGLTGTGKTAVARLVLRRLEARASSLGVLVKPIYVNARHRETPYRVASAIAEAVGVRVP----FTGLSVGEV  117 (387)
T ss_dssp             CCCCCEEECBCTTSSHHHHHHHHHHHHHHHHHHHTCCEEEEEEETTTSCSHHHHHHHHHHHHSCCCC----SSCCCHHHH
T ss_pred             CCCCcEEEECCCCCCHHHHHHHHHHHHHHHHhccCCCeEEEEEECCcCCCHHHHHHHHHHHhCCCCC----CCCCCHHHH
Confidence            346689999999999999999999877554      667788886554443     23444554321    112345565


Q ss_pred             HHHHHHHhhc-CCccEEEEcCccccc
Q 024705          187 LSVVDTLTKS-GSIDVIVVDSVAALI  211 (264)
Q Consensus       187 ~~~i~~~~~~-~~~~~vvIDsl~~~~  211 (264)
                      ...+...... +++.+++||.+..+.
T Consensus       118 ~~~l~~~l~~~~~~~vlilDEi~~l~  143 (387)
T 2v1u_A          118 YERLVKRLSRLRGIYIIVLDEIDFLP  143 (387)
T ss_dssp             HHHHHHHHTTSCSEEEEEEETTTHHH
T ss_pred             HHHHHHHHhccCCeEEEEEccHhhhc
Confidence            5555555433 347799999999876

>2ce7_A Cell division protein FTSH; metalloprotease; HET: ADP; 2.44A {Thermotoga maritima} SCOP: a.269.1.1 c.37.1.20 PDB: 2cea_A* 3kds_E*

Probab=98.28  E-value=7.8e-06  Score=75.57  Aligned_cols=121  Identities=18%  Similarity=0.204  Sum_probs=66.6

Q ss_pred             CCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCHHHHHHcCCCccceeEeCCCCHHHHHHHHHHHhhc
Q 024705          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTKS  196 (264)
Q Consensus       117 l~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~~~~~~~g~~~~~l~~~~~~~~ee~~~~i~~~~~~  196 (264)
                      +++|  ++|+||||+|||+++..++..+   +.+.++++...-....    .|           .....+...+... ..
T Consensus        48 ~p~g--vLL~GppGtGKT~Laraia~~~---~~~f~~is~~~~~~~~----~g-----------~~~~~~r~lf~~A-~~  106 (476)
T 2ce7_A           48 MPKG--ILLVGPPGTGKTLLARAVAGEA---NVPFFHISGSDFVELF----VG-----------VGAARVRDLFAQA-KA  106 (476)
T ss_dssp             CCSE--EEEECCTTSSHHHHHHHHHHHH---TCCEEEEEGGGTTTCC----TT-----------HHHHHHHHHHHHH-HH
T ss_pred             CCCe--EEEECCCCCCHHHHHHHHHHHc---CCCeeeCCHHHHHHHH----hc-----------ccHHHHHHHHHHH-Hh
Confidence            4444  8899999999999999998865   5556666543221110    00           0111222222222 23


Q ss_pred             CCccEEEEcCccccccccccCCCcCCCCcHHHHHHHHHHHHHHHHHHhccCcEEEEEcccchHhh
Q 024705          197 GSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVKVLLL  261 (264)
Q Consensus       197 ~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r~i~~~L~~l~~~l~~~g~tVi~i~h~~~~~~  261 (264)
                      ..+.+++||.+..+..... .+ .++ ......+.+.+.+..+...-...++.||.++|..+.++
T Consensus       107 ~~p~ILfIDEid~l~~~r~-~~-~~g-~~~~~~~~l~~LL~~ld~~~~~~~viVIaaTn~~~~Ld  168 (476)
T 2ce7_A          107 HAPCIVFIDEIDAVGRHRG-AG-LGG-GHDEREQTLNQLLVEMDGFDSKEGIIVMAATNRPDILD  168 (476)
T ss_dssp             TCSEEEEEETGGGTCCC------------CHHHHHHHHHHHHHHHSCGGGTEEEEEEESCGGGSC
T ss_pred             cCCCEEEEechhhhhhhcc-cc-cCc-CcHHHHHHHHHHHHHHhccCCCCCEEEEEecCChhhhc
Confidence            5789999999999874211 00 000 01122233445555543222346889999888776554

>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=98.28  E-value=7.1e-06  Score=75.15  Aligned_cols=105  Identities=19%  Similarity=0.246  Sum_probs=63.2

Q ss_pred             CcEEEEEecCCCChHHHHHHHHHHHhhc--CCeEEEEecCCCCCHHHHHHcCCCccceeEeCCCCHHHHHHHHHHHhhcC
Q 024705          120 GRIVEIYGREASGKTTLALHVIKEAQKL--GGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTKSG  197 (264)
Q Consensus       120 G~~~~I~G~~GsGKTtl~~~l~~~~~~~--g~~v~~~~~e~~~~~~~~~~~g~~~~~l~~~~~~~~ee~~~~i~~~~~~~  197 (264)
                      +..++|+||||+|||||+..++..+...  +.+++|++.+..... ....+.          ......+..   ..  ..
T Consensus       130 ~~~lll~Gp~G~GKTtLa~aia~~l~~~~~~~~v~~v~~~~~~~~-~~~~~~----------~~~~~~~~~---~~--~~  193 (440)
T 2z4s_A          130 YNPLFIYGGVGLGKTHLLQSIGNYVVQNEPDLRVMYITSEKFLND-LVDSMK----------EGKLNEFRE---KY--RK  193 (440)
T ss_dssp             SCCEEEECSSSSSHHHHHHHHHHHHHHHCCSSCEEEEEHHHHHHH-HHHHHH----------TTCHHHHHH---HH--TT
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEeeHHHHHHH-HHHHHH----------cccHHHHHH---Hh--cC
Confidence            6679999999999999999999887665  778888875432111 111000          001122211   11  12


Q ss_pred             CccEEEEcCccccccccccCCCcCCCCcHHHHHHHHHHHHHHHHHHhccCcEEEEEccc
Q 024705          198 SIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQV  256 (264)
Q Consensus       198 ~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r~i~~~L~~l~~~l~~~g~tVi~i~h~  256 (264)
                      ++++++||.+..+....            ..+..+...+..+    .+.|..+|+++|.
T Consensus       194 ~~~vL~IDEi~~l~~~~------------~~q~~l~~~l~~l----~~~~~~iIitt~~  236 (440)
T 2z4s_A          194 KVDILLIDDVQFLIGKT------------GVQTELFHTFNEL----HDSGKQIVICSDR  236 (440)
T ss_dssp             TCSEEEEECGGGGSSCH------------HHHHHHHHHHHHH----HTTTCEEEEEESS
T ss_pred             CCCEEEEeCcccccCCh------------HHHHHHHHHHHHH----HHCCCeEEEEECC
Confidence            68999999999876310            1222233333333    5668888888875

>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=98.27  E-value=1.6e-05  Score=69.50  Aligned_cols=40  Identities=30%  Similarity=0.300  Sum_probs=34.6

Q ss_pred             CCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecC
Q 024705          118 PKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVE  157 (264)
Q Consensus       118 ~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e  157 (264)
                      ..+..++|+||||+||||++..++..+...+.+++|++.+
T Consensus        35 ~~~~~lll~G~~GtGKT~la~~i~~~~~~~~~~~~~i~~~   74 (324)
T 1l8q_A           35 SLYNPIFIYGSVGTGKTHLLQAAGNEAKKRGYRVIYSSAD   74 (324)
T ss_dssp             TSCSSEEEECSSSSSHHHHHHHHHHHHHHTTCCEEEEEHH
T ss_pred             CCCCeEEEECCCCCcHHHHHHHHHHHHHHCCCEEEEEEHH
Confidence            3567799999999999999999999887778889998854

>3e2i_A Thymidine kinase; Zn-binding, ATP-binding, DNA synthesis, nucleotide-B transferase; HET: MSE; 2.01A {Staphylococcus aureus}

Probab=98.27  E-value=2.5e-06  Score=70.51  Aligned_cols=110  Identities=15%  Similarity=0.148  Sum_probs=69.0

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCC---HHHHHHcCCCccceeEeCCCCHHHHHHHHHH
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALD---PSLAEAMGIDAENLLIAQPDSAENLLSVVDT  192 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~---~~~~~~~g~~~~~l~~~~~~~~ee~~~~i~~  192 (264)
                      --..|.+.+|+|+-|+||||.++..+.++...+.+++++....+..   .....+.|...+...+...   .++...+  
T Consensus        24 ~~~~G~I~vitG~M~sGKTT~Llr~~~r~~~~g~kvli~kp~~D~R~~~~~I~Sr~G~~~~a~~v~~~---~di~~~i--   98 (219)
T 3e2i_A           24 TYHSGWIECITGSMFSGKSEELIRRLRRGIYAKQKVVVFKPAIDDRYHKEKVVSHNGNAIEAINISKA---SEIMTHD--   98 (219)
T ss_dssp             ---CCEEEEEEECTTSCHHHHHHHHHHHHHHTTCCEEEEEEC-----------CBTTBCCEEEEESSG---GGGGGSC--
T ss_pred             ccCCceEEEEECCCCCCHHHHHHHHHHHHHHcCCceEEEEeccCCcchhhhHHHhcCCceeeEEeCCH---HHHHHHH--
Confidence            3467899999999999999988888888888888998886543221   1345556665554443322   2332221  


Q ss_pred             HhhcCCccEEEEcCccccccccccCCCcCCCCcHHHHHHHHHHHHHHHHHHhccCcEEEEEcc
Q 024705          193 LTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQ  255 (264)
Q Consensus       193 ~~~~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r~i~~~L~~l~~~l~~~g~tVi~i~h  255 (264)
                         ..++++|+||..+.+..              .    +...+..++    +.|++||+..=
T Consensus        99 ---~~~~dvV~IDEaQFf~~--------------~----~v~~l~~la----~~gi~Vi~~GL  136 (219)
T 3e2i_A           99 ---LTNVDVIGIDEVQFFDD--------------E----IVSIVEKLS----ADGHRVIVAGL  136 (219)
T ss_dssp             ---CTTCSEEEECCGGGSCT--------------H----HHHHHHHHH----HTTCEEEEEEE
T ss_pred             ---hcCCCEEEEechhcCCH--------------H----HHHHHHHHH----HCCCEEEEeec
Confidence               24789999999997752              1    223455553    56899887643

>2ewv_A Twitching motility protein PILT; pilus retraction motor, ATPase, hexameric PILT, protein TRAN; HET: ADP; 2.80A {Aquifex aeolicus} PDB: 2eww_A* 2gsz_A*

Probab=98.26  E-value=2.7e-06  Score=76.31  Aligned_cols=112  Identities=15%  Similarity=0.150  Sum_probs=65.4

Q ss_pred             CCCCcEEEEEecCCCChHHHHHHHHHHHhhc-CCeEEEEecCCCCCHHHHHHcCCCccceeEeCCCCHHHHHHHHHHHhh
Q 024705          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKL-GGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTK  195 (264)
Q Consensus       117 l~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~-g~~v~~~~~e~~~~~~~~~~~g~~~~~l~~~~~~~~ee~~~~i~~~~~  195 (264)
                      +++|++++|+|||||||||++..++....+. .+.++++......  .....+++..+.-.-..+   ..+...+...+.
T Consensus       133 ~~~g~~i~ivG~~GsGKTTll~~l~~~~~~~~~g~I~~~e~~~e~--~~~~~~~~v~Q~~~g~~~---~~~~~~l~~~L~  207 (372)
T 2ewv_A          133 HRKMGLILVTGPTGSGKSTTIASMIDYINQTKSYHIITIEDPIEY--VFKHKKSIVNQREVGEDT---KSFADALRAALR  207 (372)
T ss_dssp             TSSSEEEEEECSSSSSHHHHHHHHHHHHHHHSCCEEEEEESSCCS--CCCCSSSEEEEEEBTTTB---SCSHHHHHHHTT
T ss_pred             hcCCCEEEEECCCCCCHHHHHHHHHhhcCcCCCcEEEEecccHhh--hhccCceEEEeeecCCCH---HHHHHHHHHHhh
Confidence            5789999999999999999999999887765 6777776632211  001111221211000011   122334444443


Q ss_pred             cCCccEEEEcCccccccccccCCCcCCCCcHHHHHHHHHHHHHHHHHHhccCcEEEEEcccch
Q 024705          196 SGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVKV  258 (264)
Q Consensus       196 ~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r~i~~~L~~l~~~l~~~g~tVi~i~h~~~  258 (264)
                       .+++++++|.+...                ..   +...++    . ...|.+|+.+.|..+
T Consensus       208 -~~pd~illdE~~d~----------------e~---~~~~l~----~-~~~g~~vi~t~H~~~  245 (372)
T 2ewv_A          208 -EDPDVIFVGEMRDL----------------ET---VETALR----A-AETGHLVFGTLHTNT  245 (372)
T ss_dssp             -SCCSEEEESCCCSH----------------HH---HHHHHH----H-HTTTCEEEECCCCCS
T ss_pred             -hCcCEEEECCCCCH----------------HH---HHHHHH----H-HhcCCEEEEEECcch
Confidence             48999999987611                11   112222    1 246889999999865

>1w4r_A Thymidine kinase; type II, human, cytosolic, phosphorylation, transferase; HET: TTP; 1.83A {Homo sapiens} PDB: 1xbt_A* 2wvj_A* 2j87_A*

Probab=98.26  E-value=3.9e-06  Score=68.26  Aligned_cols=110  Identities=16%  Similarity=0.146  Sum_probs=72.2

Q ss_pred             CCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCC--HHHHHHcCCCccceeEeCCCCHHHHHHHHHHHhh
Q 024705          118 PKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALD--PSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTK  195 (264)
Q Consensus       118 ~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~--~~~~~~~g~~~~~l~~~~~~~~ee~~~~i~~~~~  195 (264)
                      ..|.+..|+||.|+||||.+++.+.+...++.+|+|+..+.+..  .....++|...+...+   .+.+++....     
T Consensus        18 ~~g~l~fiyG~MgsGKTt~Ll~~i~n~~~~~~kvl~~kp~~D~R~~~~i~S~~g~~~~A~~~---~~~~d~~~~~-----   89 (195)
T 1w4r_A           18 TRGQIQVILGPMFSGKSTELMRRVRRFQIAQYKCLVIKYAKDTRYSSSFCTHDRNTMEALPA---CLLRDVAQEA-----   89 (195)
T ss_dssp             -CCEEEEEEECTTSCHHHHHHHHHHHHHHTTCCEEEEEETTCCCGGGSCCHHHHHHSEEEEE---SSGGGGHHHH-----
T ss_pred             CceEEEEEECCCCCcHHHHHHHHHHHHHHcCCeEEEEccccCccchhhhhhccCCcccceec---CCHHHHHHhc-----
Confidence            46899999999999999999999999998999999998653322  1122233332222222   2233444321     


Q ss_pred             cCCccEEEEcCccccccccccCCCcCCCCcHHHHHHHHHHHHHHHHHHhccCcEEEEEcccchH
Q 024705          196 SGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVKVL  259 (264)
Q Consensus       196 ~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r~i~~~L~~l~~~l~~~g~tVi~i~h~~~~  259 (264)
                       ..+++|+||..+-+ .              .+    ..++..+    .+.|+.||+.....+.
T Consensus        90 -~~~DvIlIDEaQFf-k--------------~~----ve~~~~L----~~~gk~VI~~GL~~DF  129 (195)
T 1w4r_A           90 -LGVAVIGIDEGQFF-P--------------DI----VEFCEAM----ANAGKTVIVAALDGTF  129 (195)
T ss_dssp             -HTCSEEEESSGGGC-T--------------TH----HHHHHHH----HHTTCEEEEEEESBCT
T ss_pred             -cCCCEEEEEchhhh-H--------------HH----HHHHHHH----HHCCCeEEEEeccccc
Confidence             25899999999988 3              11    2344444    4679999998776553

>2r8r_A Sensor protein; KDPD, PFAM02702, MCSG, structural genomics, protein structure initiative, midwest center for structural genomics, kinase; 2.30A {Pseudomonas syringae PV}

Probab=98.26  E-value=3.6e-06  Score=70.13  Aligned_cols=84  Identities=19%  Similarity=0.167  Sum_probs=56.0

Q ss_pred             CCcE-EEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCHHHHH-HcCCCccc--eeEe-----CCCCHHHHHHH
Q 024705          119 KGRI-VEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAE-AMGIDAEN--LLIA-----QPDSAENLLSV  189 (264)
Q Consensus       119 ~G~~-~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~~~~~-~~g~~~~~--l~~~-----~~~~~ee~~~~  189 (264)
                      +|.+ +++.|++|+||||++.+++..++..|.+|++++.+......... .-|.....  ...+     .....+..+. 
T Consensus         4 ~g~l~I~~~~kgGvGKTt~a~~la~~l~~~G~~V~v~d~D~q~~~~~~al~~gl~~~~~~~~~~~~~~~~e~~l~~~L~-   82 (228)
T 2r8r_A            4 RGRLKVFLGAAPGVGKTYAMLQAAHAQLRQGVRVMAGVVETHGRAETEALLNGLPQQPLLRTEYRGMTLEEMDLDALLK-   82 (228)
T ss_dssp             CCCEEEEEESSTTSSHHHHHHHHHHHHHHTTCCEEEEECCCTTCHHHHHHHTTSCBCCCEEEEETTEEEEECCHHHHHH-
T ss_pred             CceEEEEEECCCCCcHHHHHHHHHHHHHHCCCCEEEEEeCCCCChhHHHHhcCccccCcceeecCCcccccccHHHHHh-
Confidence            4555 77889999999999999999999999999999988765553322 22322211  1111     1123333321 


Q ss_pred             HHHHhhcCCccEEEEcCcccc
Q 024705          190 VDTLTKSGSIDVIVVDSVAAL  210 (264)
Q Consensus       190 i~~~~~~~~~~~vvIDsl~~~  210 (264)
                             .++++++||.+...
T Consensus        83 -------~~pdlvIVDElG~~   96 (228)
T 2r8r_A           83 -------AAPSLVLVDELAHT   96 (228)
T ss_dssp             -------HCCSEEEESCTTCB
T ss_pred             -------cCCCEEEEeCCCCC
Confidence                   26899999998865

>1sq5_A Pantothenate kinase; P-loop, transferase; HET: PAU ADP; 2.20A {Escherichia coli} SCOP: c.37.1.6 PDB: 1esm_A* 1esn_A*

Probab=98.26  E-value=5.2e-06  Score=72.47  Aligned_cols=94  Identities=16%  Similarity=0.170  Sum_probs=61.6

Q ss_pred             CCCCcEEEEEecCCCChHHHHHHHHHHHh--hcCCeEEEEecCCCCC-HHHHHHcCCCccceeEeCCCCHHHHHHHHHHH
Q 024705          117 LPKGRIVEIYGREASGKTTLALHVIKEAQ--KLGGYCAYLDVENALD-PSLAEAMGIDAENLLIAQPDSAENLLSVVDTL  193 (264)
Q Consensus       117 l~~G~~~~I~G~~GsGKTtl~~~l~~~~~--~~g~~v~~~~~e~~~~-~~~~~~~g~~~~~l~~~~~~~~ee~~~~i~~~  193 (264)
                      ..+|.++.|.||+|||||||+..++....  +.++.+.+++.+.... ....+.+|+. +........+..++...+..+
T Consensus        77 ~~~g~iigI~G~~GsGKSTl~~~L~~~l~~~~~~G~i~vi~~d~~~~~~~~~~~~~~v-q~~~~~~~~~~~~~~~~~~~l  155 (308)
T 1sq5_A           77 QRIPYIISIAGSVAVGKSTTARVLQALLSRWPEHRRVELITTDGFLHPNQVLKERGLM-KKKGFPESYDMHRLVKFVSDL  155 (308)
T ss_dssp             CCCCEEEEEEECTTSSHHHHHHHHHHHHTTSTTCCCEEEEEGGGGBCCHHHHHHHTCT-TCTTSGGGBCHHHHHHHHHHH
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHHHHhhCCCCCeEEEEecCCccCcHHHHHhCCEe-ecCCCCCCccHHHHHHHHHHH
Confidence            47899999999999999999998888765  5667788877665332 2233445665 433333344666666655443


Q ss_pred             hhc------------------------CCccEEEEcCccccc
Q 024705          194 TKS------------------------GSIDVIVVDSVAALI  211 (264)
Q Consensus       194 ~~~------------------------~~~~~vvIDsl~~~~  211 (264)
                      ...                        .+++++|+|....+.
T Consensus       156 ~~~~~~i~~P~~~~~~~~~~~~~~~~~~~~~ivIlEG~~l~~  197 (308)
T 1sq5_A          156 KSGVPNVTAPVYSHLIYDVIPDGDKTVVQPDILILEGLNVLQ  197 (308)
T ss_dssp             TTTCSCEEECCEETTTTEECTTCCEEEC-CCEEEEECTTTTC
T ss_pred             hCCCCceecccccccccCcccccceecCCCCEEEECchhhCC
Confidence            211                        235789999876655

>1ye8_A Protein THEP1, hypothetical UPF0334 kinase-like protein AQ_1292; mixed alpha-beta protein, rossman fold, signaling protein, transferase; 1.40A {Aquifex aeolicus} SCOP: c.37.1.11

Probab=98.24  E-value=2.8e-06  Score=68.24  Aligned_cols=23  Identities=30%  Similarity=0.442  Sum_probs=20.6

Q ss_pred             EEEEEecCCCChHHHHHHHHHHH
Q 024705          122 IVEIYGREASGKTTLALHVIKEA  144 (264)
Q Consensus       122 ~~~I~G~~GsGKTtl~~~l~~~~  144 (264)
                      .+.|.||||||||||+..++...
T Consensus         2 ~i~l~G~nGsGKTTLl~~l~g~l   24 (178)
T 1ye8_A            2 KIIITGEPGVGKTTLVKKIVERL   24 (178)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            57899999999999999888776

>1zu4_A FTSY; GTPase, signal recognition particle, SRP, receptor, protein transport; 1.95A {Mycoplasma mycoides} PDB: 1zu5_A

Probab=98.24  E-value=5.2e-06  Score=72.94  Aligned_cols=94  Identities=13%  Similarity=0.137  Sum_probs=59.2

Q ss_pred             CCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCHH--HHHHcCC-C-ccceeEe-C---CCCHHH-HH
Q 024705          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPS--LAEAMGI-D-AENLLIA-Q---PDSAEN-LL  187 (264)
Q Consensus       117 l~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~~--~~~~~g~-~-~~~l~~~-~---~~~~ee-~~  187 (264)
                      ..+|.++.|+|++|+||||++.+++..+...|++|++++.+......  ....++- . ..++.+. .   ...+.. ..
T Consensus       102 ~~~~~vI~ivG~~G~GKTT~~~~LA~~l~~~g~kVllid~D~~r~~a~~ql~~~~~~~~~~~l~vip~~~~~~~p~~~~~  181 (320)
T 1zu4_A          102 ENRLNIFMLVGVNGTGKTTSLAKMANYYAELGYKVLIAAADTFRAGATQQLEEWIKTRLNNKVDLVKANKLNADPASVVF  181 (320)
T ss_dssp             TTSCEEEEEESSTTSSHHHHHHHHHHHHHHTTCCEEEEECCCSCHHHHHHHHHHHTTTSCTTEEEECCSSTTCCHHHHHH
T ss_pred             CCCCeEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEeCCCcchhHHHHHHHHHhccccCCceEEeCCCCCCCHHHHHH
Confidence            35789999999999999999999999998889999999987643221  0111110 0 1233333 1   112222 22


Q ss_pred             HHHHHHhhcCCccEEEEcCccccc
Q 024705          188 SVVDTLTKSGSIDVIVVDSVAALI  211 (264)
Q Consensus       188 ~~i~~~~~~~~~~~vvIDsl~~~~  211 (264)
                      +.+.... ..++++|+||+...+.
T Consensus       182 ~~l~~~~-~~~yD~VIIDTpg~l~  204 (320)
T 1zu4_A          182 DAIKKAK-EQNYDLLLIDTAGRLQ  204 (320)
T ss_dssp             HHHHHHH-HTTCSEEEEECCCCGG
T ss_pred             HHHHHHH-hcCCCEEEEcCCCccc
Confidence            3333222 3579999999766543

>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding, nucleotide-binding, hydrolase; 2.70A {Drosophila melanogaster}

Probab=98.23  E-value=1e-05  Score=69.58  Aligned_cols=75  Identities=19%  Similarity=0.276  Sum_probs=49.0

Q ss_pred             CCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCHHHHHHcCCCccceeEeCCCCHHHHHHHHHHHhhcCC
Q 024705          119 KGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTKSGS  198 (264)
Q Consensus       119 ~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~~~~~~~g~~~~~l~~~~~~~~ee~~~~i~~~~~~~~  198 (264)
                      ++..++|+||||+|||+++..++...   +...++++.......                .....++....+........
T Consensus        53 ~~~~vll~Gp~GtGKT~la~~la~~~---~~~~~~i~~~~l~~~----------------~~~~~~~~~~~~~~~~~~~~  113 (297)
T 3b9p_A           53 PAKGLLLFGPPGNGKTLLARAVATEC---SATFLNISAASLTSK----------------YVGDGEKLVRALFAVARHMQ  113 (297)
T ss_dssp             CCSEEEEESSSSSCHHHHHHHHHHHT---TCEEEEEESTTTSSS----------------SCSCHHHHHHHHHHHHHHTC
T ss_pred             CCCeEEEECcCCCCHHHHHHHHHHHh---CCCeEEeeHHHHhhc----------------ccchHHHHHHHHHHHHHHcC
Confidence            46779999999999999999988754   455666654321110                01123333333333334467


Q ss_pred             ccEEEEcCcccccc
Q 024705          199 IDVIVVDSVAALIP  212 (264)
Q Consensus       199 ~~~vvIDsl~~~~~  212 (264)
                      +.+++||.+..+..
T Consensus       114 ~~vl~iDEid~l~~  127 (297)
T 3b9p_A          114 PSIIFIDEVDSLLS  127 (297)
T ss_dssp             SEEEEEETGGGTSB
T ss_pred             CcEEEeccHHHhcc
Confidence            89999999999875

>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=98.23  E-value=4.1e-06  Score=73.43  Aligned_cols=79  Identities=22%  Similarity=0.268  Sum_probs=50.7

Q ss_pred             CCCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCHHHHHHcCCCccceeEeCCCCHHHHHHHHHHHh
Q 024705          115 GGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLT  194 (264)
Q Consensus       115 gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~~~~~~~g~~~~~l~~~~~~~~ee~~~~i~~~~  194 (264)
                      ++..+..-++|+||||+|||+++..++...   +..+++++...-        .+...        ...+.....+-...
T Consensus        46 ~~~~~~~~vLl~GppGtGKT~la~aia~~~---~~~~~~v~~~~l--------~~~~~--------g~~~~~~~~~f~~a  106 (322)
T 3eie_A           46 GNRKPTSGILLYGPPGTGKSYLAKAVATEA---NSTFFSVSSSDL--------VSKWM--------GESEKLVKQLFAMA  106 (322)
T ss_dssp             TTCCCCCEEEEECSSSSCHHHHHHHHHHHH---TCEEEEEEHHHH--------HTTTG--------GGHHHHHHHHHHHH
T ss_pred             cCCCCCCeEEEECCCCCcHHHHHHHHHHHH---CCCEEEEchHHH--------hhccc--------chHHHHHHHHHHHH
Confidence            344556779999999999999999998764   556666654210        01000        01233333333333


Q ss_pred             hcCCccEEEEcCcccccc
Q 024705          195 KSGSIDVIVVDSVAALIP  212 (264)
Q Consensus       195 ~~~~~~~vvIDsl~~~~~  212 (264)
                      ....+.+++||.+..+.+
T Consensus       107 ~~~~~~vl~iDEid~l~~  124 (322)
T 3eie_A          107 RENKPSIIFIDQVDALTG  124 (322)
T ss_dssp             HHTSSEEEEEECGGGGSC
T ss_pred             HhcCCeEEEechhhhhhc
Confidence            446789999999999875

>1jbk_A CLPB protein; beta barrel, chaperone; 1.80A {Escherichia coli} SCOP: c.37.1.20

Probab=98.23  E-value=8e-06  Score=64.66  Aligned_cols=81  Identities=17%  Similarity=0.245  Sum_probs=48.4

Q ss_pred             CCcEEEEEecCCCChHHHHHHHHHHHhh-------cCCeEEEEecCCCCCHHHHHHcCCCccceeEeCCCCHHHHHHHHH
Q 024705          119 KGRIVEIYGREASGKTTLALHVIKEAQK-------LGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVD  191 (264)
Q Consensus       119 ~G~~~~I~G~~GsGKTtl~~~l~~~~~~-------~g~~v~~~~~e~~~~~~~~~~~g~~~~~l~~~~~~~~ee~~~~i~  191 (264)
                      .+..++|+||+|+|||+++..++..+..       .+..+++++.....       .+....      ......+...+.
T Consensus        42 ~~~~~ll~G~~G~GKT~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-------~~~~~~------~~~~~~~~~~~~  108 (195)
T 1jbk_A           42 TKNNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLALDMGALV-------AGAKYR------GEFEERLKGVLN  108 (195)
T ss_dssp             SSCEEEEECCTTSCHHHHHHHHHHHHHHTCSCGGGTTCEEEEECHHHHH-------TTTCSH------HHHHHHHHHHHH
T ss_pred             CCCceEEECCCCCCHHHHHHHHHHHHHhCCCchhhcCCcEEEeeHHHHh-------ccCCcc------ccHHHHHHHHHH
Confidence            4567899999999999999999988754       35666666532100       000000      000111222233


Q ss_pred             HHhhcCCccEEEEcCcccccc
Q 024705          192 TLTKSGSIDVIVVDSVAALIP  212 (264)
Q Consensus       192 ~~~~~~~~~~vvIDsl~~~~~  212 (264)
                      ......++.+++||.+..+..
T Consensus       109 ~~~~~~~~~vl~iDe~~~l~~  129 (195)
T 1jbk_A          109 DLAKQEGNVILFIDELHTMVG  129 (195)
T ss_dssp             HHHHSTTTEEEEEETGGGGTT
T ss_pred             HHhhcCCCeEEEEeCHHHHhc
Confidence            333345677999999998874

>3cf2_A TER ATPase, transitional endoplasmic reticulum ATPase, valosi; AAA, CDC48, ERAD, transport protein; HET: ADP ANP; 3.50A {Mus musculus} PDB: 3cf1_A* 3cf3_A* 1r7r_A*

Probab=98.23  E-value=1.1e-05  Score=78.84  Aligned_cols=122  Identities=20%  Similarity=0.263  Sum_probs=73.3

Q ss_pred             CCCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCHHHHHHcCCCccceeEeCCCCHHHHHHHHHHHh
Q 024705          115 GGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLT  194 (264)
Q Consensus       115 gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~~~~~~~g~~~~~l~~~~~~~~ee~~~~i~~~~  194 (264)
                      .|+.+..-++++||||+|||+++..++..+   +...++++...-        ++-.        .-..+..+..+-...
T Consensus       233 ~g~~~p~GILL~GPPGTGKT~LAraiA~el---g~~~~~v~~~~l--------~sk~--------~gese~~lr~lF~~A  293 (806)
T 3cf2_A          233 IGVKPPRGILLYGPPGTGKTLIARAVANET---GAFFFLINGPEI--------MSKL--------AGESESNLRKAFEEA  293 (806)
T ss_dssp             CCCCCCCEEEEECCTTSCHHHHHHHHHTTT---TCEEEEEEHHHH--------HSSC--------TTHHHHHHHHHHHHH
T ss_pred             cCCCCCCeEEEECCCCCCHHHHHHHHHHHh---CCeEEEEEhHHh--------hccc--------chHHHHHHHHHHHHH
Confidence            467777789999999999999999888743   556666653210        1100        011233333333333


Q ss_pred             hcCCccEEEEcCccccccccccCCCcCCCCcHHHHHHHHHHHHHHHHHHhccCcEEEEEcccchHhh
Q 024705          195 KSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVKVLLL  261 (264)
Q Consensus       195 ~~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r~i~~~L~~l~~~l~~~g~tVi~i~h~~~~~~  261 (264)
                      +...+.+++||.+..+.+..+  +.    ..+...+.+.+.+..+.....+.++.||.++...+.++
T Consensus       294 ~~~~PsIIfIDEiDal~~~r~--~~----~~~~~~riv~~LL~~mdg~~~~~~V~VIaaTN~~d~LD  354 (806)
T 3cf2_A          294 EKNAPAIIFIDELDAIAPKRE--KT----HGEVERRIVSQLLTLMDGLKQRAHVIVMAATNRPNSID  354 (806)
T ss_dssp             TTSCSEEEEEESGGGTCCTTT--TC----CCTTHHHHHHHHHTHHHHCCGGGCEEEEEECSSTTTSC
T ss_pred             HHcCCeEEEEehhcccccccC--CC----CChHHHHHHHHHHHHHhcccccCCEEEEEecCChhhcC
Confidence            456899999999999985321  11    11133444555555555444556788887776555443

>2w58_A DNAI, primosome component (helicase loader); ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.50A {Geobacillus kaustophilus HTA426}

Probab=98.22  E-value=6.1e-06  Score=66.97  Aligned_cols=37  Identities=22%  Similarity=0.117  Sum_probs=32.9

Q ss_pred             cEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecC
Q 024705          121 RIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVE  157 (264)
Q Consensus       121 ~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e  157 (264)
                      ..++|+||+|+|||+++..++..+...+.+++|++..
T Consensus        55 ~~~~l~G~~GtGKT~la~~i~~~~~~~~~~~~~~~~~   91 (202)
T 2w58_A           55 KGLYLHGSFGVGKTYLLAAIANELAKRNVSSLIVYVP   91 (202)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHHHTTTCCEEEEEHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEEhH
Confidence            6789999999999999999999888888889888753

>2i3b_A HCR-ntpase, human cancer-related ntpase; AAA, rossmann, hydrolase; NMR {Homo sapiens} SCOP: c.37.1.11

Probab=98.22  E-value=1.5e-07  Score=76.66  Aligned_cols=26  Identities=31%  Similarity=0.293  Sum_probs=23.7

Q ss_pred             CcEEEEEecCCCChHHHHHHHHHHHh
Q 024705          120 GRIVEIYGREASGKTTLALHVIKEAQ  145 (264)
Q Consensus       120 G~~~~I~G~~GsGKTtl~~~l~~~~~  145 (264)
                      |+.+.|.||||+||||++..++....
T Consensus         1 G~~i~i~G~nG~GKTTll~~l~g~~~   26 (189)
T 2i3b_A            1 ARHVFLTGPPGVGKTTLIHKASEVLK   26 (189)
T ss_dssp             CCCEEEESCCSSCHHHHHHHHHHHHH
T ss_pred             CCEEEEECCCCChHHHHHHHHHhhcc
Confidence            67899999999999999999988776

>1ls1_A Signal recognition particle protein; FFH, SRP54, SRP, GTPase, ultrahigh resolution, protein transport; 1.10A {Thermus aquaticus} SCOP: a.24.13.1 c.37.1.10 PDB: 1jpn_B* 1jpj_A* 1ry1_U* 2j45_A* 1o87_A* 2c04_A* 2j46_A* 1rj9_B* 2c03_A* 2j7p_A* 1okk_A* 2cnw_A* 1ng1_A* 2xkv_A 3ng1_A 1ffh_A 2ng1_A*

Probab=98.21  E-value=6.4e-06  Score=71.54  Aligned_cols=87  Identities=22%  Similarity=0.279  Sum_probs=57.8

Q ss_pred             CCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCHH------HHHHcCCCccceeEeCCCCHHHHHH-HHH
Q 024705          119 KGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPS------LAEAMGIDAENLLIAQPDSAENLLS-VVD  191 (264)
Q Consensus       119 ~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~~------~~~~~g~~~~~l~~~~~~~~ee~~~-~i~  191 (264)
                      +|+++.++|++|+||||++.+++......+++|.+++.+......      ..+..|++.  +......++.++.. .+.
T Consensus        97 ~~~~i~i~g~~G~GKTT~~~~la~~~~~~~~~v~l~~~d~~~~~~~~ql~~~~~~~~l~~--~~~~~~~~p~~l~~~~l~  174 (295)
T 1ls1_A           97 DRNLWFLVGLQGSGKTTTAAKLALYYKGKGRRPLLVAADTQRPAAREQLRLLGEKVGVPV--LEVMDGESPESIRRRVEE  174 (295)
T ss_dssp             SSEEEEEECCTTTTHHHHHHHHHHHHHHTTCCEEEEECCSSCHHHHHHHHHHHHHHTCCE--EECCTTCCHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEecCCcccHhHHHHHHHhcccCCeEE--EEcCCCCCHHHHHHHHHH
Confidence            688999999999999999999999998889999999987654321      122333321  10011234445533 233


Q ss_pred             HHhhcCCccEEEEcCcc
Q 024705          192 TLTKSGSIDVIVVDSVA  208 (264)
Q Consensus       192 ~~~~~~~~~~vvIDsl~  208 (264)
                      .. ...++++|+||+..
T Consensus       175 ~~-~~~~~D~viiDtpp  190 (295)
T 1ls1_A          175 KA-RLEARDLILVDTAG  190 (295)
T ss_dssp             HH-HHHTCCEEEEECCC
T ss_pred             HH-HhCCCCEEEEeCCC
Confidence            32 22478999999873

>3thx_B DNA mismatch repair protein MSH3; ABC family ATPase, mismatch recognition, mismatched unpaired DNA binding protein-DNA complex; HET: DNA ADP; 2.70A {Homo sapiens} PDB: 3thw_B* 3thy_B* 3thz_B*

Probab=98.21  E-value=1.3e-06  Score=86.50  Aligned_cols=27  Identities=22%  Similarity=0.246  Sum_probs=24.1

Q ss_pred             CCCCcEEEEEecCCCChHHHHHHHHHH
Q 024705          117 LPKGRIVEIYGREASGKTTLALHVIKE  143 (264)
Q Consensus       117 l~~G~~~~I~G~~GsGKTtl~~~l~~~  143 (264)
                      +++|++++|+||||+||||++.+++..
T Consensus       670 ~~~g~i~~ItGPNGaGKSTlLr~i~~i  696 (918)
T 3thx_B          670 EDSERVMIITGPNMGGKSSYIKQVALI  696 (918)
T ss_dssp             TTSCCEEEEESCCCHHHHHHHHHHHHH
T ss_pred             CCCCeEEEEECCCCCchHHHHHHHHHH
Confidence            578999999999999999999988654

>2pt7_A CAG-ALFA; ATPase, protein-protein complex, type IV secretion, hydrolas binding complex; 2.40A {Helicobacter pylori} SCOP: c.37.1.11 PDB: 1nly_A* 1nlz_A 1opx_A* 1g6o_A

Probab=98.20  E-value=5.7e-07  Score=79.46  Aligned_cols=109  Identities=12%  Similarity=0.068  Sum_probs=60.7

Q ss_pred             CCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCHHHHHHcCCCccceeEeCCCCHHHHHHHHHHHhhc
Q 024705          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTKS  196 (264)
Q Consensus       117 l~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~~~~~~~g~~~~~l~~~~~~~~ee~~~~i~~~~~~  196 (264)
                      +++|++++|.||||||||||+..++....+..+ .+.++.......      ....+.+.+... ........+...+ .
T Consensus       168 i~~g~~v~i~G~~GsGKTTll~~l~g~~~~~~g-~i~i~~~~e~~~------~~~~~~i~~~~g-gg~~~r~~la~aL-~  238 (330)
T 2pt7_A          168 IAIGKNVIVCGGTGSGKTTYIKSIMEFIPKEER-IISIEDTEEIVF------KHHKNYTQLFFG-GNITSADCLKSCL-R  238 (330)
T ss_dssp             HHHTCCEEEEESTTSCHHHHHHHGGGGSCTTSC-EEEEESSCCCCC------SSCSSEEEEECB-TTBCHHHHHHHHT-T
T ss_pred             ccCCCEEEEECCCCCCHHHHHHHHhCCCcCCCc-EEEECCeecccc------ccchhEEEEEeC-CChhHHHHHHHHh-h
Confidence            457899999999999999988888776655444 444443221110      000122223211 1111222222222 2


Q ss_pred             CCccEEEEcCccccccccccCCCcCCCCcHHHHHHHHHHHHHHHHHHhccCcEEEEEcccch
Q 024705          197 GSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVKV  258 (264)
Q Consensus       197 ~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r~i~~~L~~l~~~l~~~g~tVi~i~h~~~  258 (264)
                      .+|+++++|.....                    ++...++.+    ..-+.++++++|..+
T Consensus       239 ~~p~ilildE~~~~--------------------e~~~~l~~~----~~g~~tvi~t~H~~~  276 (330)
T 2pt7_A          239 MRPDRIILGELRSS--------------------EAYDFYNVL----CSGHKGTLTTLHAGS  276 (330)
T ss_dssp             SCCSEEEECCCCST--------------------HHHHHHHHH----HTTCCCEEEEEECSS
T ss_pred             hCCCEEEEcCCChH--------------------HHHHHHHHH----hcCCCEEEEEEcccH
Confidence            58999999987651                    022344443    333457999999876

>2o8b_B DNA mismatch repair protein MSH6; DNA damage response, somatic hypermutat protein-DNA complex, DNA mispair, cancer; HET: DNA ADP; 2.75A {Homo sapiens} PDB: 2o8c_B* 2o8d_B* 2o8e_B* 2o8f_B*

Probab=98.20  E-value=2e-05  Score=79.10  Aligned_cols=125  Identities=13%  Similarity=0.183  Sum_probs=60.8

Q ss_pred             CcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCC---CCCHHHHHHcCCCccceeEeCCCC-HHHHHHHHHHHhh
Q 024705          120 GRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVEN---ALDPSLAEAMGIDAENLLIAQPDS-AENLLSVVDTLTK  195 (264)
Q Consensus       120 G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~---~~~~~~~~~~g~~~~~l~~~~~~~-~ee~~~~i~~~~~  195 (264)
                      |++++|+||||+||||++.++ +.+.....-..|+..+.   +.......++|.. +.+. ....+ ..++.........
T Consensus       789 g~i~~ItGpNgsGKSTlLr~i-Gl~~~~aqiG~~Vpq~~~~l~v~d~I~~rig~~-d~~~-~~~stf~~em~~~a~al~l  865 (1022)
T 2o8b_B          789 AYCVLVTGPNMGGKSTLMRQA-GLLAVMAQMGCYVPAEVCRLTPIDRVFTRLGAS-DRIM-SGESTFFVELSETASILMH  865 (1022)
T ss_dssp             CCEEEEECCTTSSHHHHHHHH-HHHHHHHTTTCCEESSEEEECCCSBEEEECC-----------CHHHHHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCChHHHHHHH-HHHHHHhheeEEeccCcCCCCHHHHHHHHcCCH-HHHh-hchhhhHHHHHHHHHHHHh
Confidence            899999999999999999998 43321100001222211   0000001111111 0000 00000 1122222111222


Q ss_pred             cCCccEEEEcCccccccccccCCCcCCCCcHHHHHHHHHHHHHHHHHHhccCcEEEEEcccchHhhh
Q 024705          196 SGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVKVLLLK  262 (264)
Q Consensus       196 ~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r~i~~~L~~l~~~l~~~g~tVi~i~h~~~~~~~  262 (264)
                      ..++.++++|.+..-...  .          .....+...+..+.   ++.|+++|+++|..+....
T Consensus       866 a~~~sLlLLDEp~~Gtd~--~----------dg~~~~~~il~~L~---~~~g~~vl~~TH~~el~~~  917 (1022)
T 2o8b_B          866 ATAHSLVLVDELGRGTAT--F----------DGTAIANAVVKELA---ETIKCRTLFSTHYHSLVED  917 (1022)
T ss_dssp             CCTTCEEEEECTTTTSCH--H----------HHHHHHHHHHHHHH---HTSCCEEEEECCCHHHHHH
T ss_pred             CCCCcEEEEECCCCCCCh--H----------HHHHHHHHHHHHHH---hcCCCEEEEEeCCHHHHHH
Confidence            357899999988765421  0          11122334555553   4459999999999876543

>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic; photosynthesis, rubisco activase, AAA+ protein; 2.95A {Nicotiana tabacum} PDB: 3zw6_A

Probab=98.20  E-value=2.8e-06  Score=73.59  Aligned_cols=83  Identities=12%  Similarity=0.147  Sum_probs=47.9

Q ss_pred             CCCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCHHHHHHcCCCccceeEeCCCCHHHHHHHHHHHh
Q 024705          115 GGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLT  194 (264)
Q Consensus       115 gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~~~~~~~g~~~~~l~~~~~~~~ee~~~~i~~~~  194 (264)
                      .|..+...++|+||||+|||+++..++..+   +.++++++...-...    ..|..        .....+.+.......
T Consensus        31 ~~~~~p~~lLl~GppGtGKT~la~aiA~~l---~~~~i~v~~~~l~~~----~~g~~--------~~~i~~~f~~a~~~~   95 (293)
T 3t15_A           31 PNIKVPLILGIWGGKGQGKSFQCELVFRKM---GINPIMMSAGELESG----NAGEP--------AKLIRQRYREAAEII   95 (293)
T ss_dssp             TTCCCCSEEEEEECTTSCHHHHHHHHHHHH---TCCCEEEEHHHHHCC-------HH--------HHHHHHHHHHHHHHH
T ss_pred             CCCCCCeEEEEECCCCCCHHHHHHHHHHHh---CCCEEEEeHHHhhhc----cCchh--------HHHHHHHHHHHHHHH
Confidence            356666789999999999999999998876   566777763211000    00000        000112222232333


Q ss_pred             hcCCccEEEEcCcccccc
Q 024705          195 KSGSIDVIVVDSVAALIP  212 (264)
Q Consensus       195 ~~~~~~~vvIDsl~~~~~  212 (264)
                      +...+.+++||.+..+.+
T Consensus        96 ~~~~~~vl~iDEiD~~~~  113 (293)
T 3t15_A           96 RKGNMCCLFINDLDAGAG  113 (293)
T ss_dssp             TTSSCCCEEEECCC----
T ss_pred             hcCCCeEEEEechhhhcC
Confidence            456789999999998875

>2iw3_A Elongation factor 3A; acetylation, ATP-binding, protein biosynthesis, nucleotide-binding, phosphorylation, RNA- binding, rRNA-binding; HET: ADP; 2.4A {Saccharomyces cerevisiae} PDB: 2iwh_A* 2ix3_A 2ix8_A

Probab=98.19  E-value=2.9e-06  Score=84.38  Aligned_cols=26  Identities=31%  Similarity=0.448  Sum_probs=24.3

Q ss_pred             CCCCcEEEEEecCCCChHHHHHHHHH
Q 024705          117 LPKGRIVEIYGREASGKTTLALHVIK  142 (264)
Q Consensus       117 l~~G~~~~I~G~~GsGKTtl~~~l~~  142 (264)
                      +++|+++.|.||||||||||+..++.
T Consensus       458 I~~Ge~v~LiGpNGsGKSTLLk~Lag  483 (986)
T 2iw3_A          458 LKRARRYGICGPNGCGKSTLMRAIAN  483 (986)
T ss_dssp             EETTCEEEEECSTTSSHHHHHHHHHH
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhC
Confidence            78999999999999999999998884

>4f4c_A Multidrug resistance protein PGP-1; ABC transporter, ATPase, multi-drug transporter, exporter, A binding, hydrolase,protein transport; HET: NDG NAG BMA MAN 0SA; 3.40A {Caenorhabditis elegans}

Probab=98.19  E-value=1.4e-06  Score=89.76  Aligned_cols=60  Identities=17%  Similarity=0.281  Sum_probs=40.3

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCC--CC-HHHHHHcCCCcccee
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENA--LD-PSLAEAMGIDAENLL  176 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~--~~-~~~~~~~g~~~~~l~  176 (264)
                      -+++|+.+.|+||+||||||++..+.....+..|.+ .++...-  .. ..+.+.+++.+|+..
T Consensus       440 ~i~~G~~vaivG~sGsGKSTll~ll~~~~~~~~G~I-~idG~~i~~~~~~~lr~~i~~v~Q~~~  502 (1321)
T 4f4c_A          440 RVNAGQTVALVGSSGCGKSTIISLLLRYYDVLKGKI-TIDGVDVRDINLEFLRKNVAVVSQEPA  502 (1321)
T ss_dssp             EECTTCEEEEEECSSSCHHHHHHHHTTSSCCSEEEE-EETTEETTTSCHHHHHHHEEEECSSCC
T ss_pred             eecCCcEEEEEecCCCcHHHHHHHhccccccccCcc-cCCCccchhccHHHHhhcccccCCcce
Confidence            378999999999999999998888777665555444 4443211  11 234556777666543

>1oft_A SULA, hypothetical protein PA3008; bacterial cell division inhibitor, FTSZ, SULA protein; 2.9A {Pseudomonas aeruginosa} SCOP: c.37.1.22

Probab=98.19  E-value=3e-05  Score=60.92  Aligned_cols=108  Identities=12%  Similarity=0.059  Sum_probs=73.0

Q ss_pred             CCccccCcHHHHHHhcCCCCCCCcEEEEEe-cCCCChHHHHHHHHHHHhh--cCCeEEEEecCCCCCHHHHHHcCCCccc
Q 024705           98 GPVISTGSLKLDLALGIGGLPKGRIVEIYG-REASGKTTLALHVIKEAQK--LGGYCAYLDVENALDPSLAEAMGIDAEN  174 (264)
Q Consensus        98 ~~~i~tG~~~LD~~l~~gGl~~G~~~~I~G-~~GsGKTtl~~~l~~~~~~--~g~~v~~~~~e~~~~~~~~~~~g~~~~~  174 (264)
                      ...+|-|.+++|.-+..||++.|.+++|.+ .+|.|-..|+.-++..+..  .++.++|+.-............|+++++
T Consensus        22 ~~~~p~~~~~~~~~~~~~~~~~G~l~Ell~~~~g~gel~LL~P~La~l~~~~~~r~vlwI~Pp~~l~~~~L~~~Gl~~~r  101 (161)
T 1oft_A           22 SNGAPLLDDVIDSPSSASIEEPAAFSELSLSGLPGHCLTLLAPILRELSEEQDARWLTLIAPPASLTHEWLRRAGLNRER  101 (161)
T ss_dssp             ---------------------CCSEEEEEEESCHHHHHHHHHHHHHHHHTCSSSSEEEEESCCTTSCHHHHHHTTCCGGG
T ss_pred             CccCCCCcccccccCCCCCCCCcceEEEccCCCcHHHHHHHHHHHHHhcccccCccEEEECCCCCCCHHHHHHcCCCHHH
Confidence            466799999999877438999999999985 4777777666666666654  6789999988776677677789999999


Q ss_pred             eeEeCCCCHHHHHHHHHHHhhcCCccEEEEc
Q 024705          175 LLIAQPDSAENLLSVVDTLTKSGSIDVIVVD  205 (264)
Q Consensus       175 l~~~~~~~~ee~~~~i~~~~~~~~~~~vvID  205 (264)
                      +.+++..+..+.++.+++.++.+.+..|+..
T Consensus       102 ll~v~~~~~~daLwa~EqALrsG~~~aVl~W  132 (161)
T 1oft_A          102 ILLLQAKDNAAALALSCEALRLGRSHTVVSW  132 (161)
T ss_dssp             EEEECCSSTTHHHHHHHHHHHTTCEEEEEEC
T ss_pred             EEEEECCChHHHHHHHHHHHhcCCccEEEEC
Confidence            9999999999999999999999999888875

>1sxj_E Activator 1 40 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=98.17  E-value=8.3e-06  Score=71.88  Aligned_cols=26  Identities=23%  Similarity=0.472  Sum_probs=22.3

Q ss_pred             EEEEecCCCChHHHHHHHHHHHhhcC
Q 024705          123 VEIYGREASGKTTLALHVIKEAQKLG  148 (264)
Q Consensus       123 ~~I~G~~GsGKTtl~~~l~~~~~~~g  148 (264)
                      ++|+||||+||||++..++..+....
T Consensus        39 ~ll~Gp~G~GKTtl~~~la~~l~~~~   64 (354)
T 1sxj_E           39 LLLYGPNGTGKKTRCMALLESIFGPG   64 (354)
T ss_dssp             EEEECSTTSSHHHHHHTHHHHHSCTT
T ss_pred             EEEECCCCCCHHHHHHHHHHHHcCCC
Confidence            89999999999999999998665433

>2ffh_A Protein (FFH); SRP54, signal recognition particle, GTPase, M domain, RNA-binding, signal sequence-binding, helix-turn-helix, protein targeting; 3.20A {Thermus aquaticus} SCOP: a.24.13.1 a.36.1.1 c.37.1.10 PDB: 2iy3_A

Probab=98.16  E-value=1.1e-05  Score=73.41  Aligned_cols=90  Identities=22%  Similarity=0.280  Sum_probs=59.6

Q ss_pred             CCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCHH------HHHHcCCCccceeEeCCCCHHHHHHHHHH
Q 024705          119 KGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPS------LAEAMGIDAENLLIAQPDSAENLLSVVDT  192 (264)
Q Consensus       119 ~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~~------~~~~~g~~~~~l~~~~~~~~ee~~~~i~~  192 (264)
                      +|.++.++|++|+||||++..++..+...|++|++++.+......      +.+..|++.  +......++.++......
T Consensus        97 ~~~vi~i~G~~GsGKTT~~~~LA~~l~~~g~~Vllvd~D~~r~aa~~qL~~~~~~~gv~v--~~~~~~~~p~~i~~~~l~  174 (425)
T 2ffh_A           97 DRNLWFLVGLQGSGKTTTAAKLALYYKGKGRRPLLVAADTQRPAAREQLRLLGEKVGVPV--LEVMDGESPESIRRRVEE  174 (425)
T ss_dssp             SSEEEEEECCTTSSHHHHHHHHHHHHHTTTCCEEEEECCSSCHHHHHHHHHHHHHHTCCE--EECCTTCCHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEeeccccCchhHHHHHHhcccCCccE--EecCCCCCHHHHHHHHHH
Confidence            688999999999999999999999998889999999987644321      233345432  001112344555332222


Q ss_pred             HhhcCCccEEEEcCcccc
Q 024705          193 LTKSGSIDVIVVDSVAAL  210 (264)
Q Consensus       193 ~~~~~~~~~vvIDsl~~~  210 (264)
                      ..+..++++|+||....+
T Consensus       175 ~~~~~~~DvVIIDTaG~l  192 (425)
T 2ffh_A          175 KARLEARDLILVDTAGRL  192 (425)
T ss_dssp             HHHHTTCSEEEEECCCCS
T ss_pred             HHHHCCCCEEEEcCCCcc
Confidence            222357899999976543

>3g5u_A MCG1178, multidrug resistance protein 1A; P-glycoprotein, PGP, cyclic peptide, membrane protein; 3.80A {Mus musculus} PDB: 3g61_A* 3g60_A*

Probab=98.16  E-value=8.7e-07  Score=91.16  Aligned_cols=60  Identities=20%  Similarity=0.372  Sum_probs=40.3

Q ss_pred             CCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCC---HHHHHHcCCCccceeE
Q 024705          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALD---PSLAEAMGIDAENLLI  177 (264)
Q Consensus       117 l~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~---~~~~~~~g~~~~~l~~  177 (264)
                      +++|+.+.|.||+|||||||+..+.....+..|. ++++......   ..+.+.+++.+|+..+
T Consensus      1056 i~~Ge~v~ivG~sGsGKSTl~~~l~g~~~p~~G~-I~i~g~~i~~~~~~~~r~~i~~v~Q~~~l 1118 (1284)
T 3g5u_A         1056 VKKGQTLALVGSSGCGKSTVVQLLERFYDPMAGS-VFLDGKEIKQLNVQWLRAQLGIVSQEPIL 1118 (1284)
T ss_dssp             ECSSSEEEEECSSSTTHHHHHHHHTTSSCCSEEE-EESSSSCTTSSCHHHHTTSCEEEESSCCC
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhcCcCCCCCE-EEECCEEcccCCHHHHHhceEEECCCCcc
Confidence            7899999999999999999888877655444444 4454433221   1344557777776543

>2qp9_X Vacuolar protein sorting-associated protein 4; ATPase domain, beta domain, C-terminal helix, ATP-binding, E nucleotide-binding; 2.90A {Saccharomyces cerevisiae} PDB: 2qpa_A*

Probab=98.15  E-value=1.4e-05  Score=71.18  Aligned_cols=79  Identities=23%  Similarity=0.283  Sum_probs=49.0

Q ss_pred             CCCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCHHHHHHcCCCccceeEeCCCCHHHHHHHHHHHh
Q 024705          115 GGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLT  194 (264)
Q Consensus       115 gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~~~~~~~g~~~~~l~~~~~~~~ee~~~~i~~~~  194 (264)
                      ++..++.-++|+||||+|||+++..++..+   +...++++...     .   ++...       . ..+.....+-...
T Consensus        79 ~~~~~~~~iLL~GppGtGKT~la~ala~~~---~~~~~~v~~~~-----l---~~~~~-------g-~~~~~~~~~f~~a  139 (355)
T 2qp9_X           79 GNRKPTSGILLYGPPGTGKSYLAKAVATEA---NSTFFSVSSSD-----L---VSKWM-------G-ESEKLVKQLFAMA  139 (355)
T ss_dssp             SSCCCCCCEEEECSTTSCHHHHHHHHHHHH---TCEEEEEEHHH-----H---HSCC-----------CHHHHHHHHHHH
T ss_pred             cCCCCCceEEEECCCCCcHHHHHHHHHHHh---CCCEEEeeHHH-----H---hhhhc-------c-hHHHHHHHHHHHH
Confidence            345566678999999999999999998876   45566665321     0   01000       0 1122222222233


Q ss_pred             hcCCccEEEEcCcccccc
Q 024705          195 KSGSIDVIVVDSVAALIP  212 (264)
Q Consensus       195 ~~~~~~~vvIDsl~~~~~  212 (264)
                      ....+.+++||.+..+.+
T Consensus       140 ~~~~~~vl~iDEid~l~~  157 (355)
T 2qp9_X          140 RENKPSIIFIDQVDALTG  157 (355)
T ss_dssp             HHTSSEEEEEECGGGGTC
T ss_pred             HHcCCeEEEEechHhhcc
Confidence            345789999999998874

>2iw3_A Elongation factor 3A; acetylation, ATP-binding, protein biosynthesis, nucleotide-binding, phosphorylation, RNA- binding, rRNA-binding; HET: ADP; 2.4A {Saccharomyces cerevisiae} PDB: 2iwh_A* 2ix3_A 2ix8_A

Probab=98.14  E-value=2.4e-06  Score=84.98  Aligned_cols=35  Identities=20%  Similarity=0.227  Sum_probs=28.7

Q ss_pred             CCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeE
Q 024705          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYC  151 (264)
Q Consensus       117 l~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v  151 (264)
                      +.+|+++.|.||||||||||+..++....+..|.+
T Consensus       696 I~~GeivaIiGpNGSGKSTLLklLaGll~P~sG~I  730 (986)
T 2iw3_A          696 CSLSSRIAVIGPNGAGKSTLINVLTGELLPTSGEV  730 (986)
T ss_dssp             EETTCEEEECSCCCHHHHHHHHHHTTSSCCSEEEE
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhCCCCCCceEE
Confidence            67999999999999999999988887655444444

>4f4c_A Multidrug resistance protein PGP-1; ABC transporter, ATPase, multi-drug transporter, exporter, A binding, hydrolase,protein transport; HET: NDG NAG BMA MAN 0SA; 3.40A {Caenorhabditis elegans}

Probab=98.14  E-value=8.2e-07  Score=91.60  Aligned_cols=59  Identities=17%  Similarity=0.284  Sum_probs=40.3

Q ss_pred             CCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCC---HHHHHHcCCCcccee
Q 024705          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALD---PSLAEAMGIDAENLL  176 (264)
Q Consensus       117 l~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~---~~~~~~~g~~~~~l~  176 (264)
                      +++|+.+.|+||+||||||++..+..-..+..|.+ +++.-.-..   ..+.+++++.+|+..
T Consensus      1102 I~~Ge~vaIVG~SGsGKSTL~~lL~rl~~p~~G~I-~iDG~di~~i~~~~lR~~i~~V~Qdp~ 1163 (1321)
T 4f4c_A         1102 VEPGQTLALVGPSGCGKSTVVALLERFYDTLGGEI-FIDGSEIKTLNPEHTRSQIAIVSQEPT 1163 (1321)
T ss_dssp             ECTTCEEEEECSTTSSTTSHHHHHTTSSCCSSSEE-EETTEETTTBCHHHHHTTEEEECSSCC
T ss_pred             ECCCCEEEEECCCCChHHHHHHHHhcCccCCCCEE-EECCEEhhhCCHHHHHhheEEECCCCE
Confidence            78999999999999999998887776555555554 444322211   245566777666543

>2qgz_A Helicase loader, putative primosome component; structural genomics, PSI-2, protein structure initiative; 2.40A {Streptococcus pyogenes serotype M3}

Probab=98.13  E-value=2.1e-05  Score=68.62  Aligned_cols=38  Identities=24%  Similarity=0.271  Sum_probs=34.2

Q ss_pred             CcEEEEEecCCCChHHHHHHHHHHHh-hcCCeEEEEecC
Q 024705          120 GRIVEIYGREASGKTTLALHVIKEAQ-KLGGYCAYLDVE  157 (264)
Q Consensus       120 G~~~~I~G~~GsGKTtl~~~l~~~~~-~~g~~v~~~~~e  157 (264)
                      +..++|+||+|+|||+|+..++..+. ..|.+++|+...
T Consensus       152 ~~~lll~G~~GtGKT~La~aia~~~~~~~g~~v~~~~~~  190 (308)
T 2qgz_A          152 QKGLYLYGDMGIGKSYLLAAMAHELSEKKGVSTTLLHFP  190 (308)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHHHHHHSCCCEEEEEHH
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHHHHhcCCcEEEEEHH
Confidence            67899999999999999999999998 888889988753

>2npi_A Protein CLP1; CLP1-PCF11 complex, ATP binding, ternary complex, transcript; HET: ATP; 2.95A {Saccharomyces cerevisiae}

Probab=98.12  E-value=2.3e-06  Score=78.91  Aligned_cols=40  Identities=28%  Similarity=0.328  Sum_probs=32.7

Q ss_pred             CCCCcEEEEEecCCCChHHHHHHHHHHHhhcCC-eEEEEec
Q 024705          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGG-YCAYLDV  156 (264)
Q Consensus       117 l~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~-~v~~~~~  156 (264)
                      +++|+++.|.||||||||||+..++..+.+.++ ..++++.
T Consensus       135 i~~Ge~v~IvGpnGsGKSTLlr~L~Gl~~p~~G~~pI~vdg  175 (460)
T 2npi_A          135 NFEGPRVVIVGGSQTGKTSLSRTLCSYALKFNAYQPLYINL  175 (460)
T ss_dssp             SSSCCCEEEEESTTSSHHHHHHHHHHTTHHHHCCCCEEEEC
T ss_pred             eCCCCEEEEECCCCCCHHHHHHHHhCcccccCCceeEEEcC
Confidence            568999999999999999999998887766666 5455554

>2p65_A Hypothetical protein PF08_0063; CLPB, malaria, structural genomics, structural genomics consortium, SGC, unknown function; 1.70A {Plasmodium falciparum}

Probab=98.11  E-value=2.7e-05  Score=61.46  Aligned_cols=80  Identities=18%  Similarity=0.240  Sum_probs=47.3

Q ss_pred             CCcEEEEEecCCCChHHHHHHHHHHHhh-------cCCeEEEEecCCCCCHHHHHHcCCCccceeEeCCCCHH-HHHHHH
Q 024705          119 KGRIVEIYGREASGKTTLALHVIKEAQK-------LGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAE-NLLSVV  190 (264)
Q Consensus       119 ~G~~~~I~G~~GsGKTtl~~~l~~~~~~-------~g~~v~~~~~e~~~~~~~~~~~g~~~~~l~~~~~~~~e-e~~~~i  190 (264)
                      .+..++|+||+|+|||+++..++..+..       .+..+++++...     ...  +...       ..... .+...+
T Consensus        42 ~~~~vll~G~~G~GKT~la~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~--~~~~-------~~~~~~~~~~~~  107 (187)
T 2p65_A           42 TKNNPILLGDPGVGKTAIVEGLAIKIVQGDVPDSLKGRKLVSLDLSS-----LIA--GAKY-------RGDFEERLKSIL  107 (187)
T ss_dssp             SSCEEEEESCGGGCHHHHHHHHHHHHHTTCSCTTTTTCEEEEECHHH-----HHH--HCCS-------HHHHHHHHHHHH
T ss_pred             CCCceEEECCCCCCHHHHHHHHHHHHHhcCCcchhcCCeEEEEeHHH-----hhc--CCCc-------hhHHHHHHHHHH
Confidence            3567899999999999999999988765       255565554311     000  0000       00011 122223


Q ss_pred             HHHhhcCCccEEEEcCcccccc
Q 024705          191 DTLTKSGSIDVIVVDSVAALIP  212 (264)
Q Consensus       191 ~~~~~~~~~~~vvIDsl~~~~~  212 (264)
                      ..+....++.+++||.+..+.+
T Consensus       108 ~~~~~~~~~~vl~iDe~~~l~~  129 (187)
T 2p65_A          108 KEVQDAEGQVVMFIDEIHTVVG  129 (187)
T ss_dssp             HHHHHTTTSEEEEETTGGGGSS
T ss_pred             HHHHhcCCceEEEEeCHHHhcc
Confidence            3333334678999999998863

>2v3c_C SRP54, signal recognition 54 kDa protein; nucleotide-binding, signal recognition particle, GTP-binding, RNA-binding; 2.50A {Methanocaldococcus jannaschii} PDB: 3ndb_B

Probab=98.10  E-value=6.3e-06  Score=75.35  Aligned_cols=100  Identities=22%  Similarity=0.242  Sum_probs=62.0

Q ss_pred             HHHHHhcCCC---C--CCC--cEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCH------HHHHHcCCCcc
Q 024705          107 KLDLALGIGG---L--PKG--RIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP------SLAEAMGIDAE  173 (264)
Q Consensus       107 ~LD~~l~~gG---l--~~G--~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~------~~~~~~g~~~~  173 (264)
                      +|..+++ ++   +  .++  .++.|+|++|+||||++..++..+...|.+|++++.+.....      ...+..|++.-
T Consensus        80 ~l~~ll~-~~~~~~~~~~~~~~vI~ivG~~GvGKTTla~~La~~l~~~G~kVllv~~D~~r~~a~~qL~~~~~~~gv~v~  158 (432)
T 2v3c_C           80 ELVKLLG-EEAKKLELNPKKQNVILLVGIQGSGKTTTAAKLARYIQKRGLKPALIAADTYRPAAYEQLKQLAEKIHVPIY  158 (432)
T ss_dssp             HHHHHHC-CSCCCCCCCSSSCCCEEEECCSSSSTTHHHHHHHHHHHHHHCCEEEECCSCCCTTGGGSSHHHHHHSSCCEE
T ss_pred             HHHHHhC-CCCcCccccCCCCeEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEeccccCchHHHHHHHhhhccCcceE
Confidence            4566776 44   3  223  589999999999999999999999988999999998754322      12333444321


Q ss_pred             ceeEeCCCCHHHH-HHHHHHHhhcCCccEEEEcCccccc
Q 024705          174 NLLIAQPDSAENL-LSVVDTLTKSGSIDVIVVDSVAALI  211 (264)
Q Consensus       174 ~l~~~~~~~~ee~-~~~i~~~~~~~~~~~vvIDsl~~~~  211 (264)
                      .... ...++.++ ...+..+   .++++++||......
T Consensus       159 ~~~~-~~~dp~~i~~~~l~~~---~~~D~vIIDT~G~~~  193 (432)
T 2v3c_C          159 GDET-RTKSPVDIVKEGMEKF---KKADVLIIDTAGRHK  193 (432)
T ss_dssp             CCSS-SCCSSSTTHHHHHHTT---SSCSEEEEECCCSCS
T ss_pred             ecCC-CCCCHHHHHHHHHHHh---hCCCEEEEcCCCCcc
Confidence            1100 00111112 1222222   578899999876553

>4fcw_A Chaperone protein CLPB; AAA domain; HET: ADP; 2.35A {Thermus thermophilus} PDB: 4fcv_A* 4fd2_A* 4fct_A*

Probab=98.09  E-value=1.8e-05  Score=68.41  Aligned_cols=85  Identities=14%  Similarity=0.152  Sum_probs=54.7

Q ss_pred             CcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCH-HHHHHcCCCccceeEeCCCCHHHHHHHHHHHhhcCC
Q 024705          120 GRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP-SLAEAMGIDAENLLIAQPDSAENLLSVVDTLTKSGS  198 (264)
Q Consensus       120 G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~-~~~~~~g~~~~~l~~~~~~~~ee~~~~i~~~~~~~~  198 (264)
                      ...++|+||||+|||+++..++......++++++++....... ...+.+|...........   ..+...    +....
T Consensus        47 ~~~~ll~G~~GtGKt~la~~la~~~~~~~~~~~~~~~~~~~~~~~~~~l~g~~~~~~~~~~~---~~~~~~----~~~~~  119 (311)
T 4fcw_A           47 IGSFLFLGPTGVGKTELAKTLAATLFDTEEAMIRIDMTEYMEKHAVSRLIGAPPGYVGYEEG---GQLTEA----VRRRP  119 (311)
T ss_dssp             SEEEEEESCSSSSHHHHHHHHHHHHHSCGGGEEEEEGGGCCSTTHHHHHHCCCTTSTTTTTC---CHHHHH----HHHCS
T ss_pred             ceEEEEECCCCcCHHHHHHHHHHHHcCCCcceEEeecccccccccHHHhcCCCCcccccccc---chHHHH----HHhCC
Confidence            4579999999999999999999988777777888876544333 334445654332111100   122222    22345


Q ss_pred             ccEEEEcCccccc
Q 024705          199 IDVIVVDSVAALI  211 (264)
Q Consensus       199 ~~~vvIDsl~~~~  211 (264)
                      ..+++||.+..+.
T Consensus       120 ~~vl~lDEi~~l~  132 (311)
T 4fcw_A          120 YSVILFDAIEKAH  132 (311)
T ss_dssp             SEEEEEETGGGSC
T ss_pred             CeEEEEeChhhcC
Confidence            6799999987664

>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A {Homo sapiens}

Probab=98.07  E-value=1.9e-05  Score=67.72  Aligned_cols=75  Identities=31%  Similarity=0.302  Sum_probs=43.9

Q ss_pred             CCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCHHHHHHcCCCccceeEeCCCCHHHHHHHHHHHhhc
Q 024705          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTKS  196 (264)
Q Consensus       117 l~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~~~~~~~g~~~~~l~~~~~~~~ee~~~~i~~~~~~  196 (264)
                      +++|  ++|+||||+|||||+..++...   +...++++........                ....+..+..+-.....
T Consensus        43 ~~~G--vlL~Gp~GtGKTtLakala~~~---~~~~i~i~g~~l~~~~----------------~~~~~~~i~~vf~~a~~  101 (274)
T 2x8a_A           43 TPAG--VLLAGPPGCGKTLLAKAVANES---GLNFISVKGPELLNMY----------------VGESERAVRQVFQRAKN  101 (274)
T ss_dssp             CCSE--EEEESSTTSCHHHHHHHHHHHT---TCEEEEEETTTTCSST----------------THHHHHHHHHHHHHHHH
T ss_pred             CCCe--EEEECCCCCcHHHHHHHHHHHc---CCCEEEEEcHHHHhhh----------------hhHHHHHHHHHHHHHHh
Confidence            4455  9999999999999999988754   3345566543211110                00011112222222223


Q ss_pred             CCccEEEEcCcccccc
Q 024705          197 GSIDVIVVDSVAALIP  212 (264)
Q Consensus       197 ~~~~~vvIDsl~~~~~  212 (264)
                      ..+.++++|.+..+..
T Consensus       102 ~~p~i~~~Deid~~~~  117 (274)
T 2x8a_A          102 SAPCVIFFDEVDALCP  117 (274)
T ss_dssp             TCSEEEEEETCTTTCC
T ss_pred             cCCCeEeeehhhhhhc
Confidence            4678999999988763

>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=98.05  E-value=4.2e-05  Score=61.86  Aligned_cols=68  Identities=13%  Similarity=0.227  Sum_probs=42.5

Q ss_pred             EEEEecCCCChHHHHHHHHHHHhhcCCe--EEEEecCCCCCHHHHHHcCCCccceeEeCCCCHHHHHHHHHHHhh-----
Q 024705          123 VEIYGREASGKTTLALHVIKEAQKLGGY--CAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTK-----  195 (264)
Q Consensus       123 ~~I~G~~GsGKTtl~~~l~~~~~~~g~~--v~~~~~e~~~~~~~~~~~g~~~~~l~~~~~~~~ee~~~~i~~~~~-----  195 (264)
                      ++|+||+|+|||+++..++..+...+..  .+.++...                     ......+...+.....     
T Consensus        41 ~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~---------------------~~~~~~~~~~~~~~~~~~~~~   99 (226)
T 2chg_A           41 LLFSGPPGTGKTATAIALARDLFGENWRDNFIEMNASD---------------------ERGIDVVRHKIKEFARTAPIG   99 (226)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHHGGGGGGGEEEEETTC---------------------TTCHHHHHHHHHHHHTSCCST
T ss_pred             EEEECCCCCCHHHHHHHHHHHHhccccccceEEecccc---------------------ccChHHHHHHHHHHhcccCCC
Confidence            8999999999999999998877544322  33333221                     1122333333333322     


Q ss_pred             cCCccEEEEcCccccc
Q 024705          196 SGSIDVIVVDSVAALI  211 (264)
Q Consensus       196 ~~~~~~vvIDsl~~~~  211 (264)
                      ..+..+++||.+..+.
T Consensus       100 ~~~~~vliiDe~~~l~  115 (226)
T 2chg_A          100 GAPFKIIFLDEADALT  115 (226)
T ss_dssp             TCSCEEEEEETGGGSC
T ss_pred             ccCceEEEEeChhhcC
Confidence            2467899999988775

>2qm8_A GTPase/ATPase; G protein, G3E, metallochaperone, chaperone; HET: MSE; 1.70A {Methylobacterium extorquens} SCOP: c.37.1.10 PDB: 2qm7_A*

Probab=98.05  E-value=4.2e-06  Score=74.05  Aligned_cols=43  Identities=23%  Similarity=0.117  Sum_probs=37.6

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCC
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVEN  158 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~  158 (264)
                      -+.+|.++.|.||||+|||||+..++....+.++++.+++.+.
T Consensus        51 ~~~~g~~v~i~G~~GaGKSTLl~~l~g~~~~~~g~v~i~~~d~   93 (337)
T 2qm8_A           51 QTGRAIRVGITGVPGVGKSTTIDALGSLLTAAGHKVAVLAVDP   93 (337)
T ss_dssp             GCCCSEEEEEECCTTSCHHHHHHHHHHHHHHTTCCEEEEEECG
T ss_pred             ccCCCeEEEEECCCCCCHHHHHHHHHHhhhhCCCEEEEEEEcC
Confidence            4678999999999999999999999988888888888887554

>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=98.03  E-value=3.1e-06  Score=67.94  Aligned_cols=39  Identities=23%  Similarity=0.210  Sum_probs=30.6

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecC
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVE  157 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e  157 (264)
                      ++++|+++.|.|||||||||++..++..   .+.+.++++.+
T Consensus         5 ~i~~g~~i~l~G~~GsGKSTl~~~La~~---~~~g~i~i~~d   43 (191)
T 1zp6_A            5 DDLGGNILLLSGHPGSGKSTIAEALANL---PGVPKVHFHSD   43 (191)
T ss_dssp             -CCTTEEEEEEECTTSCHHHHHHHHHTC---SSSCEEEECTT
T ss_pred             CCCCCeEEEEECCCCCCHHHHHHHHHhc---cCCCeEEEccc
Confidence            5889999999999999999999988764   34445666643

>1wb9_A DNA mismatch repair protein MUTS; DNA-binding, ATP-binding, DNA binding, DNA repair, mismatch recognition; HET: DNA ADP; 2.10A {Escherichia coli} SCOP: a.113.1.1 c.37.1.12 c.55.6.1 d.75.2.1 PDB: 1wbb_A* 1e3m_A* 1oh5_A* 1oh6_A* 1oh7_A* 1oh8_A* 1w7a_A* 2wtu_A* 1wbd_A* 1ng9_A* 3k0s_A*

Probab=98.02  E-value=1.2e-05  Score=78.80  Aligned_cols=28  Identities=29%  Similarity=0.360  Sum_probs=24.8

Q ss_pred             CCCcEEEEEecCCCChHHHHHHHHHHHh
Q 024705          118 PKGRIVEIYGREASGKTTLALHVIKEAQ  145 (264)
Q Consensus       118 ~~G~~~~I~G~~GsGKTtl~~~l~~~~~  145 (264)
                      ++|++++|.||||+||||++..++....
T Consensus       605 ~~g~i~~ItGpNGsGKSTlLr~iagl~~  632 (800)
T 1wb9_A          605 PQRRMLIITGPNMGGKSTYMRQTALIAL  632 (800)
T ss_dssp             SSSCEEEEECCTTSSHHHHHHHHHHHHH
T ss_pred             CCCcEEEEECCCCCChHHHHHHHHHHHH
Confidence            6799999999999999999999887543

>3vfd_A Spastin; ATPase, microtubule severing, hydrolase; 3.30A {Homo sapiens}

Probab=98.01  E-value=5.5e-05  Score=67.92  Aligned_cols=76  Identities=21%  Similarity=0.302  Sum_probs=47.2

Q ss_pred             CCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCHHHHHHcCCCccceeEeCCCCHHHHHHHHHHHhhcC
Q 024705          118 PKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTKSG  197 (264)
Q Consensus       118 ~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~~~~~~~g~~~~~l~~~~~~~~ee~~~~i~~~~~~~  197 (264)
                      .++..++|+||||+|||+++..++..   .+..+++++........    .|           . .+.....+.......
T Consensus       146 ~~~~~vLL~GppGtGKT~la~aia~~---~~~~~~~v~~~~l~~~~----~g-----------~-~~~~~~~~~~~a~~~  206 (389)
T 3vfd_A          146 APARGLLLFGPPGNGKTMLAKAVAAE---SNATFFNISAASLTSKY----VG-----------E-GEKLVRALFAVAREL  206 (389)
T ss_dssp             CCCSEEEEESSTTSCHHHHHHHHHHH---TTCEEEEECSCCC-----------------------CHHHHHHHHHHHHHS
T ss_pred             CCCceEEEECCCCCCHHHHHHHHHHh---hcCcEEEeeHHHhhccc----cc-----------h-HHHHHHHHHHHHHhc
Confidence            34678999999999999999998664   46677777654322210    00           0 122222222233345


Q ss_pred             CccEEEEcCcccccc
Q 024705          198 SIDVIVVDSVAALIP  212 (264)
Q Consensus       198 ~~~~vvIDsl~~~~~  212 (264)
                      .+.+++||.+..+..
T Consensus       207 ~~~il~iDEid~l~~  221 (389)
T 3vfd_A          207 QPSIIFIDQVDSLLC  221 (389)
T ss_dssp             SSEEEEEETGGGGC-
T ss_pred             CCeEEEEECchhhcc
Confidence            778999999999874

>3d8b_A Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, structural genomics consortium, ATP- hydrolase, magnesium, metal-binding, nucleotide-binding; HET: ADP; 2.00A {Homo sapiens}

Probab=98.01  E-value=3.3e-05  Score=68.67  Aligned_cols=76  Identities=13%  Similarity=0.259  Sum_probs=48.6

Q ss_pred             CCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCHHHHHHcCCCccceeEeCCCCHHHHHHHHHHHhhcC
Q 024705          118 PKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTKSG  197 (264)
Q Consensus       118 ~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~~~~~~~g~~~~~l~~~~~~~~ee~~~~i~~~~~~~  197 (264)
                      .+...++|+||||+|||+++..++...   +..+++++........                ....+.....+.......
T Consensus       115 ~~~~~vLl~GppGtGKT~la~aia~~~---~~~~~~i~~~~l~~~~----------------~g~~~~~~~~~~~~a~~~  175 (357)
T 3d8b_A          115 GPPKGILLFGPPGTGKTLIGKCIASQS---GATFFSISASSLTSKW----------------VGEGEKMVRALFAVARCQ  175 (357)
T ss_dssp             SCCSEEEEESSTTSSHHHHHHHHHHHT---TCEEEEEEGGGGCCSS----------------TTHHHHHHHHHHHHHHHT
T ss_pred             CCCceEEEECCCCCCHHHHHHHHHHHc---CCeEEEEehHHhhccc----------------cchHHHHHHHHHHHHHhc
Confidence            456679999999999999999997753   5667777653221110                001222222232333345


Q ss_pred             CccEEEEcCcccccc
Q 024705          198 SIDVIVVDSVAALIP  212 (264)
Q Consensus       198 ~~~~vvIDsl~~~~~  212 (264)
                      .+.+++||.+..+.+
T Consensus       176 ~~~vl~iDEid~l~~  190 (357)
T 3d8b_A          176 QPAVIFIDEIDSLLS  190 (357)
T ss_dssp             CSEEEEEETHHHHTB
T ss_pred             CCeEEEEeCchhhhc
Confidence            789999999998874

>3ice_A Transcription termination factor RHO; transcription, ATPase, hexamer, helicase, RNA, RECA, OB fold ATP-binding, hydrolase; HET: MSE ADP SPD; 2.80A {Escherichia coli k-12} PDB: 1pv4_A 1pvo_A* 1xpo_A* 1xpr_A* 1xpu_A* 2ht1_A

Probab=98.00  E-value=1.8e-05  Score=70.91  Aligned_cols=107  Identities=18%  Similarity=0.205  Sum_probs=69.3

Q ss_pred             CCccccCcHHHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHHhhc--CCeEEEEecCCCCCH--HHHHHcCCCcc
Q 024705           98 GPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKL--GGYCAYLDVENALDP--SLAEAMGIDAE  173 (264)
Q Consensus        98 ~~~i~tG~~~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~--g~~v~~~~~e~~~~~--~~~~~~g~~~~  173 (264)
                      .+.+.||+..+|-++.   +.+|+.+.|.||+|+||||++..++..+...  +-.|+|....+....  ...+.+    +
T Consensus       155 ~~~~~tGiraID~~~p---i~rGQr~~IvG~sG~GKTtLl~~Iar~i~~~~~~v~~I~~lIGER~~Ev~~~~~~~----~  227 (422)
T 3ice_A          155 GSTEDLTARVLDLASP---IGRGQRGLIVAPPKAGKTMLLQNIAQSIAYNHPDCVLMVLLIDERPEEVTEMQRLV----K  227 (422)
T ss_dssp             CCTTHHHHHHHHHHSC---CBTTCEEEEECCSSSSHHHHHHHHHHHHHHHCTTSEEEEEEESSCHHHHHHHHTTC----S
T ss_pred             CCcccccceeeeeeee---ecCCcEEEEecCCCCChhHHHHHHHHHHhhcCCCeeEEEEEecCChHHHHHHHHHh----C
Confidence            3688999999999886   8899999999999999999999998877654  345677654443332  122222    1


Q ss_pred             ceeEeC--CCCHHHH-------HHHHHHHhhcCCccEEEEcCccccc
Q 024705          174 NLLIAQ--PDSAENL-------LSVVDTLTKSGSIDVIVVDSVAALI  211 (264)
Q Consensus       174 ~l~~~~--~~~~ee~-------~~~i~~~~~~~~~~~vvIDsl~~~~  211 (264)
                      ...+..  ..++..-       +...+.+...++--++++|+++.+.
T Consensus       228 ~~vV~atadep~~~r~~~a~~alt~AEyfrd~G~dVLil~DslTR~A  274 (422)
T 3ice_A          228 GEVVASTFDEPASRHVQVAEMVIEKAKRLVEHKKDVIILLDSITRLA  274 (422)
T ss_dssp             SEEEEECTTSCHHHHHHHHHHHHHHHHHHHHTSCEEEEEEECHHHHH
T ss_pred             eEEEEeCCCCCHHHHHHHHHHHHHHHHHHHhcCCCEEEEEeCchHHH
Confidence            122221  1222221       1223344454556678899998765

>3hu3_A Transitional endoplasmic reticulum ATPase; VCP, transport protein; HET: AGS; 2.20A {Homo sapiens} PDB: 3hu2_A* 3hu1_A* 1e32_A* 1s3s_A*

Probab=97.99  E-value=1.7e-05  Score=73.60  Aligned_cols=120  Identities=21%  Similarity=0.346  Sum_probs=66.3

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCHHHHHHcCCCccceeEeCCCCHHHHHHHHHHHhh
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTK  195 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~~~~~~~g~~~~~l~~~~~~~~ee~~~~i~~~~~  195 (264)
                      |.++..-++|+||||+|||+++..++...   +...++++...-...       +.        ......+...+.. ..
T Consensus       234 g~~~~~~vLL~GppGtGKT~lAraia~~~---~~~fv~vn~~~l~~~-------~~--------g~~~~~~~~~f~~-A~  294 (489)
T 3hu3_A          234 GVKPPRGILLYGPPGTGKTLIARAVANET---GAFFFLINGPEIMSK-------LA--------GESESNLRKAFEE-AE  294 (489)
T ss_dssp             TCCCCCEEEEECSTTSSHHHHHHHHHHHC---SSEEEEEEHHHHHTS-------CT--------THHHHHHHHHHHH-HH
T ss_pred             CCCCCCcEEEECcCCCCHHHHHHHHHHHh---CCCEEEEEchHhhhh-------hc--------chhHHHHHHHHHH-HH
Confidence            35666779999999999999999987643   667777764211000       00        0001112222222 23


Q ss_pred             cCCccEEEEcCccccccccccCCCcCCCCcHHHHHHHHHHHHHHHHHHhccCcEEEEEcccchHh
Q 024705          196 SGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVKVLL  260 (264)
Q Consensus       196 ~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r~i~~~L~~l~~~l~~~g~tVi~i~h~~~~~  260 (264)
                      ...+.+++||.+..+.+...  .    .......+.....++.+.......++.||.+++..+.+
T Consensus       295 ~~~p~iLfLDEId~l~~~~~--~----~~~~~~~~~~~~LL~~ld~~~~~~~v~vIaaTn~~~~L  353 (489)
T 3hu3_A          295 KNAPAIIFIDELDAIAPKRE--K----THGEVERRIVSQLLTLMDGLKQRAHVIVMAATNRPNSI  353 (489)
T ss_dssp             HTCSEEEEEESHHHHCBCTT--S----CCCHHHHHHHHHHHHHHHHSCTTSCEEEEEEESCGGGB
T ss_pred             hcCCcEEEecchhhhccccc--c----ccchHHHHHHHHHHHHhhccccCCceEEEEecCCcccc
Confidence            45688999999998885321  1    11123333334444444322234567777777655443

>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=97.98  E-value=3e-05  Score=68.82  Aligned_cols=87  Identities=20%  Similarity=0.263  Sum_probs=56.0

Q ss_pred             CcEEEEEecCCCChHHHHHHHHHHHhhc--------CCeEEEEecCCCC-CH-----HHHHHc-CCCccceeEeCCCCHH
Q 024705          120 GRIVEIYGREASGKTTLALHVIKEAQKL--------GGYCAYLDVENAL-DP-----SLAEAM-GIDAENLLIAQPDSAE  184 (264)
Q Consensus       120 G~~~~I~G~~GsGKTtl~~~l~~~~~~~--------g~~v~~~~~e~~~-~~-----~~~~~~-g~~~~~l~~~~~~~~e  184 (264)
                      +..++|+||+|+|||+++..++..+...        +..+++++..... ..     .....+ |.....    ...+..
T Consensus        45 ~~~vll~G~~G~GKT~la~~l~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~l~~~l~~~~~~~----~~~~~~  120 (384)
T 2qby_B           45 KFSNLFLGLTGTGKTFVSKYIFNEIEEVKKEDEEYKDVKQAYVNCREVGGTPQAVLSSLAGKLTGFSVPK----HGINLG  120 (384)
T ss_dssp             CCEEEEEECTTSSHHHHHHHHHHHHHHHHHHSSSSTTCEEEEEEHHHHCSCHHHHHHHHHHHHHCSCCCS----SSSCTH
T ss_pred             CCcEEEECCCCCCHHHHHHHHHHHHHHHhhhhcCCCCceEEEEECccCCCCHHHHHHHHHHHhcCCCCCC----CCCCHH
Confidence            4589999999999999999999887654        7788888754332 22     112222 332211    122335


Q ss_pred             HHHHHHHHHhhcCCccEEEEcCccccc
Q 024705          185 NLLSVVDTLTKSGSIDVIVVDSVAALI  211 (264)
Q Consensus       185 e~~~~i~~~~~~~~~~~vvIDsl~~~~  211 (264)
                      ++...+.......+. +++||.+..+.
T Consensus       121 ~~~~~l~~~l~~~~~-vlilDEi~~l~  146 (384)
T 2qby_B          121 EYIDKIKNGTRNIRA-IIYLDEVDTLV  146 (384)
T ss_dssp             HHHHHHHHHHSSSCE-EEEEETTHHHH
T ss_pred             HHHHHHHHHhccCCC-EEEEECHHHhc
Confidence            555555555544444 99999998876

>2xxa_A Signal recognition particle protein; protein transport, RNA/RNA binding protein, hydrolase, gtpas; HET: GCP; 3.94A {Escherichia coli} PDB: 2j28_9

Probab=97.97  E-value=3.7e-05  Score=70.25  Aligned_cols=85  Identities=20%  Similarity=0.205  Sum_probs=57.6

Q ss_pred             CcEEEEEecCCCChHHHHHHHHHHHhhc-CCeEEEEecCCCCCHH------HHHHcCCCccceeEeCC---CCHHHHHHH
Q 024705          120 GRIVEIYGREASGKTTLALHVIKEAQKL-GGYCAYLDVENALDPS------LAEAMGIDAENLLIAQP---DSAENLLSV  189 (264)
Q Consensus       120 G~~~~I~G~~GsGKTtl~~~l~~~~~~~-g~~v~~~~~e~~~~~~------~~~~~g~~~~~l~~~~~---~~~ee~~~~  189 (264)
                      ..++.++|++|+||||++.+++..+... |.+|++++.+......      .....|++     ++..   .++.+++..
T Consensus       100 ~~vI~ivG~~GvGKTT~a~~LA~~l~~~~G~kVllvd~D~~r~~a~~ql~~~~~~~~l~-----v~~~~~~~dp~~i~~~  174 (433)
T 2xxa_A          100 PAVVLMAGLQGAGKTTSVGKLGKFLREKHKKKVLVVSADVYRPAAIKQLETLAEQVGVD-----FFPSDVGQKPVDIVNA  174 (433)
T ss_dssp             SEEEEEECSTTSSHHHHHHHHHHHHHHTSCCCEEEEECCCSSTTHHHHHHHHHHHHTCE-----ECCCCSSSCHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHhcCCeEEEEecCCCCccHHHHHHhhcccCCee-----EEeCCCCCCHHHHHHH
Confidence            4688899999999999999999999988 9999999998654421      23333432     2211   244555332


Q ss_pred             HHHHhhcCCccEEEEcCccc
Q 024705          190 VDTLTKSGSIDVIVVDSVAA  209 (264)
Q Consensus       190 i~~~~~~~~~~~vvIDsl~~  209 (264)
                      .-......++++|+||+...
T Consensus       175 ~l~~~~~~~~D~VIIDTpG~  194 (433)
T 2xxa_A          175 ALKEAKLKFYDVLLVDTAGR  194 (433)
T ss_dssp             HHHHHHHTTCSEEEEECCCC
T ss_pred             HHHHHHhCCCCEEEEECCCc
Confidence            22222335789999998643

>3c8u_A Fructokinase; YP_612366.1, putative fructose transport system kinase, STRU genomics, joint center for structural genomics, JCSG; 1.95A {Silicibacter SP}

Probab=97.96  E-value=8.8e-06  Score=66.63  Aligned_cols=42  Identities=21%  Similarity=0.298  Sum_probs=34.0

Q ss_pred             CCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCC
Q 024705          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVEN  158 (264)
Q Consensus       117 l~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~  158 (264)
                      .++|+++.|.||||||||||+..++......|..+.++..+.
T Consensus        19 ~~~g~~v~I~G~sGsGKSTl~~~l~~~~~~~g~~~g~v~~d~   60 (208)
T 3c8u_A           19 QPGRQLVALSGAPGSGKSTLSNPLAAALSAQGLPAEVVPMDG   60 (208)
T ss_dssp             CCSCEEEEEECCTTSCTHHHHHHHHHHHHHTTCCEEEEESGG
T ss_pred             CCCCeEEEEECCCCCCHHHHHHHHHHHHhhcCCceEEEecCC
Confidence            468999999999999999999999887765554566666554

>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=97.96  E-value=8.3e-06  Score=74.78  Aligned_cols=80  Identities=20%  Similarity=0.287  Sum_probs=49.1

Q ss_pred             CCCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCHHHHHHcCCCccceeEeCCCCHHHHHHHHHHHh
Q 024705          115 GGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLT  194 (264)
Q Consensus       115 gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~~~~~~~g~~~~~l~~~~~~~~ee~~~~i~~~~  194 (264)
                      |+..+..-++|+||||+|||+++..++..+  .+..+++++.......    ..|..        ......++...    
T Consensus       162 ~~~~~~~~vLL~GppGtGKT~lA~aia~~~--~~~~~~~v~~~~l~~~----~~g~~--------~~~~~~~f~~a----  223 (444)
T 2zan_A          162 GKRTPWRGILLFGPPGTGKSYLAKAVATEA--NNSTFFSISSSDLVSK----WLGES--------EKLVKNLFQLA----  223 (444)
T ss_dssp             GGGCCCSEEEEECSTTSSHHHHHHHHHHHC--CSSEEEEECCC-------------C--------CCTHHHHHHHH----
T ss_pred             ccCCCCceEEEECCCCCCHHHHHHHHHHHc--CCCCEEEEeHHHHHhh----hcchH--------HHHHHHHHHHH----
Confidence            345566789999999999999999998865  2455666654321111    11111        12233343333    


Q ss_pred             hcCCccEEEEcCcccccc
Q 024705          195 KSGSIDVIVVDSVAALIP  212 (264)
Q Consensus       195 ~~~~~~~vvIDsl~~~~~  212 (264)
                      ....+.+++||.+..+.+
T Consensus       224 ~~~~~~vl~iDEid~l~~  241 (444)
T 2zan_A          224 RENKPSIIFIDEIDSLCG  241 (444)
T ss_dssp             HHSCSEEEEESCTTTTCC
T ss_pred             HHcCCeEEEEechHhhcc
Confidence            235789999999999874

>2j37_W Signal recognition particle 54 kDa protein (SRP54); ribosome, SRP, translation/RNA; 8.00A {Canis SP} PDB: 1wgw_A

Probab=97.95  E-value=7.5e-05  Score=69.41  Aligned_cols=102  Identities=17%  Similarity=0.108  Sum_probs=63.1

Q ss_pred             HHHHHHhcCC---CC----CCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCHH------HHHHcCCCc
Q 024705          106 LKLDLALGIG---GL----PKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPS------LAEAMGIDA  172 (264)
Q Consensus       106 ~~LD~~l~~g---Gl----~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~~------~~~~~g~~~  172 (264)
                      .+|..+++ +   ++    .+..++.|+|++|+||||++..++..+...|.++++++.|......      ...+.+++.
T Consensus        81 ~eL~~ll~-~~~~~~~~~~~~~~vI~ivG~~GvGKTTl~~kLA~~l~~~G~kVllVd~D~~r~aa~~qL~~~~~~~~i~v  159 (504)
T 2j37_W           81 KELVKLVD-PGVKAWTPTKGKQNVIMFVGLQGSGKTTTCSKLAYYYQRKGWKTCLICADTFRAGAFDQLKQNATKARIPF  159 (504)
T ss_dssp             HHHHHHHC-CCCCCCCCCSS--EEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEEECCSSSHHHHHHHHHHHHHTCCE
T ss_pred             HHHHHHhc-cccchhccccCCCeEEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEeccccchhHHHHHHHHhhccCceE
Confidence            34666776 4   23    2356899999999999999999999998889999999987644321      223334431


Q ss_pred             cceeEeCCCCHHHHH-HHHHHHhhcCCccEEEEcCccccc
Q 024705          173 ENLLIAQPDSAENLL-SVVDTLTKSGSIDVIVVDSVAALI  211 (264)
Q Consensus       173 ~~l~~~~~~~~ee~~-~~i~~~~~~~~~~~vvIDsl~~~~  211 (264)
                      -.  .....++.++. ..+..+ ...+.++++||......
T Consensus       160 ~~--~~~~~dp~~i~~~al~~~-~~~~~DvvIIDTpG~~~  196 (504)
T 2j37_W          160 YG--SYTEMDPVIIASEGVEKF-KNENFEIIIVDTSGRHK  196 (504)
T ss_dssp             EE--CCCCSCHHHHHHHHHHHH-HHTTCCEEEEEECCCCT
T ss_pred             Ec--cCCCCCHHHHHHHHHHHH-HHCCCcEEEEeCCCCcc
Confidence            11  01122333433 223322 23578899999876553

>3n70_A Transport activator; sigma-54, ntpase, PSI, MCSG, structural genomics, center for structural genomics; 2.80A {Escherichia coli}

Probab=97.95  E-value=1.2e-05  Score=62.02  Aligned_cols=38  Identities=18%  Similarity=0.134  Sum_probs=29.0

Q ss_pred             CCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecC
Q 024705          119 KGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVE  157 (264)
Q Consensus       119 ~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e  157 (264)
                      .+..++|+||+|+|||+++..+.......+.+.+ ++..
T Consensus        23 ~~~~vll~G~~GtGKt~lA~~i~~~~~~~~~~~v-~~~~   60 (145)
T 3n70_A           23 TDIAVWLYGAPGTGRMTGARYLHQFGRNAQGEFV-YREL   60 (145)
T ss_dssp             CCSCEEEESSTTSSHHHHHHHHHHSSTTTTSCCE-EEEC
T ss_pred             CCCCEEEECCCCCCHHHHHHHHHHhCCccCCCEE-EECC
Confidence            4456999999999999999998876655566655 5543

>1htw_A HI0065; nucleotide-binding fold, structural genomics, structure 2 function project, S2F, unknown function; HET: ADP; 1.70A {Haemophilus influenzae} SCOP: c.37.1.18 PDB: 1fl9_A

Probab=97.94  E-value=4.7e-06  Score=65.70  Aligned_cols=36  Identities=25%  Similarity=0.267  Sum_probs=30.4

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEE
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCA  152 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~  152 (264)
                      -+++|+++.|.||+|||||||+..++... +..+.|.
T Consensus        29 ~i~~Ge~v~L~G~nGaGKTTLlr~l~g~l-~~~G~V~   64 (158)
T 1htw_A           29 HTEKAIMVYLNGDLGAGKTTLTRGMLQGI-GHQGNVK   64 (158)
T ss_dssp             CCSSCEEEEEECSTTSSHHHHHHHHHHHT-TCCSCCC
T ss_pred             ccCCCCEEEEECCCCCCHHHHHHHHHHhC-CCCCeEE
Confidence            46899999999999999999999998887 6555543

>2obl_A ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O127} PDB: 2obm_A*

Probab=97.93  E-value=6.9e-06  Score=72.95  Aligned_cols=46  Identities=22%  Similarity=0.219  Sum_probs=39.0

Q ss_pred             CCccccCcHHHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHHhh
Q 024705           98 GPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQK  146 (264)
Q Consensus        98 ~~~i~tG~~~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~  146 (264)
                      ...+.||+..||.++.   +.+|+.+.|.||||+|||||+..++.....
T Consensus        52 ~~~~~tg~~ald~ll~---i~~Gq~~gIiG~nGaGKTTLl~~I~g~~~~   97 (347)
T 2obl_A           52 DQPFILGVRAIDGLLT---CGIGQRIGIFAGSGVGKSTLLGMICNGASA   97 (347)
T ss_dssp             CSEECCSCHHHHHHSC---EETTCEEEEEECTTSSHHHHHHHHHHHSCC
T ss_pred             ceecCCCCEEEEeeee---ecCCCEEEEECCCCCCHHHHHHHHhcCCCC
Confidence            4466789999999975   999999999999999999998777776543

>3ux8_A Excinuclease ABC, A subunit; UVRA, nucleotide excision repair, DNA repair, ABC ATPase, DN binding protein; HET: ADP; 2.10A {Geobacillus}

Probab=97.92  E-value=0.00012  Score=70.53  Aligned_cols=56  Identities=5%  Similarity=0.161  Sum_probs=36.2

Q ss_pred             HHHHHHhhc-CCccEEEEcCccccccccccCCCcCCCCcHHHHHHHHHHHHHHHHHHhccCcEEEEEcccchHh
Q 024705          188 SVVDTLTKS-GSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVKVLL  260 (264)
Q Consensus       188 ~~i~~~~~~-~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r~i~~~L~~l~~~l~~~g~tVi~i~h~~~~~  260 (264)
                      .+.+.++.. .+|+++++|..++-..             ....+.+.+.++++    ++.|+|||+++|..+.+
T Consensus       553 ~iAraL~~~p~~p~llllDEPt~~LD-------------~~~~~~i~~~l~~l----~~~g~tvi~vtHd~~~~  609 (670)
T 3ux8_A          553 KLAAELHRRSNGRTLYILDEPTTGLH-------------VDDIARLLDVLHRL----VDNGDTVLVIEHNLDVI  609 (670)
T ss_dssp             HHHHHHHSCCCSCEEEEEESTTTTCC-------------HHHHHHHHHHHHHH----HHTTCEEEEECCCHHHH
T ss_pred             HHHHHHhhCCCCCcEEEEeCCCCCCC-------------HHHHHHHHHHHHHH----HHCCCEEEEEeCCHHHH
Confidence            334444432 2467999998776552             13444456666666    34599999999998765

>1ewq_A DNA mismatch repair protein MUTS; multiple domains of protein, mostly mixed alpha-beta structures, one domain is entirely helical; HET: DNA; 2.20A {Thermus aquaticus} SCOP: a.113.1.1 c.37.1.12 c.55.6.1 d.75.2.1 PDB: 1nne_A* 1fw6_A* 1ewr_A*

Probab=97.91  E-value=3e-05  Score=75.61  Aligned_cols=26  Identities=27%  Similarity=0.262  Sum_probs=23.6

Q ss_pred             CcEEEEEecCCCChHHHHHHHHHHHh
Q 024705          120 GRIVEIYGREASGKTTLALHVIKEAQ  145 (264)
Q Consensus       120 G~~~~I~G~~GsGKTtl~~~l~~~~~  145 (264)
                      |++++|+||||+||||++..++....
T Consensus       576 g~i~~I~GpNGsGKSTlLr~iagl~~  601 (765)
T 1ewq_A          576 HELVLITGPNMAGKSTFLRQTALIAL  601 (765)
T ss_dssp             SCEEEEESCSSSSHHHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCChHHHHHHHHhhhh
Confidence            89999999999999999999987653

>4aby_A DNA repair protein RECN; hydrolase, double strand break repair, ATPase, nucleotide binding domain; HET: DNA; 3.00A {Deinococcus radiodurans}

Probab=97.91  E-value=3.4e-05  Score=69.69  Aligned_cols=28  Identities=18%  Similarity=0.189  Sum_probs=23.5

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHH
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEA  144 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~  144 (264)
                      -+.+| +++|+||||+|||||+..+...+
T Consensus        57 ~~~~G-~~~lvG~NGaGKStLl~aI~~l~   84 (415)
T 4aby_A           57 ELGGG-FCAFTGETGAGKSIIVDALGLLL   84 (415)
T ss_dssp             ECCSS-EEEEEESHHHHHHHHTHHHHHHT
T ss_pred             ecCCC-cEEEECCCCCCHHHHHHHHHHHh
Confidence            37789 99999999999999987775543

>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein, calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides} PDB: 3syk_A 3zuh_A*

Probab=97.91  E-value=0.00014  Score=62.74  Aligned_cols=77  Identities=19%  Similarity=0.234  Sum_probs=47.7

Q ss_pred             CCCCcEEEEEecCCCChHHHHHHHHHHHhhcC----CeEEEEecCCCCCHHHHHHcCCCccceeEeCCCCHHHHHHHHHH
Q 024705          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLG----GYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDT  192 (264)
Q Consensus       117 l~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g----~~v~~~~~e~~~~~~~~~~~g~~~~~l~~~~~~~~ee~~~~i~~  192 (264)
                      -.++..++|+||||+|||+++..++..+...+    .++++++...-....    +           ..........+..
T Consensus        64 ~~~~~~vll~G~~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~l~~~~----~-----------g~~~~~~~~~~~~  128 (309)
T 3syl_A           64 ETPTLHMSFTGNPGTGKTTVALKMAGLLHRLGYVRKGHLVSVTRDDLVGQY----I-----------GHTAPKTKEVLKR  128 (309)
T ss_dssp             SCCCCEEEEEECTTSSHHHHHHHHHHHHHHTTSSSSCCEEEECGGGTCCSS----T-----------TCHHHHHHHHHHH
T ss_pred             CCCCceEEEECCCCCCHHHHHHHHHHHHHhcCCcCCCcEEEEcHHHhhhhc----c-----------cccHHHHHHHHHh
Confidence            34556799999999999999999988876543    256666643211100    0           0111222222222


Q ss_pred             HhhcCCccEEEEcCcccccc
Q 024705          193 LTKSGSIDVIVVDSVAALIP  212 (264)
Q Consensus       193 ~~~~~~~~~vvIDsl~~~~~  212 (264)
                          ....+++||.+..+..
T Consensus       129 ----~~~~vl~iDEid~l~~  144 (309)
T 3syl_A          129 ----AMGGVLFIDEAYYLYR  144 (309)
T ss_dssp             ----HTTSEEEEETGGGSCC
T ss_pred             ----cCCCEEEEEChhhhcc
Confidence                2567999999998873

>2r6f_A Excinuclease ABC subunit A; UVRA, nucleotide excision repair, DNA repair, ABC ATPase, at cassette, DNA damage, DNA excision; HET: ADP; 3.20A {Geobacillus stearothermophilus} PDB: 3uwx_A

Probab=97.91  E-value=4.9e-05  Score=75.31  Aligned_cols=25  Identities=40%  Similarity=0.658  Sum_probs=23.0

Q ss_pred             CCCCcEEEEEecCCCChHHHHHHHH
Q 024705          117 LPKGRIVEIYGREASGKTTLALHVI  141 (264)
Q Consensus       117 l~~G~~~~I~G~~GsGKTtl~~~l~  141 (264)
                      +++|+++.|+|+||||||||+..++
T Consensus       647 I~~Geiv~I~G~nGSGKSTLl~~ll  671 (972)
T 2r6f_A          647 IPLGTFVAVTGVSGSGKSTLVNEVL  671 (972)
T ss_dssp             EESSSEEECCBCTTSSHHHHHTTTH
T ss_pred             EcCCCEEEEEcCCCCCHHHHHHHHH
Confidence            6789999999999999999998865

>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=97.91  E-value=5.5e-05  Score=61.14  Aligned_cols=84  Identities=17%  Similarity=0.207  Sum_probs=57.5

Q ss_pred             EEEEE-ecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCHHHHHHcCCCccceeEeCCCCHHHHHHHHHHHhhcCCcc
Q 024705          122 IVEIY-GREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTKSGSID  200 (264)
Q Consensus       122 ~~~I~-G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~~~~~~~g~~~~~l~~~~~~~~ee~~~~i~~~~~~~~~~  200 (264)
                      ++.++ +..|+||||++.+++..++..|.+|++++.+.....  ...++....++.+..... +.+...+..+.  ..++
T Consensus         3 vi~v~s~kgG~GKTt~a~~la~~la~~g~~vlliD~D~~~~~--~~~~~~~~~~~~~~~~~~-~~l~~~l~~l~--~~yD   77 (206)
T 4dzz_A            3 VISFLNPKGGSGKTTAVINIATALSRSGYNIAVVDTDPQMSL--TNWSKAGKAAFDVFTAAS-EKDVYGIRKDL--ADYD   77 (206)
T ss_dssp             EEEECCSSTTSSHHHHHHHHHHHHHHTTCCEEEEECCTTCHH--HHHHTTSCCSSEEEECCS-HHHHHTHHHHT--TTSS
T ss_pred             EEEEEeCCCCccHHHHHHHHHHHHHHCCCeEEEEECCCCCCH--HHHHhcCCCCCcEEecCc-HHHHHHHHHhc--CCCC
Confidence            34455 669999999999999999999999999998854332  233344444444443333 55555555553  4689


Q ss_pred             EEEEcCcccc
Q 024705          201 VIVVDSVAAL  210 (264)
Q Consensus       201 ~vvIDsl~~~  210 (264)
                      +|+||.-...
T Consensus        78 ~viiD~~~~~   87 (206)
T 4dzz_A           78 FAIVDGAGSL   87 (206)
T ss_dssp             EEEEECCSSS
T ss_pred             EEEEECCCCC
Confidence            9999986554

>1g5t_A COB(I)alamin adenosyltransferase; P-loop protein, cobalamin biosynthesis, RECA fold; HET: ATP; 1.80A {Salmonella typhimurium} SCOP: c.37.1.11 PDB: 1g5r_A* 1g64_A*

Probab=97.90  E-value=9.1e-05  Score=60.26  Aligned_cols=92  Identities=15%  Similarity=0.235  Sum_probs=60.4

Q ss_pred             CcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCC-C---HHHHHHcCCCccc----eeEeCCC------CHHH
Q 024705          120 GRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENAL-D---PSLAEAMGIDAEN----LLIAQPD------SAEN  185 (264)
Q Consensus       120 G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~-~---~~~~~~~g~~~~~----l~~~~~~------~~ee  185 (264)
                      ...+.+++++|.||||.+..++..++..|.+|+++.+.... .   ....+.+++....    +.+..+.      ...+
T Consensus        28 ~g~i~v~tG~GkGKTTaA~GlalRA~g~G~rV~~vQF~Kg~~~~gE~~~l~~L~v~~~~~g~gf~~~~~~~~~~~~~a~~  107 (196)
T 1g5t_A           28 RGIIIVFTGNGKGKTTAAFGTAARAVGHGKNVGVVQFIKGTWPNGERNLLEPHGVEFQVMATGFTWETQNREADTAACMA  107 (196)
T ss_dssp             CCCEEEEESSSSCHHHHHHHHHHHHHHTTCCEEEEESSCCSSCCHHHHHHGGGTCEEEECCTTCCCCGGGHHHHHHHHHH
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEEeeCCCCCccHHHHHHhCCcEEEEcccccccCCCCcHHHHHHHHH
Confidence            34677888899999999999999999999999999876542 1   1344555432211    1111111      0112


Q ss_pred             HHHHHHHHhhcCCccEEEEcCccccc
Q 024705          186 LLSVVDTLTKSGSIDVIVVDSVAALI  211 (264)
Q Consensus       186 ~~~~i~~~~~~~~~~~vvIDsl~~~~  211 (264)
                      ....+...+.+..+++||+|.++...
T Consensus       108 ~l~~a~~~l~~~~yDlvILDEi~~al  133 (196)
T 1g5t_A          108 VWQHGKRMLADPLLDMVVLDELTYMV  133 (196)
T ss_dssp             HHHHHHHHTTCTTCSEEEEETHHHHH
T ss_pred             HHHHHHHHHhcCCCCEEEEeCCCccc
Confidence            23344555666789999999998765

>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=97.90  E-value=1.1e-05  Score=65.61  Aligned_cols=41  Identities=32%  Similarity=0.399  Sum_probs=33.6

Q ss_pred             CCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecC
Q 024705          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVE  157 (264)
Q Consensus       117 l~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e  157 (264)
                      .++|.++.|.|||||||||++..++..+...|..+.|++.+
T Consensus        22 ~~~g~~i~l~G~sGsGKSTl~~~La~~l~~~G~~~~~~d~d   62 (200)
T 3uie_A           22 DQKGCVIWVTGLSGSGKSTLACALNQMLYQKGKLCYILDGD   62 (200)
T ss_dssp             TSCCEEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEEHH
T ss_pred             CCCCeEEEEECCCCCCHHHHHHHHHHHHHhcCceEEEecCc
Confidence            36899999999999999999999998876556555677754

>1rz3_A Hypothetical protein rbstp0775; MCSG, structural genomics, PSI, protein structure initiative; 1.90A {Geobacillus stearothermophilus} SCOP: c.37.1.6

Probab=97.87  E-value=2.6e-05  Score=63.52  Aligned_cols=43  Identities=23%  Similarity=0.268  Sum_probs=36.5

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCC
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVEN  158 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~  158 (264)
                      -.++|.++.|.|++||||||++..++......++.+.+++.+.
T Consensus        18 ~~~~~~~i~i~G~~GsGKstl~~~l~~~~~~~~~~v~~~~~d~   60 (201)
T 1rz3_A           18 KTAGRLVLGIDGLSRSGKTTLANQLSQTLREQGISVCVFHMDD   60 (201)
T ss_dssp             CCSSSEEEEEEECTTSSHHHHHHHHHHHHHHTTCCEEEEEGGG
T ss_pred             ccCCCeEEEEECCCCCCHHHHHHHHHHHHhhcCCeEEEeccCc
Confidence            3567899999999999999999999888777788888886654

>1ixz_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 2.20A {Thermus thermophilus} SCOP: c.37.1.20 PDB: 1iy0_A* 1iy1_A*

Probab=97.84  E-value=3.3e-05  Score=64.96  Aligned_cols=35  Identities=37%  Similarity=0.358  Sum_probs=26.2

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEe
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLD  155 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~  155 (264)
                      -+++|  ++|+||||+||||++..++...   +.+.++++
T Consensus        47 ~~~~g--~ll~G~~G~GKTtl~~~i~~~~---~~~~i~~~   81 (254)
T 1ixz_A           47 RIPKG--VLLVGPPGVGKTHLARAVAGEA---RVPFITAS   81 (254)
T ss_dssp             CCCSE--EEEECCTTSSHHHHHHHHHHHT---TCCEEEEE
T ss_pred             CCCCe--EEEECCCCCCHHHHHHHHHHHh---CCCEEEee
Confidence            34556  9999999999999999888754   23445554

>2pez_A Bifunctional 3'-phosphoadenosine 5'- phosphosulfate synthetase 1 (PAPS synthetase...; NMP-kinase fold, protein in complex with nucleic acid; HET: GGZ DAT; 1.40A {Homo sapiens} PDB: 2pey_A* 2ax4_A*

Probab=97.84  E-value=1.6e-05  Score=63.36  Aligned_cols=39  Identities=28%  Similarity=0.275  Sum_probs=32.3

Q ss_pred             CCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEec
Q 024705          118 PKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDV  156 (264)
Q Consensus       118 ~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~  156 (264)
                      .+|.++.|.|++||||||++..++..+...|.++++++.
T Consensus         3 ~~g~~i~l~G~~GsGKST~~~~L~~~l~~~g~~~i~~d~   41 (179)
T 2pez_A            3 MRGCTVWLTGLSGAGKTTVSMALEEYLVCHGIPCYTLDG   41 (179)
T ss_dssp             -CCEEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEEH
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHHHhhCCCcEEEECC
Confidence            679999999999999999999998877665667777764

>2gza_A Type IV secretion system protein VIRB11; ATPase, hydrolase; 2.60A {Brucella suis}

Probab=97.84  E-value=1.1e-05  Score=72.07  Aligned_cols=38  Identities=24%  Similarity=0.291  Sum_probs=29.8

Q ss_pred             CCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEe
Q 024705          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLD  155 (264)
Q Consensus       117 l~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~  155 (264)
                      +++|++++|+||+|||||||+..++....+.. +.+.++
T Consensus       172 i~~G~~i~ivG~sGsGKSTll~~l~~~~~~~~-g~I~ie  209 (361)
T 2gza_A          172 VQLERVIVVAGETGSGKTTLMKALMQEIPFDQ-RLITIE  209 (361)
T ss_dssp             HHTTCCEEEEESSSSCHHHHHHHHHTTSCTTS-CEEEEE
T ss_pred             HhcCCEEEEECCCCCCHHHHHHHHHhcCCCCc-eEEEEC
Confidence            56899999999999999999888877654444 455554

>3cf2_A TER ATPase, transitional endoplasmic reticulum ATPase, valosi; AAA, CDC48, ERAD, transport protein; HET: ADP ANP; 3.50A {Mus musculus} PDB: 3cf1_A* 3cf3_A* 1r7r_A*

Probab=97.84  E-value=3e-05  Score=75.81  Aligned_cols=120  Identities=19%  Similarity=0.198  Sum_probs=64.6

Q ss_pred             CCCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCHHHHHHcCCCccceeEeCCCCHHHHHHHHHHHh
Q 024705          115 GGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLT  194 (264)
Q Consensus       115 gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~~~~~~~g~~~~~l~~~~~~~~ee~~~~i~~~~  194 (264)
                      .|+.+..-++++||||+|||.++..++..+   +...+.++..    ......+|           .+ +..+..+-...
T Consensus       506 ~g~~~~~gvLl~GPPGtGKT~lAkaiA~e~---~~~f~~v~~~----~l~s~~vG-----------es-e~~vr~lF~~A  566 (806)
T 3cf2_A          506 FGMTPSKGVLFYGPPGCGKTLLAKAIANEC---QANFISIKGP----ELLTMWFG-----------ES-EANVREIFDKA  566 (806)
T ss_dssp             SCCCCCSCCEEESSTTSSHHHHHHHHHHTT---TCEEEECCHH----HHHTTTCS-----------SC-HHHHHHHHHHH
T ss_pred             cCCCCCceEEEecCCCCCchHHHHHHHHHh---CCceEEeccc----hhhccccc-----------hH-HHHHHHHHHHH
Confidence            567777779999999999999999988754   4333333211    11111111           11 33333333333


Q ss_pred             hcCCccEEEEcCccccccccccCCCcCCCCcHHHHHHHHHHHHHHHHHHhccCcEEEEEccc
Q 024705          195 KSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQV  256 (264)
Q Consensus       195 ~~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r~i~~~L~~l~~~l~~~g~tVi~i~h~  256 (264)
                      +...+.+++||.+..+.+......   ....+...+.++++|..+-..-...++.||..++.
T Consensus       567 r~~~P~IifiDEiDsl~~~R~~~~---~~~~~~~~rv~~~lL~~mdg~~~~~~V~vi~aTN~  625 (806)
T 3cf2_A          567 RQAAPCVLFFDELDSIAKARGGNI---GDGGGAADRVINQILTEMDGMSTKKNVFIIGATNR  625 (806)
T ss_dssp             HTTCSEEEECSCGGGCC-----------------CHHHHHHHHHHHSSCSSSSEEEECC-CC
T ss_pred             HHcCCceeechhhhHHhhccCCCC---CCCchHHHHHHHHHHHHHhCCCCCCCEEEEEeCCC
Confidence            456789999999999985321110   01112334556677777754434456667655543

>2vf7_A UVRA2, excinuclease ABC, subunit A.; DNA-binding protein, nucleotide-binding, zinc-binding domain, SOS response, metal-binding; HET: ADP; 2.30A {Deinococcus radiodurans} PDB: 2vf8_A*

Probab=97.83  E-value=5.9e-05  Score=74.15  Aligned_cols=26  Identities=31%  Similarity=0.589  Sum_probs=23.1

Q ss_pred             CCCCcEEEEEecCCCChHHHHHH-HHH
Q 024705          117 LPKGRIVEIYGREASGKTTLALH-VIK  142 (264)
Q Consensus       117 l~~G~~~~I~G~~GsGKTtl~~~-l~~  142 (264)
                      +++|+++.|+|+||||||||+.. ++.
T Consensus       520 i~~Geiv~I~G~nGSGKSTLl~~~L~g  546 (842)
T 2vf7_A          520 FPLGVMTSVTGVSGSGKSTLVSQALVD  546 (842)
T ss_dssp             EESSSEEEEECCTTSSHHHHCCCCCHH
T ss_pred             EcCCCEEEEEcCCCcCHHHHHHHHHHH
Confidence            78999999999999999999886 443

>2dpy_A FLII, flagellum-specific ATP synthase; beta barrel, alpha-beta structure, hydrolase; HET: ADP; 2.40A {Salmonella typhimurium}

Probab=97.82  E-value=1.7e-05  Score=72.67  Aligned_cols=55  Identities=18%  Similarity=0.224  Sum_probs=42.1

Q ss_pred             CccccCcHHHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecC
Q 024705           99 PVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVE  157 (264)
Q Consensus        99 ~~i~tG~~~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e  157 (264)
                      ..+.||...||.++.   +.+|+.+.|.||||||||||+..++..... ...++.+..+
T Consensus       139 ~~~~tg~~vld~vl~---i~~Gq~~~IvG~sGsGKSTLl~~Iag~~~~-~~G~i~~~G~  193 (438)
T 2dpy_A          139 HVLDTGVRAINALLT---VGRGQRMGLFAGSGVGKSVLLGMMARYTRA-DVIVVGLIGE  193 (438)
T ss_dssp             SBCCCSCHHHHHHSC---CBTTCEEEEEECTTSSHHHHHHHHHHHSCC-SEEEEEEESC
T ss_pred             eecCCCceEEeeeEE---ecCCCEEEEECCCCCCHHHHHHHHhcccCC-CeEEEEEece
Confidence            455678999999965   999999999999999999997777776543 3334445443

>4eun_A Thermoresistant glucokinase; putative sugar kinase, enzyme function initiative, EFI, STRU genomics, transferase; 1.60A {Janibacter SP}

Probab=97.82  E-value=2.6e-05  Score=63.36  Aligned_cols=51  Identities=29%  Similarity=0.371  Sum_probs=35.1

Q ss_pred             CCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCH--HHHHHcCCCcc
Q 024705          118 PKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP--SLAEAMGIDAE  173 (264)
Q Consensus       118 ~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~--~~~~~~g~~~~  173 (264)
                      ++|.+++|.|||||||||++..++...   |  .++++.+.....  ......|+.++
T Consensus        27 ~~g~~i~l~G~~GsGKSTl~~~L~~~~---g--~~~i~~d~~~~~~~~~~~~~g~~~~   79 (200)
T 4eun_A           27 EPTRHVVVMGVSGSGKTTIAHGVADET---G--LEFAEADAFHSPENIATMQRGIPLT   79 (200)
T ss_dssp             -CCCEEEEECCTTSCHHHHHHHHHHHH---C--CEEEEGGGGSCHHHHHHHHTTCCCC
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHhh---C--CeEEcccccccHHHHHHHhcCCCCC
Confidence            579999999999999999999988765   3  456666554333  22234565544

>2yvu_A Probable adenylyl-sulfate kinase; transferase, structural genomics, NPPSFA, national P protein structural and functional analyses; 2.10A {Aeropyrum pernix}

Probab=97.80  E-value=2e-05  Score=63.09  Aligned_cols=48  Identities=33%  Similarity=0.301  Sum_probs=36.6

Q ss_pred             HHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecC
Q 024705          107 KLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVE  157 (264)
Q Consensus       107 ~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e  157 (264)
                      .||+-..   ..+|.++.|.|++||||||++..++..+...|.++.+++.+
T Consensus         3 ~~~~~~~---~~~~~~i~l~G~~GsGKsT~~~~L~~~l~~~~~~~~~~~~d   50 (186)
T 2yvu_A            3 ALTTYKC---IEKGIVVWLTGLPGSGKTTIATRLADLLQKEGYRVEVLDGD   50 (186)
T ss_dssp             -----CC---CSCCEEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEEHH
T ss_pred             ccccccc---cCCCcEEEEEcCCCCCHHHHHHHHHHHHHhcCCeEEEeeHH
Confidence            3555333   35789999999999999999999999888788888888754

>3oaa_A ATP synthase subunit alpha; rossmann fold, hydrolase, hydrolase-transport PROT complex; HET: ANP ADP; 3.26A {Escherichia coli DH1} PDB: 2a7u_A

Probab=97.80  E-value=0.00013  Score=67.18  Aligned_cols=114  Identities=20%  Similarity=0.336  Sum_probs=71.4

Q ss_pred             CCCCCccccCcHHHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCH--HHHHH---cC
Q 024705           95 SRRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP--SLAEA---MG  169 (264)
Q Consensus        95 ~~~~~~i~tG~~~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~--~~~~~---~g  169 (264)
                      ....+.+.||+..+|.++.   +-+|+-.+|.|++|+|||++++..+.+....+..|+|....+....  ...+.   -|
T Consensus       140 ~~v~epl~TGikaID~l~P---igrGQR~~Ifg~~g~GKT~l~l~~I~n~~~~dv~~V~~~IGeR~~ev~e~~~~l~~~g  216 (513)
T 3oaa_A          140 QSVDQPVQTGYKAVDSMIP---IGRGQRELIIGDRQTGKTALAIDAIINQRDSGIKCIYVAIGQKASTISNVVRKLEEHG  216 (513)
T ss_dssp             CCCCCBCCCSCHHHHHHSC---CBTTCBCEEEESSSSSHHHHHHHHHHTTSSSSCEEEEEEESCCHHHHHHHHHHHHHHS
T ss_pred             CCcCcccccceeeeccccc---cccCCEEEeecCCCCCcchHHHHHHHhhccCCceEEEEEecCChHHHHHHHHHHhhcC
Confidence            4557899999999999986   7799999999999999999987666655455556778765554433  12222   23


Q ss_pred             CCccceeEeC-C-CCH-HHHH------HHHHHHhhcCCccEEEEcCccccc
Q 024705          170 IDAENLLIAQ-P-DSA-ENLL------SVVDTLTKSGSIDVIVVDSVAALI  211 (264)
Q Consensus       170 ~~~~~l~~~~-~-~~~-ee~~------~~i~~~~~~~~~~~vvIDsl~~~~  211 (264)
                      .-...+.+.. . .++ ..+.      .+.+.....++--++++|+++.+.
T Consensus       217 ~m~~tvvV~atad~p~~~r~~a~~~a~tiAEyfrd~G~dVLli~Dsltr~A  267 (513)
T 3oaa_A          217 ALANTIVVVATASESAALQYLAPYAGCAMGEYFRDRGEDALIIYDDLSKQA  267 (513)
T ss_dssp             CSTTEEEEEECTTSCHHHHHHHHHHHHHHHHHHHHTTCEEEEEEETHHHHH
T ss_pred             cccceEEEEECCCCChHHHHHHHHHHHHHHHHHHhcCCCEEEEecChHHHH
Confidence            2222222222 2 222 2211      222333344556678999998654

>1znw_A Guanylate kinase, GMP kinase; ATP:GMP-phosphotransferase, TR; 2.10A {Mycobacterium tuberculosis} SCOP: c.37.1.1 PDB: 1znx_A* 1zny_A* 1znz_A* 1s4q_A 1z8f_A

Probab=97.79  E-value=1.2e-05  Score=65.69  Aligned_cols=29  Identities=28%  Similarity=0.373  Sum_probs=23.9

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHH
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEA  144 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~  144 (264)
                      -+++|+++.|.||||||||||+..++...
T Consensus        16 ~i~~Gei~~l~GpnGsGKSTLl~~l~gl~   44 (207)
T 1znw_A           16 PAAVGRVVVLSGPSAVGKSTVVRCLRERI   44 (207)
T ss_dssp             ---CCCEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CCCCCCEEEEECCCCCCHHHHHHHHHhhC
Confidence            37899999999999999999998887754

>1e69_A Chromosome segregation SMC protein; structural maintenance of chromosomes, coiled coil; 3.1A {Thermotoga maritima} SCOP: c.37.1.12

Probab=97.79  E-value=0.00015  Score=63.42  Aligned_cols=25  Identities=20%  Similarity=0.318  Sum_probs=21.6

Q ss_pred             CCCCcEEEEEecCCCChHHHHHHHHH
Q 024705          117 LPKGRIVEIYGREASGKTTLALHVIK  142 (264)
Q Consensus       117 l~~G~~~~I~G~~GsGKTtl~~~l~~  142 (264)
                      +.+| +++|+||||+||||++..+..
T Consensus        22 ~~~g-~~~i~G~NGsGKS~ll~ai~~   46 (322)
T 1e69_A           22 FSDR-VTAIVGPNGSGKSNIIDAIKW   46 (322)
T ss_dssp             CCSS-EEEEECCTTTCSTHHHHHHHH
T ss_pred             cCCC-cEEEECCCCCcHHHHHHHHHH
Confidence            4466 999999999999999888874

>2ck3_A ATP synthase subunit alpha\, mitochondrial; hydrolase; HET: ANP ADP; 1.9A {Bos taurus} SCOP: a.69.1.1 b.49.1.1 c.37.1.11 PDB: 1bmf_A* 1e1q_A* 1e1r_A* 1e79_A* 1h8h_A* 1nbm_A* 1ohh_A* 1qo1_A 1w0j_A* 1w0k_A* 1h8e_A* 2jdi_A* 2wss_A* 2w6j_A 2w6e_A 2w6g_A 2w6f_A 2w6h_A 2w6i_A 1cow_A* ...

Probab=97.77  E-value=0.00014  Score=67.21  Aligned_cols=114  Identities=19%  Similarity=0.320  Sum_probs=70.1

Q ss_pred             CCCCCccccCcHHHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHHhh--------cCCeEEEEecCCCCCH--HH
Q 024705           95 SRRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQK--------LGGYCAYLDVENALDP--SL  164 (264)
Q Consensus        95 ~~~~~~i~tG~~~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~--------~g~~v~~~~~e~~~~~--~~  164 (264)
                      ....+.+.||+..+|.++.   +-+|+-.+|.|++|+|||++++..+.+...        .+..|+|....+....  ..
T Consensus       140 ~~v~epl~TGiraID~l~P---igrGQR~~I~g~~g~GKT~Lal~~I~~q~~~~~~~~~~~d~~~V~~~IGeR~~Ev~~~  216 (510)
T 2ck3_A          140 ISVREPMQTGIKAVDSLVP---IGRGQRELIIGDRQTGKTSIAIDTIINQKRFNDGTDEKKKLYCIYVAIGQKRSTVAQL  216 (510)
T ss_dssp             CCCCSBCCCSCHHHHHHSC---CBTTCBCEEEESTTSSHHHHHHHHHHHTHHHHTSCCTTTCCEEEEEEESCCHHHHHHH
T ss_pred             cccCccccccceeeccccc---cccCCEEEEecCCCCCchHHHHHHHHHHHhhccccccCCCeEEEEEECCCCcHHHHHH
Confidence            3456789999999999986   789999999999999999997655554444        4456788776554443  11


Q ss_pred             HH---HcCCCccceeEeC-C-CCH-HHHH------HHHHHHhhcCCccEEEEcCccccc
Q 024705          165 AE---AMGIDAENLLIAQ-P-DSA-ENLL------SVVDTLTKSGSIDVIVVDSVAALI  211 (264)
Q Consensus       165 ~~---~~g~~~~~l~~~~-~-~~~-ee~~------~~i~~~~~~~~~~~vvIDsl~~~~  211 (264)
                      .+   .-|.-...+.+.. . .++ ..+.      .+.+.....++--++++|+++.+.
T Consensus       217 ~~~~~~~g~m~~tvvV~atad~p~~~r~~a~~~a~tiAEyfrd~G~dVLli~Dsltr~A  275 (510)
T 2ck3_A          217 VKRLTDADAMKYTIVVSATASDAAPLQYLAPYSGCSMGEYFRDNGKHALIIYDDLSKQA  275 (510)
T ss_dssp             HHHHHHTTCGGGEEEEEECTTSCHHHHHHHHHHHHHHHHHHHTTTCEEEEEEETHHHHH
T ss_pred             HHHHHhcCCcccceEEEECCCCCHHHHHHHHHHHHHHHHHHHHcCCcEEEEEcCHHHHH
Confidence            11   1122222222222 2 222 2221      223333444555678999998665

>2qe7_A ATP synthase subunit alpha; blockage of ATP hydrolysis, F1-ATPase, single analysis, thermoalkaliphilic, hydrolase; 3.06A {Bacillus SP} PDB: 1sky_B

Probab=97.77  E-value=9.8e-05  Score=68.10  Aligned_cols=114  Identities=15%  Similarity=0.233  Sum_probs=71.2

Q ss_pred             CCCCCccccCcHHHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCH--HHH---HHcC
Q 024705           95 SRRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP--SLA---EAMG  169 (264)
Q Consensus        95 ~~~~~~i~tG~~~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~--~~~---~~~g  169 (264)
                      ....+.+.||+..+|.++.   +-+|+-.+|.|++|+|||++++..+.+....+..++|....+....  ...   ..-|
T Consensus       140 ~~v~epl~TGiraID~l~P---igrGQR~~Ifg~~g~GKT~Lal~~I~~~~~~dv~~V~~~iGeR~~Ev~~~~~~~~~~g  216 (502)
T 2qe7_A          140 KSVHEPLQTGIKAIDSMIP---IGRGQRELIIGDRQTGKTTIAIDTIINQKGQDVICIYVAIGQKQSTVAGVVETLRQHD  216 (502)
T ss_dssp             CCCCSBCCCSCHHHHHSSC---CBTTCBCEEEECSSSCHHHHHHHHHHGGGSCSEEEEEEEESCCHHHHHHHHHHHHHTT
T ss_pred             cCCCCccccceeecccccc---cccCCEEEEECCCCCCchHHHHHHHHHhhcCCcEEEEEECCCcchHHHHHHHHHhhCC
Confidence            4457889999999999986   7899999999999999999977666665555556677766554433  111   1122


Q ss_pred             CCccceeEeC-CC-C-HHHH------HHHHHHHhhcCCccEEEEcCccccc
Q 024705          170 IDAENLLIAQ-PD-S-AENL------LSVVDTLTKSGSIDVIVVDSVAALI  211 (264)
Q Consensus       170 ~~~~~l~~~~-~~-~-~ee~------~~~i~~~~~~~~~~~vvIDsl~~~~  211 (264)
                      .-...+.+.. .+ + ...+      ....+.....++--++++|+++.+.
T Consensus       217 ~m~~tvvV~atad~p~~~r~~a~~~a~tiAEyfrd~G~dVLl~~Dsltr~A  267 (502)
T 2qe7_A          217 ALDYTIVVTASASEPAPLLYLAPYAGCAMGEYFMYKGKHALVVYDDLSKQA  267 (502)
T ss_dssp             CSTTEEEEEECTTSCHHHHHHHHHHHHHHHHHHHTTTCEEEEEEECHHHHH
T ss_pred             CcceeEEEEECCCCCHHHHHHHHHHHHHHHHHHHHcCCcEEEEEecHHHHH
Confidence            2222222222 22 2 2222      1223333444555678999998654

>3aez_A Pantothenate kinase; transferase, homodimer, COA biosynthesis, nucleotide binding binding, cytoplasm, nucleotide-binding; HET: GDP PAZ; 2.20A {Mycobacterium tuberculosis} PDB: 2ges_A* 2geu_A* 2gev_A* 2zs7_A* 2zs8_A* 2zs9_A* 2zsa_A* 2zsb_A* 2zsd_A* 2zse_A* 2zsf_A* 2get_A* 3af0_A* 3af1_A* 3af2_A* 3af3_A* 3af4_A* 3avp_A* 3avo_A* 3avq_A*

Probab=97.76  E-value=2.8e-05  Score=67.99  Aligned_cols=43  Identities=19%  Similarity=0.138  Sum_probs=35.0

Q ss_pred             CCCCcEEEEEecCCCChHHHHHHHHHHHhhc-C-CeEEEEecCCC
Q 024705          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKL-G-GYCAYLDVENA  159 (264)
Q Consensus       117 l~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~-g-~~v~~~~~e~~  159 (264)
                      +++|.++.|.||||||||||+..++....+. | ..+.|+..+..
T Consensus        87 ~~~g~ivgI~G~sGsGKSTL~~~L~gll~~~~G~~~v~~v~qd~~  131 (312)
T 3aez_A           87 RPVPFIIGVAGSVAVGKSTTARVLQALLARWDHHPRVDLVTTDGF  131 (312)
T ss_dssp             SCCCEEEEEECCTTSCHHHHHHHHHHHHHTSTTCCCEEEEEGGGG
T ss_pred             CCCCEEEEEECCCCchHHHHHHHHHhhccccCCCCeEEEEecCcc
Confidence            6889999999999999999999888877654 2 35778876654

>1njg_A DNA polymerase III subunit gamma; rossman-like fold, AAA+ ATPase domains, sensor 1, sensor 2, transferase; HET: DNA; 2.20A {Escherichia coli} SCOP: c.37.1.20 PDB: 1njf_A*

Probab=97.76  E-value=3.2e-05  Score=63.32  Aligned_cols=26  Identities=23%  Similarity=0.211  Sum_probs=22.7

Q ss_pred             cEEEEEecCCCChHHHHHHHHHHHhh
Q 024705          121 RIVEIYGREASGKTTLALHVIKEAQK  146 (264)
Q Consensus       121 ~~~~I~G~~GsGKTtl~~~l~~~~~~  146 (264)
                      ..++|+||+|+||||++..++.....
T Consensus        46 ~~~ll~G~~G~GKT~l~~~~~~~~~~   71 (250)
T 1njg_A           46 HAYLFSGTRGVGKTSIARLLAKGLNC   71 (250)
T ss_dssp             SEEEEECSTTSCHHHHHHHHHHHHHC
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhcC
Confidence            48999999999999999999887653

>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=97.76  E-value=0.0001  Score=68.74  Aligned_cols=42  Identities=26%  Similarity=0.180  Sum_probs=32.8

Q ss_pred             CCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCH
Q 024705          118 PKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP  162 (264)
Q Consensus       118 ~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~  162 (264)
                      ++...++|+||||+|||+++..++..+   +..+++++.......
T Consensus        75 ~~~~~lLL~GppGtGKTtla~~la~~l---~~~~i~in~s~~~~~  116 (516)
T 1sxj_A           75 GVFRAAMLYGPPGIGKTTAAHLVAQEL---GYDILEQNASDVRSK  116 (516)
T ss_dssp             TSCSEEEEECSTTSSHHHHHHHHHHHT---TCEEEEECTTSCCCH
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHHc---CCCEEEEeCCCcchH
Confidence            355789999999999999999998865   667777776554443

>3tr0_A Guanylate kinase, GMP kinase; purines, pyrimidines, nucleosides, nucleotides, transferase; HET: 5GP; 1.85A {Coxiella burnetii}

Probab=97.75  E-value=1.7e-05  Score=64.22  Aligned_cols=27  Identities=26%  Similarity=0.404  Sum_probs=23.7

Q ss_pred             CCCCcEEEEEecCCCChHHHHHHHHHH
Q 024705          117 LPKGRIVEIYGREASGKTTLALHVIKE  143 (264)
Q Consensus       117 l~~G~~~~I~G~~GsGKTtl~~~l~~~  143 (264)
                      +.+|++++|.|||||||||++..++..
T Consensus         4 m~~g~ii~l~Gp~GsGKSTl~~~L~~~   30 (205)
T 3tr0_A            4 MNKANLFIISAPSGAGKTSLVRALVKA   30 (205)
T ss_dssp             -CCCCEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CCCCcEEEEECcCCCCHHHHHHHHHhh
Confidence            457999999999999999999888775

>2r9v_A ATP synthase subunit alpha; TM1612, structural genomics, JOI for structural genomics, JCSG, protein structure initiative ATP synthesis; HET: ATP PG4; 2.10A {Thermotoga maritima MSB8}

Probab=97.75  E-value=9e-05  Score=68.44  Aligned_cols=114  Identities=19%  Similarity=0.336  Sum_probs=70.7

Q ss_pred             CCCCCccccCcHHHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCH--HHHHH---cC
Q 024705           95 SRRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP--SLAEA---MG  169 (264)
Q Consensus        95 ~~~~~~i~tG~~~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~--~~~~~---~g  169 (264)
                      ....+.+.||+..+|.++.   +-+|+-.+|.|++|+|||++++..+.+....+..|+|....+....  ...+.   -|
T Consensus       153 ~~v~epl~TGiraID~l~P---igrGQR~~I~g~~g~GKT~Lal~~I~~~~~~dv~~V~~~IGeR~~Ev~e~~~~~~~~g  229 (515)
T 2r9v_A          153 KPVDTPLQTGIKAIDSMIP---IGRGQRELIIGDRQTGKTAIAIDTIINQKGQGVYCIYVAIGQKKSAIARIIDKLRQYG  229 (515)
T ss_dssp             CCCCSEECCSCHHHHHHSC---EETTCBEEEEEETTSSHHHHHHHHHHTTTTTTEEEEEEEESCCHHHHHHHHHHHHHTT
T ss_pred             cCCCcchhcCccccccccc---cccCCEEEEEcCCCCCccHHHHHHHHHhhcCCcEEEEEEcCCCcHHHHHHHHHHHhCC
Confidence            3456789999999999986   7899999999999999999977666665555556777766554443  11111   12


Q ss_pred             CCccceeEeC-C-CCH-HHHH------HHHHHHhhcCCccEEEEcCccccc
Q 024705          170 IDAENLLIAQ-P-DSA-ENLL------SVVDTLTKSGSIDVIVVDSVAALI  211 (264)
Q Consensus       170 ~~~~~l~~~~-~-~~~-ee~~------~~i~~~~~~~~~~~vvIDsl~~~~  211 (264)
                      .-...+.+.. . .++ ..+.      .+.+.....++--++++|+++.+.
T Consensus       230 ~m~rtvvV~atad~p~~~r~~a~~~a~tiAEyfrd~G~dVLli~DslTr~A  280 (515)
T 2r9v_A          230 AMEYTTVVVASASDPASLQYIAPYAGCAMGEYFAYSGRDALVVYDDLSKHA  280 (515)
T ss_dssp             GGGGEEEEEECTTSCHHHHHHHHHHHHHHHHHHHTTTCEEEEEEETHHHHH
T ss_pred             CcceeEEEEECCCCCHHHHHHHHHHHHHHHHHHHHcCCcEEEEeccHHHHH
Confidence            1112222222 2 122 2221      223333444555678999998654

>1kgd_A CASK, peripheral plasma membrane CASK; maguk, guanylate kinase like domain, protein binding; 1.31A {Homo sapiens} SCOP: c.37.1.1

Probab=97.74  E-value=1.8e-05  Score=63.34  Aligned_cols=29  Identities=14%  Similarity=0.299  Sum_probs=24.2

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHH
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEA  144 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~  144 (264)
                      |..+|++++|+||||||||||+..++...
T Consensus         1 ~~~~g~~i~i~GpsGsGKSTL~~~L~~~~   29 (180)
T 1kgd_A            1 GSHMRKTLVLLGAHGVGRRHIKNTLITKH   29 (180)
T ss_dssp             --CCCCEEEEECCTTSSHHHHHHHHHHHC
T ss_pred             CCCCCCEEEEECCCCCCHHHHHHHHHhhC
Confidence            45679999999999999999999888754

>2r2a_A Uncharacterized protein; zonular occludens toxin, structural genomics, APC84050.2, PS protein structure initiative; HET: MSE; 1.82A {Neisseria meningitidis MC58}

Probab=97.73  E-value=5.1e-05  Score=62.03  Aligned_cols=124  Identities=19%  Similarity=0.174  Sum_probs=60.7

Q ss_pred             cEEEEEecCCCChHHHHHHHHHHHh-----hcCCeEEE-EecCCCCCHHHHHHcCCCccce-eEeCC-CCHHHHHHHHHH
Q 024705          121 RIVEIYGREASGKTTLALHVIKEAQ-----KLGGYCAY-LDVENALDPSLAEAMGIDAENL-LIAQP-DSAENLLSVVDT  192 (264)
Q Consensus       121 ~~~~I~G~~GsGKTtl~~~l~~~~~-----~~g~~v~~-~~~e~~~~~~~~~~~g~~~~~l-~~~~~-~~~ee~~~~i~~  192 (264)
                      -++++.|+||+|||+++..++....     ..|.+.+| ...++-...... ... ...++ ..... ...+...+.+. 
T Consensus         6 mi~l~tG~pGsGKT~~a~~~~~~~~~~~~~~~g~r~v~~~~~~gL~~~~~~-~~~-~k~~~~~~~~~~~~~~~~~~~~~-   82 (199)
T 2r2a_A            6 EICLITGTPGSGKTLKMVSMMANDEMFKPDENGIRRKVFTNIKGLKIPHTY-IET-DAKKLPKSTDEQLSAHDMYEWIK-   82 (199)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHCGGGSCCTTSCCCCEEECCTTBCSCCEE-EEC-CTTTCSSCCSSCEEGGGHHHHTT-
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHHHHhhcccccCceEEEEecCCCccccccc-cch-hhhhccccCcccccHHHHHHHhh-
Confidence            4789999999999999988766554     44524444 433321110000 000 00000 00000 01122221110 


Q ss_pred             HhhcCCccEEEEcCccccccccccCCCcCCCCcHHHHHHHHHHHHHHHHHHhccCcEEEEEcccchHhh
Q 024705          193 LTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVKVLLL  261 (264)
Q Consensus       193 ~~~~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r~i~~~L~~l~~~l~~~g~tVi~i~h~~~~~~  261 (264)
                       ...+...+++||+.+.+.+......+  .          .+.+..+. .-+..+..||+++|..+.+.
T Consensus        83 -~~~~~~~vliIDEAq~l~~~~~~~~e--~----------~rll~~l~-~~r~~~~~iil~tq~~~~l~  137 (199)
T 2r2a_A           83 -KPENIGSIVIVDEAQDVWPARSAGSK--I----------PENVQWLN-THRHQGIDIFVLTQGPKLLD  137 (199)
T ss_dssp             -SGGGTTCEEEETTGGGTSBCCCTTCC--C----------CHHHHGGG-GTTTTTCEEEEEESCGGGBC
T ss_pred             -ccccCceEEEEEChhhhccCccccch--h----------HHHHHHHH-hcCcCCeEEEEECCCHHHHh
Confidence             12345779999999998742111011  0          12333332 11456889999999865543

>2ck3_D ATP synthase subunit beta\, mitochondrial; hydrolase; HET: ANP ADP; 1.9A {Bos taurus} SCOP: a.69.1.1 b.49.1.1 c.37.1.11 PDB: 1cow_D* 1bmf_D* 1e1q_D* 1e1r_D* 1efr_D* 1e79_D* 1h8h_D* 1ohh_D* 1qo1_D 1w0j_D* 1w0k_D* 1h8e_D* 2jdi_D* 2jiz_D* 2jj1_D* 2jj2_D* 2v7q_D* 2wss_D* 2w6j_D 2w6e_D ...

Probab=97.73  E-value=0.00023  Score=65.36  Aligned_cols=64  Identities=28%  Similarity=0.474  Sum_probs=51.8

Q ss_pred             CCCCCccccCcHHHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHHhhc-CCeEEEEecCCCCC
Q 024705           95 SRRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKL-GGYCAYLDVENALD  161 (264)
Q Consensus        95 ~~~~~~i~tG~~~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~-g~~v~~~~~e~~~~  161 (264)
                      ....+.+.||+..+|.++.   +-+|+-..|.|++|+|||+|+..++.+.++. +.-++|....+...
T Consensus       131 ~~~~e~l~TGir~ID~l~p---igkGQr~~Ifgg~G~GKT~L~~~i~~~~~~~~~~v~V~~~iGER~r  195 (482)
T 2ck3_D          131 SVEQEILVTGIKVVDLLAP---YAKGGKIGLFGGAGVGKTVLIMELINNVAKAHGGYSVFAGVGERTR  195 (482)
T ss_dssp             CCCCCEECCSCHHHHHHSC---EETTCEEEEEECTTSSHHHHHHHHHHHTTTTCSSEEEEEEESCCHH
T ss_pred             cccCcCCccceEEEecccc---cccCCeeeeecCCCCChHHHHHHHHHhhHhhCCCEEEEEECCCcch
Confidence            3456899999999999986   8899999999999999999999999987543 45666765554433

>1fx0_B ATP synthase beta chain; latent ATPase, thermal stability, potential tentoxin binding hydrolase; 3.20A {Spinacia oleracea} SCOP: a.69.1.1 b.49.1.1 c.37.1.11 PDB: 1kmh_B*

Probab=97.73  E-value=0.0003  Score=64.79  Aligned_cols=65  Identities=22%  Similarity=0.373  Sum_probs=52.7

Q ss_pred             CCCCCccccCcHHHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHHhhc-CCeEEEEecCCCCCH
Q 024705           95 SRRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKL-GGYCAYLDVENALDP  162 (264)
Q Consensus        95 ~~~~~~i~tG~~~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~-g~~v~~~~~e~~~~~  162 (264)
                      ....+.+.||+..+|.++.   +-+|+-+.|.|++|+|||+|+..++.+.+.. +..++|....+....
T Consensus       143 ~~~~e~l~TGirvID~l~p---igkGqr~gIfgg~GvGKT~L~~~l~~~~a~~~~~v~V~~~iGER~rE  208 (498)
T 1fx0_B          143 DTKLSIFETGIKVVNLLAP---YRRGGKIGLFGGAGVGKTVLIMELINNIAKAHGGVSVFGGVGERTRE  208 (498)
T ss_dssp             CCCCCCCCCSCTTHHHHSC---CCTTCCEEEEECSSSSHHHHHHHHHHHTTTTCSSCEEEEEESCCSHH
T ss_pred             cccccccccceeEeeeecc---cccCCeEEeecCCCCCchHHHHHHHHHHHhhCCCEEEEEEcccCcHH
Confidence            3457889999999999986   8899999999999999999999999987543 456777765554443

>2dhr_A FTSH; AAA+ protein, hexameric Zn metalloprotease, hydrolase; HET: ADP; 3.90A {Thermus thermophilus}

Probab=97.72  E-value=8e-05  Score=69.20  Aligned_cols=73  Identities=23%  Similarity=0.176  Sum_probs=44.7

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCHHHHHHcCCCccceeEeCCCCHHHHHHHHHHHhh
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTK  195 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~~~~~~~g~~~~~l~~~~~~~~ee~~~~i~~~~~  195 (264)
                      -+++|  ++|+||||+|||||+..++..+   +.+.++++...-...                  . .......+..+..
T Consensus        62 ~ip~G--vLL~GppGtGKTtLaraIa~~~---~~~~i~i~g~~~~~~------------------~-~g~~~~~v~~lfq  117 (499)
T 2dhr_A           62 RIPKG--VLLVGPPGVGKTHLARAVAGEA---RVPFITASGSDFVEM------------------F-VGVGAARVRDLFE  117 (499)
T ss_dssp             CCCSE--EEEECSSSSSHHHHHHHHHHHT---TCCEEEEEGGGGTSS------------------C-TTHHHHHHHHHTT
T ss_pred             CCCce--EEEECCCCCCHHHHHHHHHHHh---CCCEEEEehhHHHHh------------------h-hhhHHHHHHHHHH
Confidence            34556  9999999999999999988764   355666664321100                  0 0111122333322


Q ss_pred             ---cCCccEEEEcCcccccc
Q 024705          196 ---SGSIDVIVVDSVAALIP  212 (264)
Q Consensus       196 ---~~~~~~vvIDsl~~~~~  212 (264)
                         ...+.+++||.+..+..
T Consensus       118 ~a~~~~p~il~IDEId~l~~  137 (499)
T 2dhr_A          118 TAKRHAPCIVFIDEIDAVGR  137 (499)
T ss_dssp             TSSSSSSCEEEEECGGGTCC
T ss_pred             HHHhcCCCEEEEehHHHHHH
Confidence               23468999999988763

>3te6_A Regulatory protein SIR3; heterochromatin, gene silencing, SIR complex, HMR, HML, TELO AAA+ domain, structural, nucleus, gene RE; 2.80A {Saccharomyces cerevisiae}

Probab=97.72  E-value=0.00026  Score=61.98  Aligned_cols=96  Identities=16%  Similarity=0.069  Sum_probs=56.8

Q ss_pred             HHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHHhhc-------CCeEEEEecCCCCCH-----HHHHHc-CCCccc
Q 024705          108 LDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKL-------GGYCAYLDVENALDP-----SLAEAM-GIDAEN  174 (264)
Q Consensus       108 LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~-------g~~v~~~~~e~~~~~-----~~~~~~-g~~~~~  174 (264)
                      |...+. +|  ++..++|+||||+|||+++..++..+...       .-.++++++......     .+.+.+ |..   
T Consensus        36 L~~~i~-~~--~~~~lli~GpPGTGKT~~v~~v~~~L~~~~~~~~~~~~~~v~INc~~~~t~~~~~~~I~~~L~g~~---  109 (318)
T 3te6_A           36 IYDSLM-SS--QNKLFYITNADDSTKFQLVNDVMDELITSSARKELPIFDYIHIDALELAGMDALYEKIWFAISKEN---  109 (318)
T ss_dssp             HHHHHH-TT--CCCEEEEECCCSHHHHHHHHHHHHHHHHTTTTTSSCCEEEEEEETTCCC--HHHHHHHHHHHSCCC---
T ss_pred             HHHHhc-CC--CCCeEEEECCCCCCHHHHHHHHHHHHHHHhhhccCCceEEEEEeccccCCHHHHHHHHHHHhcCCC---
Confidence            445555 33  56778999999999999999999888642       235667776554333     223333 321   


Q ss_pred             eeEeCCCCHHHHHHHHHHHh-hcCCccEEEEcCccccc
Q 024705          175 LLIAQPDSAENLLSVVDTLT-KSGSIDVIVVDSVAALI  211 (264)
Q Consensus       175 l~~~~~~~~ee~~~~i~~~~-~~~~~~~vvIDsl~~~~  211 (264)
                      .  ......+.+...+.... ....+-++++|.+..+.
T Consensus       110 ~--~~~~~~~~L~~~f~~~~~~~~~~~ii~lDE~d~l~  145 (318)
T 3te6_A          110 L--CGDISLEALNFYITNVPKAKKRKTLILIQNPENLL  145 (318)
T ss_dssp             ----CCCCHHHHHHHHHHSCGGGSCEEEEEEECCSSSC
T ss_pred             C--CchHHHHHHHHHHHHhhhccCCceEEEEecHHHhh
Confidence            1  11223333333344321 23567799999988776

>3asz_A Uridine kinase; cytidine phosphorylation, transferase; HET: C5P; 2.25A {Thermus thermophilus} PDB: 3asy_A*

Probab=97.71  E-value=3.4e-05  Score=62.90  Aligned_cols=38  Identities=37%  Similarity=0.475  Sum_probs=30.2

Q ss_pred             CCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCC
Q 024705          118 PKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVEN  158 (264)
Q Consensus       118 ~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~  158 (264)
                      ++|.++.|.||+||||||++..++....+   .+.|++.+.
T Consensus         4 ~~~~~i~i~G~~GsGKSTl~~~l~~~~~~---~i~~v~~d~   41 (211)
T 3asz_A            4 PKPFVIGIAGGTASGKTTLAQALARTLGE---RVALLPMDH   41 (211)
T ss_dssp             -CCEEEEEEESTTSSHHHHHHHHHHHHGG---GEEEEEGGG
T ss_pred             CCcEEEEEECCCCCCHHHHHHHHHHHhCC---CeEEEecCc
Confidence            57899999999999999999888876532   477777654

>1sxj_C Activator 1 40 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=97.70  E-value=0.00013  Score=64.08  Aligned_cols=26  Identities=23%  Similarity=0.382  Sum_probs=22.7

Q ss_pred             EEEEecCCCChHHHHHHHHHHHhhcC
Q 024705          123 VEIYGREASGKTTLALHVIKEAQKLG  148 (264)
Q Consensus       123 ~~I~G~~GsGKTtl~~~l~~~~~~~g  148 (264)
                      ++|+||||+||||++..++..+...+
T Consensus        49 ~ll~Gp~G~GKTtla~~la~~l~~~~   74 (340)
T 1sxj_C           49 LLFYGPPGTGKTSTIVALAREIYGKN   74 (340)
T ss_dssp             EEEECSSSSSHHHHHHHHHHHHHTTS
T ss_pred             EEEECCCCCCHHHHHHHHHHHHcCCC
Confidence            89999999999999999998875433

>3zq6_A Putative arsenical pump-driving ATPase; tail-anchored, membrane protein; HET: ADP; 2.11A {Methanothermobacter thermautotrophicusorganism_taxid}

Probab=97.70  E-value=0.00018  Score=62.99  Aligned_cols=39  Identities=23%  Similarity=0.221  Sum_probs=36.4

Q ss_pred             cEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCC
Q 024705          121 RIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENA  159 (264)
Q Consensus       121 ~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~  159 (264)
                      .+++..|..|+||||++.+++..++..|.+|++++.|..
T Consensus        15 ~i~v~sgKGGvGKTTvA~~LA~~lA~~G~rVLlvD~D~~   53 (324)
T 3zq6_A           15 TFVFIGGKGGVGKTTISAATALWMARSGKKTLVISTDPA   53 (324)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHHHHHTTCCEEEEECCSS
T ss_pred             EEEEEeCCCCchHHHHHHHHHHHHHHCCCcEEEEeCCCC
Confidence            788888999999999999999999999999999999874

>1sxj_D Activator 1 41 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=97.69  E-value=0.00045  Score=60.42  Aligned_cols=37  Identities=27%  Similarity=0.284  Sum_probs=27.4

Q ss_pred             HHHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHHh
Q 024705          106 LKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQ  145 (264)
Q Consensus       106 ~~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~  145 (264)
                      ..|...+. .|-.+.  ++|+||||+||||++..++..+.
T Consensus        47 ~~l~~~l~-~~~~~~--~ll~G~~G~GKT~la~~la~~l~   83 (353)
T 1sxj_D           47 TVLKKTLK-SANLPH--MLFYGPPGTGKTSTILALTKELY   83 (353)
T ss_dssp             HHHHHHTT-CTTCCC--EEEECSTTSSHHHHHHHHHHHHH
T ss_pred             HHHHHHHh-cCCCCE--EEEECCCCCCHHHHHHHHHHHhC
Confidence            44555555 332222  89999999999999999998764

>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=97.67  E-value=6.7e-05  Score=63.77  Aligned_cols=79  Identities=19%  Similarity=0.239  Sum_probs=46.0

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCHHHHHHcCCCccceeEeCCCCHHHHHHHHHHHhh
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTK  195 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~~~~~~~g~~~~~l~~~~~~~~ee~~~~i~~~~~  195 (264)
                      +..+...++|+||||+|||+++..++...   +.+.+++.....       .+|....       .....+...+... .
T Consensus        60 ~~~~~~~vLl~G~~GtGKT~la~~ia~~~---~~~~~~i~~~~~-------~~g~~~~-------~~~~~~~~~~~~~-~  121 (272)
T 1d2n_A           60 DRTPLVSVLLEGPPHSGKTALAAKIAEES---NFPFIKICSPDK-------MIGFSET-------AKCQAMKKIFDDA-Y  121 (272)
T ss_dssp             SSCSEEEEEEECSTTSSHHHHHHHHHHHH---TCSEEEEECGGG-------CTTCCHH-------HHHHHHHHHHHHH-H
T ss_pred             CCCCCeEEEEECCCCCcHHHHHHHHHHHh---CCCEEEEeCHHH-------hcCCchH-------HHHHHHHHHHHHH-H
Confidence            34566789999999999999999998863   445555542110       0111000       0001112222222 2


Q ss_pred             cCCccEEEEcCcccccc
Q 024705          196 SGSIDVIVVDSVAALIP  212 (264)
Q Consensus       196 ~~~~~~vvIDsl~~~~~  212 (264)
                      ..+..+++||.+..+..
T Consensus       122 ~~~~~vl~iDEid~l~~  138 (272)
T 1d2n_A          122 KSQLSCVVVDDIERLLD  138 (272)
T ss_dssp             TSSEEEEEECCHHHHTT
T ss_pred             hcCCcEEEEEChhhhhc
Confidence            35688999999998864

>1s96_A Guanylate kinase, GMP kinase; E.coli, dimer, SAD, transferase; 2.00A {Escherichia coli} SCOP: c.37.1.1 PDB: 2an9_A* 2anb_A* 2anc_A 2f3r_A* 2f3t_A*

Probab=97.67  E-value=2.5e-05  Score=64.81  Aligned_cols=30  Identities=17%  Similarity=0.358  Sum_probs=24.3

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHh
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQ  145 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~  145 (264)
                      -+++|++++|.||||||||||+..++....
T Consensus        12 ~~~~G~ii~l~GpsGsGKSTLlk~L~g~~~   41 (219)
T 1s96_A           12 HMAQGTLYIVSAPSGAGKSSLIQALLKTQP   41 (219)
T ss_dssp             ---CCCEEEEECCTTSCHHHHHHHHHHHSC
T ss_pred             cCCCCcEEEEECCCCCCHHHHHHHHhccCC
Confidence            578999999999999999999888877553

>2v9p_A Replication protein E1; AAA+ molecular motor, DNA replication, DNA translocation, nucleotide-binding, DNA-binding; 3.00A {Bovine papillomavirus type 1} PDB: 2gxa_A*

Probab=97.66  E-value=5.7e-05  Score=65.79  Aligned_cols=43  Identities=30%  Similarity=0.410  Sum_probs=34.1

Q ss_pred             HHHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEE
Q 024705          106 LKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAY  153 (264)
Q Consensus       106 ~~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~  153 (264)
                      +.|+.+.-  .+++|+++.|+||||||||||+..++...   .|.++.
T Consensus       114 ~vL~~vsl--~i~~Ge~vaIvGpsGsGKSTLl~lL~gl~---~G~I~~  156 (305)
T 2v9p_A          114 NALKLWLK--GIPKKNCLAFIGPPNTGKSMLCNSLIHFL---GGSVLS  156 (305)
T ss_dssp             HHHHHHHH--TCTTCSEEEEECSSSSSHHHHHHHHHHHH---TCEEEC
T ss_pred             hhhccceE--EecCCCEEEEECCCCCcHHHHHHHHhhhc---CceEEE
Confidence            34555543  79999999999999999999999988876   455543

>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 3.20A {Thermus thermophilus} SCOP: c.37.1.20

Probab=97.66  E-value=7.1e-05  Score=63.90  Aligned_cols=35  Identities=37%  Similarity=0.382  Sum_probs=26.2

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEe
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLD  155 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~  155 (264)
                      -+++|  ++|+||||+||||++..++....   ...++++
T Consensus        71 ~~~~g--vll~Gp~GtGKTtl~~~i~~~~~---~~~i~~~  105 (278)
T 1iy2_A           71 RIPKG--VLLVGPPGVGKTHLARAVAGEAR---VPFITAS  105 (278)
T ss_dssp             CCCCE--EEEECCTTSSHHHHHHHHHHHTT---CCEEEEE
T ss_pred             CCCCe--EEEECCCcChHHHHHHHHHHHcC---CCEEEec
Confidence            34556  89999999999999998887542   3445554

>1z6g_A Guanylate kinase; structural genomics, SGC, structural genom consortium, transferase; HET: EPE; 2.18A {Plasmodium falciparum}

Probab=97.65  E-value=2.3e-05  Score=64.80  Aligned_cols=29  Identities=24%  Similarity=0.261  Sum_probs=24.0

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHH
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEA  144 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~  144 (264)
                      -+++|++++|.||||||||||+..++...
T Consensus        19 ~i~~G~~~~lvGpsGsGKSTLl~~L~g~~   47 (218)
T 1z6g_A           19 SMNNIYPLVICGPSGVGKGTLIKKLLNEF   47 (218)
T ss_dssp             ---CCCCEEEECSTTSSHHHHHHHHHHHS
T ss_pred             ecCCCCEEEEECCCCCCHHHHHHHHHhhC
Confidence            36789999999999999999998888755

>3pih_A Uvrabc system protein A; hydrolase, ABC ATPase, DNA repair, nucleotide excision repai hydrolase-DNA complex; HET: DNA; 2.90A {Thermotoga maritima}

Probab=97.65  E-value=0.00069  Score=67.19  Aligned_cols=47  Identities=9%  Similarity=0.170  Sum_probs=32.4

Q ss_pred             CccEEEEcCccccccccccCCCcCCCCcHHHHHHHHHHHHHHHHHHhccCcEEEEEcccchHhh
Q 024705          198 SIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVKVLLL  261 (264)
Q Consensus       198 ~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r~i~~~L~~l~~~l~~~g~tVi~i~h~~~~~~  261 (264)
                      +++++++|..+.-+.             ....+.+.+.|+++    .+.|.|||+|+|..+.+.
T Consensus       826 ~p~LLILDEPTsGLD-------------~~~~~~L~~lL~~L----~~~G~TVIvI~HdL~~i~  872 (916)
T 3pih_A          826 GRTLYILDEPTVGLH-------------FEDVRKLVEVLHRL----VDRGNTVIVIEHNLDVIK  872 (916)
T ss_dssp             SSEEEEEESTTTTCC-------------HHHHHHHHHHHHHH----HHTTCEEEEECCCHHHHT
T ss_pred             CCCEEEEECCCCCCC-------------HHHHHHHHHHHHHH----HhcCCEEEEEeCCHHHHH
Confidence            467999997766542             23444455666665    456999999999987664

>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=97.64  E-value=0.00018  Score=64.25  Aligned_cols=89  Identities=19%  Similarity=0.207  Sum_probs=57.7

Q ss_pred             CCcEEEE--EecCCCChHHHHHHHHHHHhhc------CCeEEEEecCCCCCH-----HHHHHcCCCccceeEeCCCCHHH
Q 024705          119 KGRIVEI--YGREASGKTTLALHVIKEAQKL------GGYCAYLDVENALDP-----SLAEAMGIDAENLLIAQPDSAEN  185 (264)
Q Consensus       119 ~G~~~~I--~G~~GsGKTtl~~~l~~~~~~~------g~~v~~~~~e~~~~~-----~~~~~~g~~~~~l~~~~~~~~ee  185 (264)
                      .+..++|  +||+|+|||+++..++..+...      +..++|++.......     .....+|.....    ...+..+
T Consensus        49 ~~~~~li~i~G~~G~GKT~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~----~~~~~~~  124 (412)
T 1w5s_A           49 SDVNMIYGSIGRVGIGKTTLAKFTVKRVSEAAAKEGLTVKQAYVNAFNAPNLYTILSLIVRQTGYPIQV----RGAPALD  124 (412)
T ss_dssp             CCEEEEEECTTCCSSSHHHHHHHHHHHHHHHHHHTTCCEEEEEEEGGGCCSHHHHHHHHHHHHTCCCCC----TTCCHHH
T ss_pred             CCCEEEEeCcCcCCCCHHHHHHHHHHHHHHHHhccCCceeEEEEECCCCCCHHHHHHHHHHHhCCCCCC----CCCCHHH
Confidence            4567888  9999999999999998877543      556888886433332     223445543211    1223455


Q ss_pred             HHHHHHHHhh-cCCccEEEEcCccccc
Q 024705          186 LLSVVDTLTK-SGSIDVIVVDSVAALI  211 (264)
Q Consensus       186 ~~~~i~~~~~-~~~~~~vvIDsl~~~~  211 (264)
                      +...+...+. ..++-+++||.+..+.
T Consensus       125 ~~~~l~~~l~~~~~~~llvlDe~~~l~  151 (412)
T 1w5s_A          125 ILKALVDNLYVENHYLLVILDEFQSML  151 (412)
T ss_dssp             HHHHHHHHHHHHTCEEEEEEESTHHHH
T ss_pred             HHHHHHHHHHhcCCeEEEEEeCHHHHh
Confidence            5555544443 3567899999999876

>3szr_A Interferon-induced GTP-binding protein MX1; interferon-induced antiviral GTPase, membrane associated, PR binding; 3.50A {Homo sapiens} PDB: 3zys_B

Probab=97.64  E-value=6.4e-06  Score=78.53  Aligned_cols=127  Identities=10%  Similarity=0.092  Sum_probs=58.6

Q ss_pred             EEEEecCCCChHHHHHHHHHHHhhc-CCeEEEEecC-----CCCCHHHHHHcCCCccceeEeCCCCHHHHHHHHHHHhh-
Q 024705          123 VEIYGREASGKTTLALHVIKEAQKL-GGYCAYLDVE-----NALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTK-  195 (264)
Q Consensus       123 ~~I~G~~GsGKTtl~~~l~~~~~~~-g~~v~~~~~e-----~~~~~~~~~~~g~~~~~l~~~~~~~~ee~~~~i~~~~~-  195 (264)
                      ++|.||+|||||||+..++....+. .|.|.+...+     ......+...+|+.+++..+....++.+.+........ 
T Consensus        48 iaIvG~nGsGKSTLL~~I~Gl~~P~~sG~vt~~g~~i~~~~~~~~~~~~~~i~~v~Q~~~l~~~~tv~e~i~~~~~~~~~  127 (608)
T 3szr_A           48 IAVIGDQSSGKSSVLEALSGVALPRGSGIVTRCPLVLKLKKLVNEDKWRGKVSYQDYEIEISDASEVEKEINKAQNAIAG  127 (608)
T ss_dssp             EECCCCTTSCHHHHHHHHHSCC-------CCCSCEEEEEEECSSSSCCEEEESCC---CCCCCHHHHHTTHHHHHHHHHC
T ss_pred             EEEECCCCChHHHHHHHHhCCCCCCCCCeEEEcCEEEEEecCCccccceeEEeeecccccCCCHHHHHHHHHHHHHHhcC
Confidence            8899999999999998888764442 3333222111     00011223456776665544443344444433322211 


Q ss_pred             ----------------cCCccEEEEcCccccccccccCCCcCCCCcHHHHHHHHHHHHHHHHHHhccCcEEEEEcccch
Q 024705          196 ----------------SGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVKV  258 (264)
Q Consensus       196 ----------------~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r~i~~~L~~l~~~l~~~g~tVi~i~h~~~  258 (264)
                                      ...++++++|.......  ...+     ++....+.+...++++.  .+..++++++++|..+
T Consensus       128 ~~~~~s~~~i~l~i~~~~~p~LlLlDePGi~~~--~t~~-----LD~~~~~~i~~li~~~l--~~~~~iil~vvt~~~d  197 (608)
T 3szr_A          128 EGMGISHELITLEISSRDVPDLTLIDLPGITRV--AVGN-----QPADIGYKIKTLIKKYI--QRQETISLVVVPSNVD  197 (608)
T ss_dssp             SSSCCCSCCEEEEEEESSSCCEEEEECCC--------CC-----SSCSHHHHHHHHHHHHT--TSSSCCEEEEEESSSC
T ss_pred             CccccchHHHHHHhcCCCCCceeEeeCCCcccc--ccCC-----CCHHHHHHHHHHHHHHH--hcCCCCceEEEeccch
Confidence                            12467888887743221  0111     11122222334444432  1345788888888754

>1tue_A Replication protein E1; helicase, replication, E1E2 complex, AAA+ protein; 2.10A {Human papillomavirus type 18} SCOP: c.37.1.20

Probab=97.63  E-value=2.8e-05  Score=63.80  Aligned_cols=60  Identities=18%  Similarity=0.208  Sum_probs=43.3

Q ss_pred             CCccccccccccCCCCCCccccCcHHHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHH
Q 024705           82 GKESMLSLKRFFGSRRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEA  144 (264)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~i~tG~~~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~  144 (264)
                      +.+.+..+..+.+-...+.+.- +..|..++.  |+|+...++|+||||+||||++..++..+
T Consensus        23 ~~~~w~~I~~~l~yq~~~~~~f-~~~l~~~~~--~iPkkn~ili~GPPGtGKTt~a~ala~~l   82 (212)
T 1tue_A           23 EGGDWRPIVQFLRYQQIEFITF-LGALKSFLK--GTPKKNCLVFCGPANTGKSYFGMSFIHFI   82 (212)
T ss_dssp             SCCCSHHHHHHHHHTTCCHHHH-HHHHHHHHH--TCTTCSEEEEESCGGGCHHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHcCcCHHHH-HHHHHHHHh--cCCcccEEEEECCCCCCHHHHHHHHHHHh
Confidence            4445544444333234555555 667888887  79888889999999999999999998875

>2jeo_A Uridine-cytidine kinase 1; UCK, transferase, ATP-binding, nucleoside kinase, nucleotide-binding; 2.50A {Homo sapiens} PDB: 2uvq_A*

Probab=97.62  E-value=5.4e-05  Score=63.51  Aligned_cols=43  Identities=16%  Similarity=0.190  Sum_probs=31.2

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhc-----CCeEEEEecCC
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKL-----GGYCAYLDVEN  158 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~-----g~~v~~~~~e~  158 (264)
                      -+++|.++.|.||+||||||++..++...-..     ...+.|++.+.
T Consensus        21 ~i~~g~iigI~G~~GsGKSTl~k~L~~~lG~~~~~~~~~~i~~v~~d~   68 (245)
T 2jeo_A           21 QSMRPFLIGVSGGTASGKSTVCEKIMELLGQNEVEQRQRKVVILSQDR   68 (245)
T ss_dssp             --CCSEEEEEECSTTSSHHHHHHHHHHHHTGGGSCGGGCSEEEEEGGG
T ss_pred             cCCCCEEEEEECCCCCCHHHHHHHHHHHhchhcccccCCceEEEeCCc
Confidence            47789999999999999999999887755211     23466777653

>3u61_B DNA polymerase accessory protein 44; AAA+, ATP hydrolase, clamp loader, sliding clamp, primer-TEM DNA, DNA binding protein-DNA complex; HET: DNA ADP 08T; 3.20A {Enterobacteria phage T4} PDB: 3u5z_B* 3u60_B*

Probab=97.61  E-value=0.00056  Score=59.39  Aligned_cols=78  Identities=15%  Similarity=0.196  Sum_probs=48.5

Q ss_pred             HHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCHHHHHHcCCCccceeEeCCCCHHHH
Q 024705          107 KLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENL  186 (264)
Q Consensus       107 ~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~~~~~~~g~~~~~l~~~~~~~~ee~  186 (264)
                      .|-.++. .| .....+++.||||+|||+++..++..+   +..+++++....                      ..+.+
T Consensus        37 ~l~~~l~-~~-~~~~~~L~~G~~G~GKT~la~~la~~l---~~~~~~i~~~~~----------------------~~~~i   89 (324)
T 3u61_B           37 TFKSITS-KG-KIPHIILHSPSPGTGKTTVAKALCHDV---NADMMFVNGSDC----------------------KIDFV   89 (324)
T ss_dssp             HHHHHHH-TT-CCCSEEEECSSTTSSHHHHHHHHHHHT---TEEEEEEETTTC----------------------CHHHH
T ss_pred             HHHHHHH-cC-CCCeEEEeeCcCCCCHHHHHHHHHHHh---CCCEEEEccccc----------------------CHHHH
Confidence            3444454 23 223578899999999999999987754   556777764321                      12333


Q ss_pred             HHHHHHHhhc----CCccEEEEcCccccc
Q 024705          187 LSVVDTLTKS----GSIDVIVVDSVAALI  211 (264)
Q Consensus       187 ~~~i~~~~~~----~~~~~vvIDsl~~~~  211 (264)
                      ...+......    ++.++++||.+..+.
T Consensus        90 ~~~~~~~~~~~~~~~~~~vliiDEi~~l~  118 (324)
T 3u61_B           90 RGPLTNFASAASFDGRQKVIVIDEFDRSG  118 (324)
T ss_dssp             HTHHHHHHHBCCCSSCEEEEEEESCCCGG
T ss_pred             HHHHHHHHhhcccCCCCeEEEEECCcccC
Confidence            3333332221    367899999998775

>3co5_A Putative two-component system transcriptional RES regulator; structural genomics, APC89341.1; 2.40A {Neisseria gonorrhoeae}

Probab=97.61  E-value=3.4e-05  Score=59.35  Aligned_cols=24  Identities=25%  Similarity=0.079  Sum_probs=19.9

Q ss_pred             CcEEEEEecCCCChHHHHHHHHHH
Q 024705          120 GRIVEIYGREASGKTTLALHVIKE  143 (264)
Q Consensus       120 G~~~~I~G~~GsGKTtl~~~l~~~  143 (264)
                      +..++|+||+|+|||+++..+...
T Consensus        27 ~~~vll~G~~GtGKt~lA~~i~~~   50 (143)
T 3co5_A           27 TSPVFLTGEAGSPFETVARYFHKN   50 (143)
T ss_dssp             SSCEEEEEETTCCHHHHHGGGCCT
T ss_pred             CCcEEEECCCCccHHHHHHHHHHh
Confidence            445999999999999998877653

>3cio_A ETK, tyrosine-protein kinase ETK; WZC, escherichia coli tyrosine kinase domain, signaling protein, transferase, inner membrane, membrane; 2.50A {Escherichia coli}

Probab=97.61  E-value=0.00032  Score=60.79  Aligned_cols=41  Identities=20%  Similarity=0.250  Sum_probs=36.6

Q ss_pred             CCcEEEEEec-CCCChHHHHHHHHHHHhhcCCeEEEEecCCC
Q 024705          119 KGRIVEIYGR-EASGKTTLALHVIKEAQKLGGYCAYLDVENA  159 (264)
Q Consensus       119 ~G~~~~I~G~-~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~  159 (264)
                      ++.++.|+|+ +|+||||++.+++..++..|.+|++++.+..
T Consensus       103 ~~kvI~vts~kgG~GKTtva~nLA~~lA~~G~rVLLID~D~r  144 (299)
T 3cio_A          103 ENNILMITGATPDSGKTFVSSTLAAVIAQSDQKVLFIDADLR  144 (299)
T ss_dssp             SCCEEEEEESSSSSCHHHHHHHHHHHHHHTTCCEEEEECCTT
T ss_pred             CCeEEEEECCCCCCChHHHHHHHHHHHHhCCCcEEEEECCCC
Confidence            4578888886 8999999999999999999999999999874

>3l0o_A Transcription termination factor RHO; helicase, RHO factor, RNA capture mechanism, ATP-binding, hydrolase, nucleotide-binding, RN binding; 2.35A {Thermotoga maritima}

Probab=97.60  E-value=0.00028  Score=63.27  Aligned_cols=57  Identities=18%  Similarity=0.112  Sum_probs=47.3

Q ss_pred             CccccCcHHHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHHhhc--CCeEEEEecCC
Q 024705           99 PVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKL--GGYCAYLDVEN  158 (264)
Q Consensus        99 ~~i~tG~~~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~--g~~v~~~~~e~  158 (264)
                      +.+.||+..+|.++.   +-+|+-.+|.|++|+|||+++.+++.++...  +-.|+|....+
T Consensus       157 e~~~tGiraID~l~P---igrGQR~lIfg~~g~GKT~Ll~~Ia~~i~~~~~dv~~V~~lIGE  215 (427)
T 3l0o_A          157 DPKIYSTRLIDLFAP---IGKGQRGMIVAPPKAGKTTILKEIANGIAENHPDTIRIILLIDE  215 (427)
T ss_dssp             STTCHHHHHHHHHSC---CBTTCEEEEEECTTCCHHHHHHHHHHHHHHHCTTSEEEEEECSC
T ss_pred             cchhccchhhhhccc---ccCCceEEEecCCCCChhHHHHHHHHHHhhcCCCeEEEEEEecc
Confidence            678999999999986   7799999999999999999999998887653  34566765444

>3ug7_A Arsenical pump-driving ATPase; tail-anchored, membrane protein, targeting factor, ATP-bindi TRC40, ARSA, nucleotide-binding; HET: ADP; 2.90A {Methanocaldococcus jannaschii} PDB: 3ug6_A*

Probab=97.60  E-value=0.00059  Score=60.40  Aligned_cols=54  Identities=17%  Similarity=0.135  Sum_probs=43.5

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCHHHHHHcCCC
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGID  171 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~~~~~~~g~~  171 (264)
                      +-+...++++.|..|+||||++.+++..++..|.+|++++.|..  ......+|..
T Consensus        22 ~~~~~~i~v~sgKGGvGKTTvA~~LA~~lA~~G~rVLlvD~D~~--~~l~~~l~~~   75 (349)
T 3ug7_A           22 KKDGTKYIMFGGKGGVGKTTMSAATGVYLAEKGLKVVIVSTDPA--HSLRDIFEQE   75 (349)
T ss_dssp             SSCSCEEEEEECSSSTTHHHHHHHHHHHHHHSSCCEEEEECCTT--CHHHHHHCSC
T ss_pred             ccCCCEEEEEeCCCCccHHHHHHHHHHHHHHCCCeEEEEeCCCC--CCHHHHhCCC
Confidence            44556788888999999999999999999999999999999873  2444555543

>2j41_A Guanylate kinase; GMP, GMK, transferase, ATP-binding, nucleotide- binding; HET: 5GP; 1.9A {Staphylococcus aureus}

Probab=97.58  E-value=4.2e-05  Score=61.88  Aligned_cols=28  Identities=21%  Similarity=0.401  Sum_probs=24.2

Q ss_pred             CCCCcEEEEEecCCCChHHHHHHHHHHH
Q 024705          117 LPKGRIVEIYGREASGKTTLALHVIKEA  144 (264)
Q Consensus       117 l~~G~~~~I~G~~GsGKTtl~~~l~~~~  144 (264)
                      +++|.+++|.|||||||||++..++...
T Consensus         3 i~~g~~i~l~G~~GsGKSTl~~~L~~~~   30 (207)
T 2j41_A            3 NEKGLLIVLSGPSGVGKGTVRKRIFEDP   30 (207)
T ss_dssp             -CCCCEEEEECSTTSCHHHHHHHHHHCT
T ss_pred             CCCCCEEEEECCCCCCHHHHHHHHHHhh
Confidence            5689999999999999999998887654

>1wcv_1 SOJ, segregation protein; ATPase, bacterial, chromosome segregation; 1.6A {Thermus thermophilus} PDB: 2bej_A* 2bek_A*

Probab=97.58  E-value=0.00026  Score=59.68  Aligned_cols=90  Identities=17%  Similarity=0.297  Sum_probs=58.1

Q ss_pred             CCcEEEEE-ecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCHHHHHHcCCCc--------------------cceeE
Q 024705          119 KGRIVEIY-GREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDA--------------------ENLLI  177 (264)
Q Consensus       119 ~G~~~~I~-G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~~~~~~~g~~~--------------------~~l~~  177 (264)
                      ++.++.++ +..|+||||++.+++..++..|.+|+++|.+....  ....+|...                    .++.+
T Consensus         5 ~~~vI~v~s~kGGvGKTt~a~~LA~~la~~g~~VlliD~D~~~~--~~~~l~~~~~~~l~~~l~~~~~~~~i~~~~~l~v   82 (257)
T 1wcv_1            5 KVRRIALANQKGGVGKTTTAINLAAYLARLGKRVLLVDLDPQGN--ATSGLGVRAERGVYHLLQGEPLEGLVHPVDGFHL   82 (257)
T ss_dssp             CCCEEEECCSSCCHHHHHHHHHHHHHHHHTTCCEEEEECCTTCH--HHHHTTCCCSCCHHHHHTTCCGGGTCEEETTEEE
T ss_pred             CCEEEEEEeCCCCchHHHHHHHHHHHHHHCCCCEEEEECCCCcC--HHHHhCCCCCCCHHHHHcCCCHHHHccccCCEEE
Confidence            34667776 56899999999999999999999999999986422  233344322                    23444


Q ss_pred             eCCC-CHHHH----H---HHHHHHhhcCCccEEEEcCcccc
Q 024705          178 AQPD-SAENL----L---SVVDTLTKSGSIDVIVVDSVAAL  210 (264)
Q Consensus       178 ~~~~-~~ee~----~---~~i~~~~~~~~~~~vvIDsl~~~  210 (264)
                      .... ...+.    .   ..+...++...+++|+||.-..+
T Consensus        83 lp~~~~~~~~~~~l~~~~~~l~~~l~~~~yD~iiiD~pp~~  123 (257)
T 1wcv_1           83 LPATPDLVGATVELAGAPTALREALRDEGYDLVLLDAPPSL  123 (257)
T ss_dssp             ECCCTTHHHHHHHHTTCTTHHHHHCCCTTCSEEEEECCSSC
T ss_pred             EeCChhHHHHHHHHhhHHHHHHHHhcccCCCEEEEeCCCCC
Confidence            4332 22211    1   33444443367899999986654

>3pvs_A Replication-associated recombination protein A; maintenance of genome stability Pro recombination; 2.50A {Escherichia coli}

Probab=97.58  E-value=0.00033  Score=64.22  Aligned_cols=69  Identities=17%  Similarity=0.214  Sum_probs=41.8

Q ss_pred             cEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCHHHHHHcCCCccceeEeCCCCHHHHHHHHHHHhhcCCcc
Q 024705          121 RIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTKSGSID  200 (264)
Q Consensus       121 ~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~~~~~~~g~~~~~l~~~~~~~~ee~~~~i~~~~~~~~~~  200 (264)
                      ..++|+||||+||||++..++...   +.....++......                   ....+.+..........+..
T Consensus        51 ~~vLL~GppGtGKTtlAr~ia~~~---~~~f~~l~a~~~~~-------------------~~ir~~~~~a~~~~~~~~~~  108 (447)
T 3pvs_A           51 HSMILWGPPGTGKTTLAEVIARYA---NADVERISAVTSGV-------------------KEIREAIERARQNRNAGRRT  108 (447)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHT---TCEEEEEETTTCCH-------------------HHHHHHHHHHHHHHHTTCCE
T ss_pred             cEEEEECCCCCcHHHHHHHHHHHh---CCCeEEEEeccCCH-------------------HHHHHHHHHHHHhhhcCCCc
Confidence            469999999999999999988754   33444443211100                   01122333333333345778


Q ss_pred             EEEEcCccccc
Q 024705          201 VIVVDSVAALI  211 (264)
Q Consensus       201 ~vvIDsl~~~~  211 (264)
                      +++||.+..+.
T Consensus       109 iLfIDEI~~l~  119 (447)
T 3pvs_A          109 ILFVDEVHRFN  119 (447)
T ss_dssp             EEEEETTTCC-
T ss_pred             EEEEeChhhhC
Confidence            99999998775

>3iqw_A Tail-anchored protein targeting factor GET3; ATPase, Zn binding, protein transport; HET: ANP; 3.00A {Chaetomium thermophilum} PDB: 3iqx_A* 3ibg_A*

Probab=97.57  E-value=0.00051  Score=60.53  Aligned_cols=48  Identities=21%  Similarity=0.192  Sum_probs=40.2

Q ss_pred             HHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCC
Q 024705          108 LDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVEN  158 (264)
Q Consensus       108 LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~  158 (264)
                      |+.++. .  ..-.++++.|..|+||||++.+++..++..|.+|++++.|.
T Consensus         7 l~~~l~-~--~~~~i~~~sgkGGvGKTt~a~~lA~~la~~g~~vllid~D~   54 (334)
T 3iqw_A            7 LQSILD-Q--RSLRWIFVGGKGGVGKTTTSCSLAIQLAKVRRSVLLLSTDP   54 (334)
T ss_dssp             SHHHHH-C--TTCCEEEEECSTTSSHHHHHHHHHHHHTTSSSCEEEEECCS
T ss_pred             HHHHhc-C--CCeEEEEEeCCCCccHHHHHHHHHHHHHhCCCcEEEEECCC
Confidence            455554 2  22468889999999999999999999999999999999984

>1lvg_A Guanylate kinase, GMP kinase; transferase; HET: ADP 5GP; 2.10A {Mus musculus} SCOP: c.37.1.1

Probab=97.57  E-value=3.7e-05  Score=62.53  Aligned_cols=27  Identities=30%  Similarity=0.394  Sum_probs=22.0

Q ss_pred             CCCcEEEEEecCCCChHHHHHHHHHHH
Q 024705          118 PKGRIVEIYGREASGKTTLALHVIKEA  144 (264)
Q Consensus       118 ~~G~~~~I~G~~GsGKTtl~~~l~~~~  144 (264)
                      ++|.+++|+||||||||||+..++...
T Consensus         2 ~~g~~i~lvGpsGaGKSTLl~~L~~~~   28 (198)
T 1lvg_A            2 AGPRPVVLSGPSGAGKSTLLKKLFQEH   28 (198)
T ss_dssp             ---CCEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHhhC
Confidence            578999999999999999999888765

>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=97.57  E-value=5.8e-05  Score=59.64  Aligned_cols=38  Identities=26%  Similarity=0.320  Sum_probs=29.5

Q ss_pred             CCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCC
Q 024705          118 PKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENAL  160 (264)
Q Consensus       118 ~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~  160 (264)
                      .+|.++.|.|+|||||||++..++...   |  ..+++.+...
T Consensus         6 ~~g~~i~l~G~~GsGKSTl~~~l~~~~---g--~~~i~~d~~~   43 (175)
T 1knq_A            6 HDHHIYVLMGVSGSGKSAVASEVAHQL---H--AAFLDGDFLH   43 (175)
T ss_dssp             TTSEEEEEECSTTSCHHHHHHHHHHHH---T--CEEEEGGGGC
T ss_pred             CCCcEEEEEcCCCCCHHHHHHHHHHhh---C--cEEEeCcccc
Confidence            468999999999999999999887754   3  4566665433

>3kjh_A CO dehydrogenase/acetyl-COA synthase complex, accessory protein COOC; Zn-bound dimer, nickel binding protein, ATPase; 1.90A {Carboxydothermus hydrogenoformans} PDB: 3kjg_A* 3kje_A 3kji_A*

Probab=97.56  E-value=9.3e-05  Score=61.53  Aligned_cols=37  Identities=24%  Similarity=0.198  Sum_probs=34.0

Q ss_pred             EEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCC
Q 024705          123 VEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENA  159 (264)
Q Consensus       123 ~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~  159 (264)
                      +.|.|..|+||||++.+++..++..|.+|+++|.+..
T Consensus         3 I~vs~kGGvGKTt~a~~LA~~la~~g~~VlliD~D~~   39 (254)
T 3kjh_A            3 LAVAGKGGVGKTTVAAGLIKIMASDYDKIYAVDGDPD   39 (254)
T ss_dssp             EEEECSSSHHHHHHHHHHHHHHTTTCSCEEEEEECTT
T ss_pred             EEEecCCCCCHHHHHHHHHHHHHHCCCeEEEEeCCCC
Confidence            4559999999999999999999999999999999885

>3fkq_A NTRC-like two-domain protein; RER070207001320, structural GE joint center for structural genomics, JCSG, protein structu initiative, PSI-2; HET: ATP 2PE; 2.10A {Eubacterium rectale}

Probab=97.56  E-value=0.00054  Score=61.16  Aligned_cols=39  Identities=23%  Similarity=0.323  Sum_probs=34.4

Q ss_pred             CCcEEEEEe-cCCCChHHHHHHHHHHHhhcCCeEEEEecC
Q 024705          119 KGRIVEIYG-REASGKTTLALHVIKEAQKLGGYCAYLDVE  157 (264)
Q Consensus       119 ~G~~~~I~G-~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e  157 (264)
                      ++.++.+++ ..|+||||++.+++..++..|.+|+++|.|
T Consensus       142 ~~kvIav~s~KGGvGKTT~a~nLA~~La~~g~rVlliD~D  181 (373)
T 3fkq_A          142 KSSVVIFTSPCGGVGTSTVAAACAIAHANMGKKVFYLNIE  181 (373)
T ss_dssp             SCEEEEEECSSTTSSHHHHHHHHHHHHHHHTCCEEEEECC
T ss_pred             CceEEEEECCCCCChHHHHHHHHHHHHHhCCCCEEEEECC
Confidence            456677765 799999999999999999999999999988

>1fx0_A ATP synthase alpha chain; latent ATPase, thermal stability, potential tentoxin binding hydrolase; 3.20A {Spinacia oleracea} SCOP: a.69.1.1 b.49.1.1 c.37.1.11 PDB: 1kmh_A*

Probab=97.55  E-value=9.8e-05  Score=68.19  Aligned_cols=65  Identities=22%  Similarity=0.330  Sum_probs=51.5

Q ss_pred             CCCCCccccCcHHHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCH
Q 024705           95 SRRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP  162 (264)
Q Consensus        95 ~~~~~~i~tG~~~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~  162 (264)
                      ....+.+.||+..+|.++.   +-+|+-.+|.|++|+|||++++..+.+....+..++|....+....
T Consensus       141 ~~v~epl~TGiraID~l~P---igrGQR~~Ifg~~g~GKT~Lal~~I~~~~~~dv~~V~~~iGeR~~E  205 (507)
T 1fx0_A          141 RSVYEPLQTGLIAIDAMIP---VGRGQRELIIGDRQTGKTAVATDTILNQQGQNVICVYVAIGQKASS  205 (507)
T ss_dssp             CCCCSBCCCSCTTTTTTSC---CBTTCBCBEEESSSSSHHHHHHHHHHTCCTTTCEEEEEEESCCHHH
T ss_pred             cccCCcccccceecccccc---cccCCEEEEecCCCCCccHHHHHHHHHhhcCCcEEEEEEcCCCchH
Confidence            3456789999999999986   7799999999999999999987666665555667788776554443

>1ofh_A ATP-dependent HSL protease ATP-binding subunit HSLU; chaperone, hydrolase, ATP-binding; HET: ADP; 2.5A {Haemophilus influenzae} SCOP: c.37.1.20 PDB: 1ofi_A*

Probab=97.54  E-value=0.00049  Score=58.98  Aligned_cols=35  Identities=20%  Similarity=0.228  Sum_probs=27.8

Q ss_pred             CcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecC
Q 024705          120 GRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVE  157 (264)
Q Consensus       120 G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e  157 (264)
                      +..++|+||||+|||+++..++...   +.++++++..
T Consensus        50 ~~~vll~G~~GtGKT~la~~la~~l---~~~~~~i~~~   84 (310)
T 1ofh_A           50 PKNILMIGPTGVGKTEIARRLAKLA---NAPFIKVEAT   84 (310)
T ss_dssp             CCCEEEECCTTSSHHHHHHHHHHHH---TCCEEEEEGG
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHh---CCCEEEEcch
Confidence            4568899999999999999998866   4566677643

>1p9r_A General secretion pathway protein E; bacterial type II secretion system cytoplasmic protein - GSPE, putative ATPase/ ATP binding protein; 2.50A {Vibrio cholerae} SCOP: c.37.1.11 PDB: 1p9w_A*

Probab=97.53  E-value=7.9e-05  Score=67.74  Aligned_cols=40  Identities=18%  Similarity=0.137  Sum_probs=33.8

Q ss_pred             CCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecC
Q 024705          118 PKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVE  157 (264)
Q Consensus       118 ~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e  157 (264)
                      .+|.+++|+||+||||||++..++....+..+.+.++...
T Consensus       165 ~~ggii~I~GpnGSGKTTlL~allg~l~~~~g~I~~~ed~  204 (418)
T 1p9r_A          165 RPHGIILVTGPTGSGKSTTLYAGLQELNSSERNILTVEDP  204 (418)
T ss_dssp             SSSEEEEEECSTTSCHHHHHHHHHHHHCCTTSCEEEEESS
T ss_pred             hcCCeEEEECCCCCCHHHHHHHHHhhcCCCCCEEEEeccc
Confidence            6889999999999999999999988776666777777643

>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=97.53  E-value=0.00037  Score=60.07  Aligned_cols=81  Identities=15%  Similarity=0.192  Sum_probs=48.0

Q ss_pred             HHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHHhhcC--CeEEEEecCCCCCHHHHHHcCCCccceeEeCCCCHH
Q 024705          107 KLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLG--GYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAE  184 (264)
Q Consensus       107 ~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g--~~v~~~~~e~~~~~~~~~~~g~~~~~l~~~~~~~~e  184 (264)
                      .|...+. .|-.+.  ++|+||+|+|||+++..++..+...+  ..+++++...                     ....+
T Consensus        32 ~l~~~l~-~~~~~~--~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~---------------------~~~~~   87 (323)
T 1sxj_B           32 RLQQIAK-DGNMPH--MIISGMPGIGKTTSVHCLAHELLGRSYADGVLELNASD---------------------DRGID   87 (323)
T ss_dssp             HHHHHHH-SCCCCC--EEEECSTTSSHHHHHHHHHHHHHGGGHHHHEEEECTTS---------------------CCSHH
T ss_pred             HHHHHHH-cCCCCe--EEEECcCCCCHHHHHHHHHHHhcCCcccCCEEEecCcc---------------------ccChH
Confidence            4555555 332222  89999999999999999998764322  2244443221                     11233


Q ss_pred             HHHHHHHHHhh------cCCccEEEEcCccccc
Q 024705          185 NLLSVVDTLTK------SGSIDVIVVDSVAALI  211 (264)
Q Consensus       185 e~~~~i~~~~~------~~~~~~vvIDsl~~~~  211 (264)
                      .+...+.....      .++..+++||.+..+.
T Consensus        88 ~i~~~~~~~~~~~~~~~~~~~~viiiDe~~~l~  120 (323)
T 1sxj_B           88 VVRNQIKHFAQKKLHLPPGKHKIVILDEADSMT  120 (323)
T ss_dssp             HHHTHHHHHHHBCCCCCTTCCEEEEEESGGGSC
T ss_pred             HHHHHHHHHHhccccCCCCCceEEEEECcccCC
Confidence            44443433321      2347899999988765

>2bjv_A PSP operon transcriptional activator; AAA, transcription activation, gene regulation, sigma54 activator, enhancer binding protein, PSPF; 1.7A {Escherichia coli} PDB: 2bjw_A 2c96_A* 2c98_A* 2c99_A* 2c9c_A* 2vii_A*

Probab=97.53  E-value=0.00019  Score=60.66  Aligned_cols=40  Identities=20%  Similarity=0.229  Sum_probs=32.2

Q ss_pred             CcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCC
Q 024705          120 GRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENA  159 (264)
Q Consensus       120 G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~  159 (264)
                      +..++|+||+|+|||+++..++......+.+.++++....
T Consensus        29 ~~~vll~G~~GtGKt~la~~i~~~~~~~~~~~~~v~~~~~   68 (265)
T 2bjv_A           29 DKPVLIIGERGTGKELIASRLHYLSSRWQGPFISLNCAAL   68 (265)
T ss_dssp             CSCEEEECCTTSCHHHHHHHHHHTSTTTTSCEEEEEGGGS
T ss_pred             CCCEEEECCCCCcHHHHHHHHHHhcCccCCCeEEEecCCC
Confidence            4568999999999999999998876655677888876544

>3bfv_A CAPA1, CAPB2, membrane protein CAPA1, protein tyrosine kinase; chimerical protein, P-loop protein, capsule biogenesis/degradation; HET: ADP; 1.80A {Staphylococcus aureus} PDB: 2ved_A*

Probab=97.52  E-value=0.00064  Score=58.00  Aligned_cols=42  Identities=17%  Similarity=0.133  Sum_probs=36.9

Q ss_pred             CCcEEEEEec-CCCChHHHHHHHHHHHhhcCCeEEEEecCCCC
Q 024705          119 KGRIVEIYGR-EASGKTTLALHVIKEAQKLGGYCAYLDVENAL  160 (264)
Q Consensus       119 ~G~~~~I~G~-~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~  160 (264)
                      +..++.|+++ +|+||||++.+++..++..|.+|+++|.+...
T Consensus        81 ~~kvI~vts~kgG~GKTt~a~nLA~~lA~~G~rVLLID~D~~~  123 (271)
T 3bfv_A           81 AVQSIVITSEAPGAGKSTIAANLAVAYAQAGYKTLIVDGDMRK  123 (271)
T ss_dssp             CCCEEEEECSSTTSSHHHHHHHHHHHHHHTTCCEEEEECCSSS
T ss_pred             CCeEEEEECCCCCCcHHHHHHHHHHHHHhCCCeEEEEeCCCCC
Confidence            4567888876 89999999999999999999999999998754

>1sky_E F1-ATPase, F1-ATP synthase; F1FO ATP synthase, alpha3BETA3 SUBC F1-ATPase, hydrolase; 3.20A {Bacillus SP} SCOP: a.69.1.1 b.49.1.1 c.37.1.11

Probab=97.51  E-value=0.00012  Score=67.12  Aligned_cols=58  Identities=24%  Similarity=0.403  Sum_probs=47.7

Q ss_pred             CCCCCccccCcHHHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHHhh-cCCeEEEEe
Q 024705           95 SRRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQK-LGGYCAYLD  155 (264)
Q Consensus        95 ~~~~~~i~tG~~~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~-~g~~v~~~~  155 (264)
                      ....+.+.||+..+|.+..   +-+|+.+.|+|++|+|||||+..++.+... .+.-++|..
T Consensus       129 ~~~~e~l~TGir~ID~L~p---i~kGq~~~i~G~sGvGKTtL~~~l~~~~~~~~~~i~V~~~  187 (473)
T 1sky_E          129 ATEVEILETGIKVVDLLAP---YIKGGKIGLFGGAGVGKTVLIQELIHNIAQEHGGISVFAG  187 (473)
T ss_dssp             CCSCCEECCSCHHHHHHSC---EETTCEEEEECCSSSCHHHHHHHHHHHHHHHTCCCEEEEE
T ss_pred             cccCccccccchHHHHHhh---hccCCEEEEECCCCCCccHHHHHHHhhhhhccCcEEEEee
Confidence            4567789999999999876   668999999999999999999999988764 345555554

>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=97.49  E-value=8.1e-05  Score=59.50  Aligned_cols=29  Identities=28%  Similarity=0.446  Sum_probs=25.8

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHH
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEA  144 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~  144 (264)
                      |+.++.+++|.|+|||||||++..++...
T Consensus         1 ~~~~~~~I~l~G~~GsGKST~~~~L~~~l   29 (193)
T 2rhm_A            1 GMQTPALIIVTGHPATGKTTLSQALATGL   29 (193)
T ss_dssp             CCSCCEEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CCCCCeEEEEECCCCCCHHHHHHHHHHHc
Confidence            56788999999999999999999988754

>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=97.49  E-value=6.5e-05  Score=61.47  Aligned_cols=27  Identities=26%  Similarity=0.449  Sum_probs=24.0

Q ss_pred             CCCcEEEEEecCCCChHHHHHHHHHHH
Q 024705          118 PKGRIVEIYGREASGKTTLALHVIKEA  144 (264)
Q Consensus       118 ~~G~~~~I~G~~GsGKTtl~~~l~~~~  144 (264)
                      ++|.+++|.|||||||||++..++...
T Consensus         6 ~~g~~i~l~GpsGsGKsTl~~~L~~~~   32 (208)
T 3tau_A            6 ERGLLIVLSGPSGVGKGTVREAVFKDP   32 (208)
T ss_dssp             CCCCEEEEECCTTSCHHHHHHHHHHST
T ss_pred             CCCcEEEEECcCCCCHHHHHHHHHhhC
Confidence            579999999999999999999887754

>1m7g_A Adenylylsulfate kinase; APS kinase, transferase, sulfate Met nucleotide 2 kinase; HET: AV2 ADX ADP; 1.43A {Penicillium chrysogenum} SCOP: c.37.1.4 PDB: 1d6j_A* 1m7h_A* 3cr7_A*

Probab=97.49  E-value=8.9e-05  Score=60.65  Aligned_cols=40  Identities=28%  Similarity=0.227  Sum_probs=33.6

Q ss_pred             CCCCcEEEEEecCCCChHHHHHHHHHHHh-hcCCeEEEEec
Q 024705          117 LPKGRIVEIYGREASGKTTLALHVIKEAQ-KLGGYCAYLDV  156 (264)
Q Consensus       117 l~~G~~~~I~G~~GsGKTtl~~~l~~~~~-~~g~~v~~~~~  156 (264)
                      +++|.++.|.|++||||||++..++.... ..|.++.+++.
T Consensus        22 ~~~~~~i~~~G~~GsGKsT~~~~l~~~l~~~~g~~~~~~~~   62 (211)
T 1m7g_A           22 NQRGLTIWLTGLSASGKSTLAVELEHQLVRDRRVHAYRLDG   62 (211)
T ss_dssp             TSSCEEEEEECSTTSSHHHHHHHHHHHHHHHHCCCEEEECH
T ss_pred             CCCCCEEEEECCCCCCHHHHHHHHHHHhccccCCcEEEECC
Confidence            57899999999999999999999988776 45666778764

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=97.48  E-value=0.00029  Score=68.74  Aligned_cols=70  Identities=17%  Similarity=0.199  Sum_probs=46.7

Q ss_pred             EEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCHHHHHHcCCCccceeEeCCCCHHHHHHHHHHHhhcCCccE
Q 024705          122 IVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTKSGSIDV  201 (264)
Q Consensus       122 ~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~~~~~~~g~~~~~l~~~~~~~~ee~~~~i~~~~~~~~~~~  201 (264)
                      .++|+||||+|||+++..++..+...+.+.++++...-....                ......+...+    ......+
T Consensus       523 ~~Ll~Gp~GtGKT~lA~ala~~l~~~~~~~i~i~~s~~~~~~----------------~~~~~~l~~~~----~~~~~~v  582 (758)
T 3pxi_A          523 SFIFLGPTGVGKTELARALAESIFGDEESMIRIDMSEYMEKH----------------STSGGQLTEKV----RRKPYSV  582 (758)
T ss_dssp             EEEEESCTTSSHHHHHHHHHHHHHSCTTCEEEEEGGGGCSSC----------------CCC---CHHHH----HHCSSSE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhcCCCcceEEEechhccccc----------------ccccchhhHHH----HhCCCeE
Confidence            699999999999999999999887777888888754322110                00011222222    2346789


Q ss_pred             EEEcCccccc
Q 024705          202 IVVDSVAALI  211 (264)
Q Consensus       202 vvIDsl~~~~  211 (264)
                      +++|.+..+.
T Consensus       583 l~lDEi~~~~  592 (758)
T 3pxi_A          583 VLLDAIEKAH  592 (758)
T ss_dssp             EEEECGGGSC
T ss_pred             EEEeCccccC
Confidence            9999987664

>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=97.46  E-value=0.00042  Score=61.43  Aligned_cols=41  Identities=24%  Similarity=0.188  Sum_probs=35.4

Q ss_pred             CCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCC
Q 024705          119 KGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENA  159 (264)
Q Consensus       119 ~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~  159 (264)
                      +...+.|+|++|+||||++.+++..+...|.+|+.++.+..
T Consensus        78 ~~~~I~i~G~~G~GKSTl~~~L~~~l~~~g~kV~vi~~Dp~  118 (355)
T 3p32_A           78 NAHRVGITGVPGVGKSTAIEALGMHLIERGHRVAVLAVDPS  118 (355)
T ss_dssp             CSEEEEEECCTTSSHHHHHHHHHHHHHTTTCCEEEEEEC--
T ss_pred             CceEEEEECCCCCCHHHHHHHHHHHHHhCCCceEEEecCCC
Confidence            45689999999999999999999998888999999988754

>3lnc_A Guanylate kinase, GMP kinase; ALS collaborative crystallography, emerald biostructures, ATP-binding, cytoplasm, nucleotide-binding; HET: 5GP; 1.95A {Anaplasma phagocytophilum}

Probab=97.46  E-value=3.6e-05  Score=63.86  Aligned_cols=28  Identities=29%  Similarity=0.382  Sum_probs=19.3

Q ss_pred             CCCCcEEEEEecCCCChHHHHHHHH-HHH
Q 024705          117 LPKGRIVEIYGREASGKTTLALHVI-KEA  144 (264)
Q Consensus       117 l~~G~~~~I~G~~GsGKTtl~~~l~-~~~  144 (264)
                      +++|++++|.|||||||||++..++ ...
T Consensus        24 v~~G~ii~l~Gp~GsGKSTl~~~L~~~~~   52 (231)
T 3lnc_A           24 KSVGVILVLSSPSGCGKTTVANKLLEKQK   52 (231)
T ss_dssp             EECCCEEEEECSCC----CHHHHHHC---
T ss_pred             cCCCCEEEEECCCCCCHHHHHHHHHhcCC
Confidence            5789999999999999999998888 653

>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=97.46  E-value=0.0014  Score=54.73  Aligned_cols=39  Identities=23%  Similarity=0.324  Sum_probs=33.4

Q ss_pred             cEEEE-EecCCCChHHHHHHHHHHHhhcCCeEEEEecCCC
Q 024705          121 RIVEI-YGREASGKTTLALHVIKEAQKLGGYCAYLDVENA  159 (264)
Q Consensus       121 ~~~~I-~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~  159 (264)
                      .++.| .+..|+||||++.+++..++..|.+|++++.+..
T Consensus         3 ~vi~v~s~kgGvGKTt~a~~LA~~la~~g~~VlliD~D~~   42 (260)
T 3q9l_A            3 RIIVVTSGKGGVGKTTSSAAIATGLAQKGKKTVVIDFAIG   42 (260)
T ss_dssp             EEEEEECSSTTSSHHHHHHHHHHHHHHTTCCEEEEECCCS
T ss_pred             eEEEEECCCCCCcHHHHHHHHHHHHHhCCCcEEEEECCCC
Confidence            44555 4569999999999999999999999999999873

>3a4m_A L-seryl-tRNA(SEC) kinase; P-loop motif, walker A motif, ATP binding motif, ATP- binding, nucleotide-binding, transferase; HET: ADP; 1.79A {Methanocaldococcus jannaschii} PDB: 3a4l_A* 3a4n_A 3am1_A* 3add_A* 3adc_A* 3adb_A*

Probab=97.44  E-value=0.00012  Score=62.07  Aligned_cols=39  Identities=18%  Similarity=0.135  Sum_probs=31.9

Q ss_pred             CCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecC
Q 024705          119 KGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVE  157 (264)
Q Consensus       119 ~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e  157 (264)
                      ++.+++|.|+|||||||++..++..+...|..+++++.|
T Consensus         3 ~~~lIvl~G~pGSGKSTla~~La~~L~~~g~~~i~~~~D   41 (260)
T 3a4m_A            3 DIMLIILTGLPGVGKSTFSKNLAKILSKNNIDVIVLGSD   41 (260)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEECTH
T ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHhCCCEEEEECch
Confidence            467899999999999999999998776667667666643

>3la6_A Tyrosine-protein kinase WZC; P-loop protein, nucleotide binding domain, walker A motif, B protein kinase, oligomerization; HET: ADP; 3.20A {Escherichia coli}

Probab=97.44  E-value=0.00086  Score=57.73  Aligned_cols=42  Identities=10%  Similarity=0.135  Sum_probs=36.2

Q ss_pred             CCcEEEEEec-CCCChHHHHHHHHHHHhhcCCeEEEEecCCCC
Q 024705          119 KGRIVEIYGR-EASGKTTLALHVIKEAQKLGGYCAYLDVENAL  160 (264)
Q Consensus       119 ~G~~~~I~G~-~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~  160 (264)
                      ++.++.|+++ +|+||||++.+++..++..|.+|+++|.+...
T Consensus        91 ~~kvI~vts~kgG~GKTtva~nLA~~lA~~G~rVLLID~D~~~  133 (286)
T 3la6_A           91 QNNVLMMTGVSPSIGMTFVCANLAAVISQTNKRVLLIDCDMRK  133 (286)
T ss_dssp             TCCEEEEEESSSSSSHHHHHHHHHHHHHTTTCCEEEEECCTTT
T ss_pred             CCeEEEEECCCCCCcHHHHHHHHHHHHHhCCCCEEEEeccCCC
Confidence            4566767665 89999999999999999999999999998764

>1qvr_A CLPB protein; coiled coil, AAA ATPase, chaperone; HET: ANP; 3.00A {Thermus thermophilus} SCOP: a.174.1.1 c.37.1.20 c.37.1.20

Probab=97.44  E-value=0.00049  Score=67.99  Aligned_cols=79  Identities=18%  Similarity=0.247  Sum_probs=43.3

Q ss_pred             CcEEEEEecCCCChHHHHHHHHHHHhh-------cCCeEEEEecCCCCCHHHHHHcCCCccceeEeCCCCHHH-HHHHHH
Q 024705          120 GRIVEIYGREASGKTTLALHVIKEAQK-------LGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAEN-LLSVVD  191 (264)
Q Consensus       120 G~~~~I~G~~GsGKTtl~~~l~~~~~~-------~g~~v~~~~~e~~~~~~~~~~~g~~~~~l~~~~~~~~ee-~~~~i~  191 (264)
                      ...++|+||||+|||+++..++..+..       .+.++++++......       |...       ....++ +...+.
T Consensus       191 ~~~vlL~G~pG~GKT~la~~la~~l~~~~~p~~l~~~~~~~l~~~~l~~-------g~~~-------~g~~~~~l~~~~~  256 (854)
T 1qvr_A          191 KNNPVLIGEPGVGKTAIVEGLAQRIVKGDVPEGLKGKRIVSLQMGSLLA-------GAKY-------RGEFEERLKAVIQ  256 (854)
T ss_dssp             CCCCEEEECTTSCHHHHHHHHHHHHHHTCSCTTSTTCEEEEECC-------------------------CHHHHHHHHHH
T ss_pred             CCceEEEcCCCCCHHHHHHHHHHHHhcCCCchhhcCCeEEEeehHHhhc-------cCcc-------chHHHHHHHHHHH
Confidence            345789999999999999999988754       356677766422110       0000       011222 223333


Q ss_pred             HHhhcCCccEEEEcCcccccc
Q 024705          192 TLTKSGSIDVIVVDSVAALIP  212 (264)
Q Consensus       192 ~~~~~~~~~~vvIDsl~~~~~  212 (264)
                      ......++.+++||.+..+.+
T Consensus       257 ~~~~~~~~~iL~IDEi~~l~~  277 (854)
T 1qvr_A          257 EVVQSQGEVILFIDELHTVVG  277 (854)
T ss_dssp             HHHTTCSSEEEEECCC-----
T ss_pred             HHHhcCCCeEEEEecHHHHhc
Confidence            333334677999999998874

>3e1s_A Exodeoxyribonuclease V, subunit RECD; alpha and beta protein, ATP-binding, nucleotide-binding, HYD; 2.20A {Deinococcus radiodurans} PDB: 3gp8_A 3gpl_A*

Probab=97.43  E-value=3.5e-05  Score=72.94  Aligned_cols=38  Identities=26%  Similarity=0.261  Sum_probs=33.4

Q ss_pred             CCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEec
Q 024705          119 KGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDV  156 (264)
Q Consensus       119 ~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~  156 (264)
                      .+.+++|.|+||+||||++..++..+...+.++++...
T Consensus       203 ~~~~~~I~G~pGTGKTt~i~~l~~~l~~~g~~Vl~~Ap  240 (574)
T 3e1s_A          203 GHRLVVLTGGPGTGKSTTTKAVADLAESLGLEVGLCAP  240 (574)
T ss_dssp             TCSEEEEECCTTSCHHHHHHHHHHHHHHTTCCEEEEES
T ss_pred             hCCEEEEEcCCCCCHHHHHHHHHHHHHhcCCeEEEecC
Confidence            35789999999999999999999988888888888764

>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=97.43  E-value=0.00063  Score=59.93  Aligned_cols=25  Identities=24%  Similarity=0.256  Sum_probs=22.1

Q ss_pred             cEEEEEecCCCChHHHHHHHHHHHh
Q 024705          121 RIVEIYGREASGKTTLALHVIKEAQ  145 (264)
Q Consensus       121 ~~~~I~G~~GsGKTtl~~~l~~~~~  145 (264)
                      ..++|+||+|+|||+++..++..+.
T Consensus        39 ~~~ll~G~~G~GKT~la~~la~~l~   63 (373)
T 1jr3_A           39 HAYLFSGTRGVGKTSIARLLAKGLN   63 (373)
T ss_dssp             SEEEEESCTTSSHHHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhC
Confidence            4689999999999999999988764

>3tqc_A Pantothenate kinase; biosynthesis of cofactors, prosthetic groups, carriers, TRAN; HET: ADP; 2.30A {Coxiella burnetii}

Probab=97.42  E-value=0.00038  Score=61.00  Aligned_cols=39  Identities=18%  Similarity=0.121  Sum_probs=31.5

Q ss_pred             cEEEEEecCCCChHHHHHHHHHHHhh--cCCeEEEEecCCC
Q 024705          121 RIVEIYGREASGKTTLALHVIKEAQK--LGGYCAYLDVENA  159 (264)
Q Consensus       121 ~~~~I~G~~GsGKTtl~~~l~~~~~~--~g~~v~~~~~e~~  159 (264)
                      -++.|.||+||||||++..+......  .++.+.+++.+.-
T Consensus        93 ~iigI~GpsGSGKSTl~~~L~~ll~~~~~~~~v~~i~~D~f  133 (321)
T 3tqc_A           93 YIIGIAGSVAVGKSTTSRVLKALLSRWPDHPNVEVITTDGF  133 (321)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHHTTSTTCCCEEEEEGGGG
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHhcccCCCCeEEEEeeccc
Confidence            48999999999999999888776652  3567888887764

>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=97.42  E-value=0.00012  Score=58.64  Aligned_cols=23  Identities=22%  Similarity=0.291  Sum_probs=21.0

Q ss_pred             CcEEEEEecCCCChHHHHHHHHH
Q 024705          120 GRIVEIYGREASGKTTLALHVIK  142 (264)
Q Consensus       120 G~~~~I~G~~GsGKTtl~~~l~~  142 (264)
                      |++++|.|||||||||++..++.
T Consensus         2 g~ii~l~G~~GaGKSTl~~~L~~   24 (189)
T 2bdt_A            2 KKLYIITGPAGVGKSTTCKRLAA   24 (189)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CeEEEEECCCCCcHHHHHHHHhc
Confidence            67899999999999999999875

>2qen_A Walker-type ATPase; unknown function; HET: ADP; 2.25A {Pyrococcus abyssi}

Probab=97.41  E-value=0.00019  Score=62.49  Aligned_cols=87  Identities=14%  Similarity=0.159  Sum_probs=52.5

Q ss_pred             CcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCC------CH-H----HHHHcCC------------Ccccee
Q 024705          120 GRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENAL------DP-S----LAEAMGI------------DAENLL  176 (264)
Q Consensus       120 G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~------~~-~----~~~~~g~------------~~~~l~  176 (264)
                      |.+++|.||+|+|||+|+..++...   +  ++|++.....      .. .    ..+.++-            ......
T Consensus        31 ~~~v~i~G~~G~GKT~Ll~~~~~~~---~--~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~  105 (350)
T 2qen_A           31 YPLTLLLGIRRVGKSSLLRAFLNER---P--GILIDCRELYAERGHITREELIKELQSTISPFQKFQSKFKISLNLKFLT  105 (350)
T ss_dssp             CSEEEEECCTTSSHHHHHHHHHHHS---S--EEEEEHHHHHHTTTCBCHHHHHHHHHHHSCSHHHHHHHHTCCCCCGGGT
T ss_pred             CCeEEEECCCcCCHHHHHHHHHHHc---C--cEEEEeecccccccCCCHHHHHHHHHHHHHHHHhHhhhceeEEEeccee
Confidence            4799999999999999999988653   2  7888764321      11 1    1222211            000000


Q ss_pred             E-eCCCCHHHHHHHHHHHhhcCCccEEEEcCccccc
Q 024705          177 I-AQPDSAENLLSVVDTLTKSGSIDVIVVDSVAALI  211 (264)
Q Consensus       177 ~-~~~~~~ee~~~~i~~~~~~~~~~~vvIDsl~~~~  211 (264)
                      . ....+..++...+.......++-+++||.++.+.
T Consensus       106 ~~~~~~~~~~~~~~l~~~~~~~~~~vlvlDe~~~~~  141 (350)
T 2qen_A          106 LEPRKLSLREVFRELNDLGEELGEFIVAFDEAQYLR  141 (350)
T ss_dssp             SCGGGCCHHHHHHHHHHHHHHHSCEEEEEETGGGGG
T ss_pred             eccccchHHHHHHHHHHHHhccCCEEEEEeCHHHHh
Confidence            0 0123556666666655443347799999999876

>3vaa_A Shikimate kinase, SK; structural genomics, center for structural genomics of infec diseases, csgid, metal binding, transferase; 1.70A {Bacteroides thetaiotaomicron}

Probab=97.41  E-value=0.0001  Score=59.68  Aligned_cols=29  Identities=21%  Similarity=0.124  Sum_probs=24.1

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHH
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEA  144 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~  144 (264)
                      .+++|.++.|.|+|||||||++..++..+
T Consensus        21 ~~~~~~~i~l~G~~GsGKsTl~~~La~~l   49 (199)
T 3vaa_A           21 QSNAMVRIFLTGYMGAGKTTLGKAFARKL   49 (199)
T ss_dssp             ---CCCEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             ecCCCCEEEEEcCCCCCHHHHHHHHHHHc
Confidence            35688999999999999999999998765

>1qvr_A CLPB protein; coiled coil, AAA ATPase, chaperone; HET: ANP; 3.00A {Thermus thermophilus} SCOP: a.174.1.1 c.37.1.20 c.37.1.20

Probab=97.40  E-value=0.00042  Score=68.49  Aligned_cols=84  Identities=15%  Similarity=0.180  Sum_probs=48.8

Q ss_pred             cEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCHH-HHHHcCCCccceeEeCCCCHHHHHHHHHHHhhcCCc
Q 024705          121 RIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPS-LAEAMGIDAENLLIAQPDSAENLLSVVDTLTKSGSI  199 (264)
Q Consensus       121 ~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~~-~~~~~g~~~~~l~~~~~~~~ee~~~~i~~~~~~~~~  199 (264)
                      ..++|+||||+|||+++..++......+...++++...-.... ..+-+|.++.-+-   ......+...+    .....
T Consensus       589 ~~vLl~Gp~GtGKT~lA~~la~~~~~~~~~~i~i~~~~~~~~~~~s~l~g~~~~~~G---~~~~g~l~~~~----~~~~~  661 (854)
T 1qvr_A          589 GSFLFLGPTGVGKTELAKTLAATLFDTEEAMIRIDMTEYMEKHAVSRLIGAPPGYVG---YEEGGQLTEAV----RRRPY  661 (854)
T ss_dssp             EEEEEBSCSSSSHHHHHHHHHHHHHSSGGGEEEECTTTCCSSGGGGGC-----------------CHHHHH----HHCSS
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhcCCCCcEEEEechhccchhHHHHHcCCCCCCcC---ccccchHHHHH----HhCCC
Confidence            4789999999999999999999887667788888765433321 1111222211100   00011222222    23456


Q ss_pred             cEEEEcCccccc
Q 024705          200 DVIVVDSVAALI  211 (264)
Q Consensus       200 ~~vvIDsl~~~~  211 (264)
                      .++++|.+..+.
T Consensus       662 ~vl~lDEi~~l~  673 (854)
T 1qvr_A          662 SVILFDEIEKAH  673 (854)
T ss_dssp             EEEEESSGGGSC
T ss_pred             eEEEEecccccC
Confidence            899999997654

>3pfi_A Holliday junction ATP-dependent DNA helicase RUVB; probable holliday junction DNA helicase; HET: ADP; 2.69A {Campylobacter jejuni subsp}

Probab=97.38  E-value=0.0013  Score=57.30  Aligned_cols=64  Identities=19%  Similarity=0.218  Sum_probs=41.8

Q ss_pred             cEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCHHHHHHcCCCccceeEeCCCCHHHHHHHHHHHhhcCCcc
Q 024705          121 RIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTKSGSID  200 (264)
Q Consensus       121 ~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~~~~~~~g~~~~~l~~~~~~~~ee~~~~i~~~~~~~~~~  200 (264)
                      ..++|+||+|+|||+++..++...   +...+.++....                     ....++...+..   ..+..
T Consensus        56 ~~vll~G~~GtGKT~la~~ia~~~---~~~~~~~~~~~~---------------------~~~~~~~~~~~~---~~~~~  108 (338)
T 3pfi_A           56 DHILFSGPAGLGKTTLANIISYEM---SANIKTTAAPMI---------------------EKSGDLAAILTN---LSEGD  108 (338)
T ss_dssp             CCEEEECSTTSSHHHHHHHHHHHT---TCCEEEEEGGGC---------------------CSHHHHHHHHHT---CCTTC
T ss_pred             CeEEEECcCCCCHHHHHHHHHHHh---CCCeEEecchhc---------------------cchhHHHHHHHh---ccCCC
Confidence            458999999999999999986643   445555543211                     122333333322   24678


Q ss_pred             EEEEcCccccc
Q 024705          201 VIVVDSVAALI  211 (264)
Q Consensus       201 ~vvIDsl~~~~  211 (264)
                      +++||.+..+.
T Consensus       109 vl~lDEi~~l~  119 (338)
T 3pfi_A          109 ILFIDEIHRLS  119 (338)
T ss_dssp             EEEEETGGGCC
T ss_pred             EEEEechhhcC
Confidence            99999998775

>3vr4_D V-type sodium ATPase subunit D; V-ATPase, rotary motor, P-loop, hydrolas ATPase, ATP binding; HET: MSE B3P; 2.17A {Enterococcus hirae} PDB: 3vr3_D* 3vr2_D* 3vr5_D 3vr6_D*

Probab=97.38  E-value=0.00037  Score=63.67  Aligned_cols=61  Identities=16%  Similarity=0.240  Sum_probs=48.1

Q ss_pred             CCCCccccCcHHHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCC----eEEEEecCCC
Q 024705           96 RRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGG----YCAYLDVENA  159 (264)
Q Consensus        96 ~~~~~i~tG~~~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~----~v~~~~~e~~  159 (264)
                      ...+.+.||+..+|.++.   +-+|+-..|.|++|+|||+|+.+++..+...+.    .++|....+.
T Consensus       130 ~~~e~l~TGiraID~l~p---igrGQr~~Ifgg~G~GKt~L~~~Ia~~~~~~~d~~~~~~V~~~iGeR  194 (465)
T 3vr4_D          130 YPDEFIQTGISAIDHLNT---LVRGQKLPVFSGSGLPHKELAAQIARQATVLDSSDDFAVVFAAIGIT  194 (465)
T ss_dssp             CCCCBCBCSCHHHHTTSC---CBTTCBCCEEECTTSCHHHHHHHHHHHCBCSSCSSCEEEEEEEEEEC
T ss_pred             CcccccccCceEEecccc---cccCCEEEEeCCCCcChHHHHHHHHHHHHhccCCCceEEEEEEecCC
Confidence            456789999999999986   778999999999999999999888776654333    5666654443

>4eaq_A DTMP kinase, thymidylate kinase; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, MTBI, transferase; HET: ATM; 1.85A {Staphylococcus aureus subsp} PDB: 4dwj_A* 4f4i_A

Probab=97.37  E-value=0.00023  Score=59.27  Aligned_cols=39  Identities=23%  Similarity=0.154  Sum_probs=32.4

Q ss_pred             CCCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEE
Q 024705          115 GGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYL  154 (264)
Q Consensus       115 gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~  154 (264)
                      ..+.+|.++.|.|++||||||++..++..... +..++..
T Consensus        21 ~~~~~g~~i~i~G~~GsGKsT~~~~l~~~l~~-~~~~~~~   59 (229)
T 4eaq_A           21 QSNAMSAFITFEGPEGSGKTTVINEVYHRLVK-DYDVIMT   59 (229)
T ss_dssp             CCCCCCEEEEEECCTTSCHHHHHHHHHHHHTT-TSCEEEE
T ss_pred             eecCCCeEEEEEcCCCCCHHHHHHHHHHHHhc-CCCceee
Confidence            35678999999999999999999999988766 6666543

>3mfy_A V-type ATP synthase alpha chain; A-type ATP synthase, P loop, phenylalanine mutant, hydrolase; 2.35A {Pyrococcus horikoshii} PDB: 3i4l_A* 3i72_A 3i73_A* 3p20_A 3ikj_A 3qg1_A 3nd8_A 3nd9_A 1vdz_A 3qia_A 3qjy_A 3m4y_A 3se0_A 3sdz_A

Probab=97.36  E-value=0.001  Score=62.00  Aligned_cols=62  Identities=21%  Similarity=0.179  Sum_probs=50.4

Q ss_pred             CCCCccccCcHHHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCH
Q 024705           96 RRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP  162 (264)
Q Consensus        96 ~~~~~i~tG~~~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~  162 (264)
                      ...+.+.||+..+|.++.   +-+|+-.+|.|++|+|||+++.+++...  ....++|....+....
T Consensus       206 ~~~epl~TGirvID~l~P---igkGqr~~I~g~~g~GKT~L~~~ia~~~--~~~~~V~~~iGER~~E  267 (588)
T 3mfy_A          206 PPEVPLITGQRVIDTFFP---QAKGGTAAIPGPAGSGKTVTQHQLAKWS--DAQVVIYIGCGERGNE  267 (588)
T ss_dssp             CSCSEECCSCHHHHHHSC---EETTCEEEECSCCSHHHHHHHHHHHHHS--SCSEEEEEECCSSSSH
T ss_pred             cCCcccccCcchhhccCC---cccCCeEEeecCCCCCHHHHHHHHHhcc--CCCEEEEEEecccHHH
Confidence            456889999999999986   7899999999999999999998876642  3456778776666554

>1np6_A Molybdopterin-guanine dinucleotide biosynthesis protein B; mixed alpha-beta fold, elongated beta-sheet, walker A motif, P-loop structural motif; 1.90A {Escherichia coli} SCOP: c.37.1.10 PDB: 1p9n_A

Probab=97.36  E-value=0.00026  Score=56.52  Aligned_cols=41  Identities=17%  Similarity=0.081  Sum_probs=32.1

Q ss_pred             CCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecC
Q 024705          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVE  157 (264)
Q Consensus       117 l~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e  157 (264)
                      ...-.++.|+|++|||||||+..++..+...+.++..+..+
T Consensus         3 ~~~~~~i~i~G~sGsGKTTl~~~l~~~l~~~g~~v~~i~~~   43 (174)
T 1np6_A            3 KTMIPLLAFAAWSGTGKTTLLKKLIPALCARGIRPGLIKHT   43 (174)
T ss_dssp             --CCCEEEEECCTTSCHHHHHHHHHHHHHHTTCCEEEEEEC
T ss_pred             CCcceEEEEEeCCCCCHHHHHHHHHHhccccCCceeEEeeC
Confidence            34456899999999999999999998877777777666543

>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=97.35  E-value=0.00025  Score=56.39  Aligned_cols=85  Identities=20%  Similarity=0.218  Sum_probs=50.0

Q ss_pred             cEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCC---------CHHHHHHcCCC------ccceeEeC---CCC
Q 024705          121 RIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENAL---------DPSLAEAMGID------AENLLIAQ---PDS  182 (264)
Q Consensus       121 ~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~---------~~~~~~~~g~~------~~~l~~~~---~~~  182 (264)
                      .++.|+|++||||||++..++..+...|.+|..+..+...         +..+.+..|.+      .....+..   ...
T Consensus         5 ~~i~i~G~sGsGKTTl~~~L~~~l~~~g~~v~~ik~~~~~~diD~~~g~D~~r~~~aGa~~v~~~s~~~~~~~~~~~~~~   84 (169)
T 1xjc_A            5 NVWQVVGYKHSGKTTLMEKWVAAAVREGWRVGTVKHHGHGGEPARPEGVDSVRHERAGAVATAVEGDGLLQLHLRRPLWR   84 (169)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEECCC--------------------CSEEEEEETTEEEEEECCSCCC
T ss_pred             EEEEEECCCCCCHHHHHHHHHHhhHhcCCeeeEEEeCCCCcccccCCChhHHHHHhcCCCeEEeccCCEEEEEecccccc
Confidence            4688999999999999999999888888888888754321         12233333532      11222222   223


Q ss_pred             HHHHHHHHHHHhhcCCccEEEEcCccc
Q 024705          183 AENLLSVVDTLTKSGSIDVIVVDSVAA  209 (264)
Q Consensus       183 ~ee~~~~i~~~~~~~~~~~vvIDsl~~  209 (264)
                      .+.+...+...    ++++++|+....
T Consensus        85 ~~~~~~ll~~~----~~D~vlVEg~~~  107 (169)
T 1xjc_A           85 LDDVLALYAPL----RLDLVLVEGYKQ  107 (169)
T ss_dssp             HHHHHHHHGGG----CCSEEEEECCTT
T ss_pred             hHHHHHHHHhc----CCCEEEEeCCCC
Confidence            33443333322    789999988775

>1nks_A Adenylate kinase; thermophilic, transferase; HET: AMP ADP; 2.57A {Sulfolobus acidocaldarius} SCOP: c.37.1.1

Probab=97.34  E-value=0.00023  Score=56.62  Aligned_cols=34  Identities=21%  Similarity=0.176  Sum_probs=29.3

Q ss_pred             EEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEe
Q 024705          122 IVEIYGREASGKTTLALHVIKEAQKLGGYCAYLD  155 (264)
Q Consensus       122 ~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~  155 (264)
                      ++.|.|++||||||++..++..+...|..+.+++
T Consensus         3 ~I~i~G~~GsGKsT~~~~L~~~l~~~g~~~~~~~   36 (194)
T 1nks_A            3 IGIVTGIPGVGKSTVLAKVKEILDNQGINNKIIN   36 (194)
T ss_dssp             EEEEEECTTSCHHHHHHHHHHHHHTTTCCEEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHhcCceEEEEE
Confidence            6899999999999999999988766666677775

>2ius_A DNA translocase FTSK; nucleotide-binding, chromosome partition, ATP-binding, DNA- binding, cell division, transmembrane, inner membrane; HET: DNA; 2.7A {Escherichia coli} PDB: 2j5p_A*

Probab=97.34  E-value=0.00097  Score=62.00  Aligned_cols=30  Identities=20%  Similarity=0.099  Sum_probs=25.5

Q ss_pred             CCCCcEEEEEecCCCChHHHHHHHHHHHhh
Q 024705          117 LPKGRIVEIYGREASGKTTLALHVIKEAQK  146 (264)
Q Consensus       117 l~~G~~~~I~G~~GsGKTtl~~~l~~~~~~  146 (264)
                      +.++..++|+|++|||||+++..++..++.
T Consensus       164 L~~~pHlLIaG~TGSGKSt~L~~li~sLl~  193 (512)
T 2ius_A          164 LAKMPHLLVAGTTGSGASVGVNAMILSMLY  193 (512)
T ss_dssp             GGGSCSEEEECCTTSSHHHHHHHHHHHHHT
T ss_pred             cccCceEEEECCCCCCHHHHHHHHHHHHHH
Confidence            456778999999999999999999887653

>2c61_A A-type ATP synthase non-catalytic subunit B; hydrolase, H+ ATPase, A1AO, ATP synthesis, hydrogen ION transport, ION transport; 1.5A {Methanosarcina mazei GO1} PDB: 3dsr_A* 3b2q_A* 2rkw_A* 3eiu_A*

Probab=97.33  E-value=0.00033  Score=64.25  Aligned_cols=62  Identities=16%  Similarity=0.183  Sum_probs=48.7

Q ss_pred             CCCCCccccCcHHHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHHhhc----CCeEEEEecCCC
Q 024705           95 SRRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKL----GGYCAYLDVENA  159 (264)
Q Consensus        95 ~~~~~~i~tG~~~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~----g~~v~~~~~e~~  159 (264)
                      ....+.+.||+..+|.++.   +-+|+-..|.|++|+|||+|+.+++.....+    +..++|....+.
T Consensus       130 ~~~~e~l~TGir~ID~l~p---igrGQr~~Ifgg~G~GKt~Ll~~Ia~~~~~n~~~~~~~~V~~~iGER  195 (469)
T 2c61_A          130 LPPKDFIQTGISTIDGTNT---LVRGQKLPIFSASGLPHNEIALQIARQASVPGSESAFAVVFAAMGIT  195 (469)
T ss_dssp             CCCCSBCBCSCHHHHTTSC---CBTTCBCCEEECTTSCHHHHHHHHHHHCBCTTCSSCEEEEEEEEEEC
T ss_pred             cccccccceeeEeeeeeec---cccCCEEEEECCCCCCHHHHHHHHHHHHhhccCCCCcEEEEEEccCC
Confidence            3456789999999999986   7799999999999999999999888876532    235666654443

>1ojl_A Transcriptional regulatory protein ZRAR; response regulator, two component system, AAA domain, NTRC family, DNA-binding; HET: ATP; 3.0A {Salmonella typhimurium}

Probab=97.33  E-value=0.00086  Score=58.15  Aligned_cols=85  Identities=13%  Similarity=0.075  Sum_probs=50.0

Q ss_pred             CCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCHH-HHHHcCCCccceeEeCCCCHHHHHHHHHHHhhcC
Q 024705          119 KGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPS-LAEAMGIDAENLLIAQPDSAENLLSVVDTLTKSG  197 (264)
Q Consensus       119 ~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~~-~~~~~g~~~~~l~~~~~~~~ee~~~~i~~~~~~~  197 (264)
                      .+..++|+||||+|||+++..+.......+.+.++++........ ..+-+|.....+.-....    ....+...    
T Consensus        24 ~~~~vLi~Ge~GtGKt~lAr~i~~~~~~~~~~~v~v~~~~~~~~l~~~~lfg~~~g~~tg~~~~----~~g~~~~a----   95 (304)
T 1ojl_A           24 SDATVLIHGDSGTGKELVARALHACSARSDRPLVTLNCAALNESLLESELFGHEKGAFTGADKR----REGRFVEA----   95 (304)
T ss_dssp             TTSCEEEESCTTSCHHHHHHHHHHHSSCSSSCCCEEECSSCCHHHHHHHHTCCCSSCCC---CC----CCCHHHHH----
T ss_pred             CCCcEEEECCCCchHHHHHHHHHHhCcccCCCeEEEeCCCCChHHHHHHhcCccccccCchhhh----hcCHHHhc----
Confidence            455699999999999999999888765667777778765443332 233345432211100000    00111111    


Q ss_pred             CccEEEEcCccccc
Q 024705          198 SIDVIVVDSVAALI  211 (264)
Q Consensus       198 ~~~~vvIDsl~~~~  211 (264)
                      ...+++||.+..+.
T Consensus        96 ~~g~L~LDEi~~l~  109 (304)
T 1ojl_A           96 DGGTLFLDEIGDIS  109 (304)
T ss_dssp             TTSEEEEESCTTCC
T ss_pred             CCCEEEEeccccCC
Confidence            24689999998875

>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=97.33  E-value=0.0002  Score=56.93  Aligned_cols=37  Identities=19%  Similarity=0.250  Sum_probs=28.8

Q ss_pred             CcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEec
Q 024705          120 GRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDV  156 (264)
Q Consensus       120 G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~  156 (264)
                      |.++.|.|++||||||++..++......|....+++.
T Consensus         3 ~~~I~i~G~~GsGKsT~~~~L~~~l~~~g~~~~~i~~   39 (192)
T 1kht_A            3 NKVVVVTGVPGVGSTTSSQLAMDNLRKEGVNYKMVSF   39 (192)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHHHHTTTCCCEEEEH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHhcCcceEEEeh
Confidence            5789999999999999999998876555533455553

>1hqc_A RUVB; extended AAA-ATPase domain, complex with nucleotide, hydrolase; HET: ADE; 3.20A {Thermus thermophilus} SCOP: a.4.5.11 c.37.1.20 PDB: 1ixs_B* 1ixr_C*

Probab=97.33  E-value=0.00094  Score=57.73  Aligned_cols=66  Identities=20%  Similarity=0.238  Sum_probs=42.8

Q ss_pred             CcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCHHHHHHcCCCccceeEeCCCCHHHHHHHHHHHhhcCCc
Q 024705          120 GRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTKSGSI  199 (264)
Q Consensus       120 G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~~~~~~~g~~~~~l~~~~~~~~ee~~~~i~~~~~~~~~  199 (264)
                      ...++|+||+|+|||+++..++...   +.++.+++....                     ....++...+...  ..+.
T Consensus        38 ~~~vll~G~~GtGKT~la~~i~~~~---~~~~~~~~~~~~---------------------~~~~~l~~~l~~~--~~~~   91 (324)
T 1hqc_A           38 LEHLLLFGPPGLGKTTLAHVIAHEL---GVNLRVTSGPAI---------------------EKPGDLAAILANS--LEEG   91 (324)
T ss_dssp             CCCCEEECCTTCCCHHHHHHHHHHH---TCCEEEECTTTC---------------------CSHHHHHHHHTTT--CCTT
T ss_pred             CCcEEEECCCCCCHHHHHHHHHHHh---CCCEEEEecccc---------------------CChHHHHHHHHHh--ccCC
Confidence            3568999999999999999998765   445555553221                     1123333332220  2467


Q ss_pred             cEEEEcCccccc
Q 024705          200 DVIVVDSVAALI  211 (264)
Q Consensus       200 ~~vvIDsl~~~~  211 (264)
                      .+++||.+..+.
T Consensus        92 ~~l~lDEi~~l~  103 (324)
T 1hqc_A           92 DILFIDEIHRLS  103 (324)
T ss_dssp             CEEEETTTTSCC
T ss_pred             CEEEEECCcccc
Confidence            799999998765

>1kag_A SKI, shikimate kinase I; transferase, structural genomics, PSI, protein structure initiative; 2.05A {Escherichia coli} SCOP: c.37.1.2

Probab=97.30  E-value=0.00014  Score=57.18  Aligned_cols=26  Identities=19%  Similarity=0.351  Sum_probs=22.4

Q ss_pred             CCcEEEEEecCCCChHHHHHHHHHHH
Q 024705          119 KGRIVEIYGREASGKTTLALHVIKEA  144 (264)
Q Consensus       119 ~G~~~~I~G~~GsGKTtl~~~l~~~~  144 (264)
                      .|.++.|.|+|||||||++..++...
T Consensus         3 ~~~~i~l~G~~GsGKSTl~~~La~~l   28 (173)
T 1kag_A            3 EKRNIFLVGPMGAGKSTIGRQLAQQL   28 (173)
T ss_dssp             CCCCEEEECCTTSCHHHHHHHHHHHT
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHHh
Confidence            46789999999999999998887753

>1r6b_X CLPA protein; AAA+, N-terminal domain, CLPS, crystal, binding mechanism, hydrolase; HET: ADP; 2.25A {Escherichia coli} SCOP: a.174.1.1 c.37.1.20 c.37.1.20 PDB: 1ksf_X*

Probab=97.30  E-value=0.0008  Score=65.49  Aligned_cols=81  Identities=12%  Similarity=0.149  Sum_probs=47.8

Q ss_pred             cEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCH-HHHHHcCCCccceeEeCCCCHHHHHHHHHHHhhcCCc
Q 024705          121 RIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP-SLAEAMGIDAENLLIAQPDSAENLLSVVDTLTKSGSI  199 (264)
Q Consensus       121 ~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~-~~~~~~g~~~~~l~~~~~~~~ee~~~~i~~~~~~~~~  199 (264)
                      ..++|+||||+|||+++..++..+   +...+.++..+-... ...+.+|.++.       ....+-...+...+.....
T Consensus       489 ~~~ll~G~~GtGKT~la~~la~~l---~~~~~~i~~s~~~~~~~~~~l~g~~~g-------~~g~~~~~~l~~~~~~~~~  558 (758)
T 1r6b_X          489 GSFLFAGPTGVGKTEVTVQLSKAL---GIELLRFDMSEYMERHTVSRLIGAPPG-------YVGFDQGGLLTDAVIKHPH  558 (758)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHH---TCEEEEEEGGGCSSSSCCSSSCCCCSC-------SHHHHHTTHHHHHHHHCSS
T ss_pred             eEEEEECCCCCcHHHHHHHHHHHh---cCCEEEEechhhcchhhHhhhcCCCCC-------CcCccccchHHHHHHhCCC
Confidence            368999999999999999998876   567777775443222 11111232211       1111111112223334567


Q ss_pred             cEEEEcCccccc
Q 024705          200 DVIVVDSVAALI  211 (264)
Q Consensus       200 ~~vvIDsl~~~~  211 (264)
                      .++++|.+..+.
T Consensus       559 ~vl~lDEi~~~~  570 (758)
T 1r6b_X          559 AVLLLDEIEKAH  570 (758)
T ss_dssp             EEEEEETGGGSC
T ss_pred             cEEEEeCccccC
Confidence            899999998765

>2p67_A LAO/AO transport system kinase; ARGK, structural GEN PSI-2, protein structure initiative, NEW YORK SGX research for structural genomics; 1.80A {Escherichia coli} SCOP: c.37.1.10

Probab=97.29  E-value=0.00031  Score=62.00  Aligned_cols=43  Identities=16%  Similarity=0.088  Sum_probs=38.0

Q ss_pred             CCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCC
Q 024705          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENA  159 (264)
Q Consensus       117 l~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~  159 (264)
                      ..+|.++.|.|+||+||||++..++......++++.+++.+..
T Consensus        53 ~~~~~~i~i~G~~g~GKSTl~~~l~~~~~~~~~~v~v~~~d~~   95 (341)
T 2p67_A           53 CGNTLRLGVTGTPGAGKSTFLEAFGMLLIREGLKVAVIAVDPS   95 (341)
T ss_dssp             CSCSEEEEEEECTTSCHHHHHHHHHHHHHHTTCCEEEEEECCC
T ss_pred             cCCCEEEEEEcCCCCCHHHHHHHHHHHHHhcCCeEEEEeecCC
Confidence            4678999999999999999999999988888999998887654

>1hyq_A MIND, cell division inhibitor (MIND-1); MINC, FTSZ, bacterial cell division, cell cycle; 2.60A {Archaeoglobus fulgidus} SCOP: c.37.1.10

Probab=97.28  E-value=0.0015  Score=54.79  Aligned_cols=38  Identities=24%  Similarity=0.328  Sum_probs=32.9

Q ss_pred             EEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCC
Q 024705          122 IVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENA  159 (264)
Q Consensus       122 ~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~  159 (264)
                      +.+..+..|+||||++.+++..++..|.+|+++|.+..
T Consensus         5 I~v~s~kgGvGKTt~a~~LA~~la~~g~~VlliD~D~~   42 (263)
T 1hyq_A            5 ITVASGKGGTGKTTITANLGVALAQLGHDVTIVDADIT   42 (263)
T ss_dssp             EEEEESSSCSCHHHHHHHHHHHHHHTTCCEEEEECCCS
T ss_pred             EEEECCCCCCCHHHHHHHHHHHHHhCCCcEEEEECCCC
Confidence            34446779999999999999999999999999998864

>2qor_A Guanylate kinase; phosphotransferase, purine metabolism, structural genomics, structural genomics of pathogenic protozoa consortium; HET: 5GP POP; 1.80A {Plasmodium vivax}

Probab=97.28  E-value=0.00016  Score=58.80  Aligned_cols=29  Identities=24%  Similarity=0.287  Sum_probs=25.1

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHH
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEA  144 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~  144 (264)
                      -+.+|.+++|.|||||||||++..++...
T Consensus         8 ~~~~~~~i~l~G~sGsGKsTl~~~L~~~~   36 (204)
T 2qor_A            8 HMARIPPLVVCGPSGVGKGTLIKKVLSEF   36 (204)
T ss_dssp             -CCCCCCEEEECCTTSCHHHHHHHHHHHC
T ss_pred             ccccCCEEEEECCCCCCHHHHHHHHHHhC
Confidence            35789999999999999999999987754

>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=97.27  E-value=0.002  Score=60.43  Aligned_cols=91  Identities=13%  Similarity=0.120  Sum_probs=56.7

Q ss_pred             CCcEEEEEecCCCChHHHHHHHHH----HHhhcCCeEEEEecCCCC--CH-----HHHHHcCCCcc--ceeEeCCCCHHH
Q 024705          119 KGRIVEIYGREASGKTTLALHVIK----EAQKLGGYCAYLDVENAL--DP-----SLAEAMGIDAE--NLLIAQPDSAEN  185 (264)
Q Consensus       119 ~G~~~~I~G~~GsGKTtl~~~l~~----~~~~~g~~v~~~~~e~~~--~~-----~~~~~~g~~~~--~l~~~~~~~~ee  185 (264)
                      ...++.|+|+.|+||||||..++.    .....-..++|++.....  ..     .....++...+  .+.-....+.++
T Consensus       151 ~~~vv~I~G~gGvGKTtLA~~v~~~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~~~~  230 (549)
T 2a5y_B          151 DSFFLFLHGRAGSGKSVIASQALSKSDQLIGINYDSIVWLKDSGTAPKSTFDLFTDILLMLKSEDDLLNFPSVEHVTSVV  230 (549)
T ss_dssp             SSEEEEEECSTTSSHHHHHHHHHHHCSSTBTTTBSEEEEEECCCCSTTHHHHHHHHHHHHHTTTSCCTTCCCCTTCCHHH
T ss_pred             CceEEEEEcCCCCCHHHHHHHHHHhhhHHHhccCCcEEEEEECCCCCCCHHHHHHHHHHHHhcCcccccccccccccHHH
Confidence            458999999999999999998885    233334567888765543  11     23445554422  111112234556


Q ss_pred             HHHHHHHHhhcCCccEEEEcCccc
Q 024705          186 LLSVVDTLTKSGSIDVIVVDSVAA  209 (264)
Q Consensus       186 ~~~~i~~~~~~~~~~~vvIDsl~~  209 (264)
                      +...+...+...+.-++|+|.+..
T Consensus       231 l~~~l~~~L~~~kr~LlVLDdv~~  254 (549)
T 2a5y_B          231 LKRMICNALIDRPNTLFVFDDVVQ  254 (549)
T ss_dssp             HHHHHHHHHTTSTTEEEEEEEECC
T ss_pred             HHHHHHHHHcCCCcEEEEEECCCC
Confidence            667777666543367899997764

>2woo_A ATPase GET3; tail-anchored, membrane protein, targeting factor, endoplasmic reticulum, TRC40, ATP-binding, golgi apparatus; 3.01A {Schizosaccharomyces pombe}

Probab=97.27  E-value=0.0012  Score=57.86  Aligned_cols=40  Identities=18%  Similarity=0.207  Sum_probs=36.7

Q ss_pred             CcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCC
Q 024705          120 GRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENA  159 (264)
Q Consensus       120 G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~  159 (264)
                      ..++++.|..|+||||++.+++..++..|.+|++++.|..
T Consensus        19 ~~i~v~sgkGGvGKTTva~~LA~~lA~~G~rVllvD~D~~   58 (329)
T 2woo_A           19 LKWIFVGGKGGVGKTTTSCSLAIQMSKVRSSVLLISTDPA   58 (329)
T ss_dssp             CCEEEEECSSSSSHHHHHHHHHHHHHTSSSCEEEEECCTT
T ss_pred             CEEEEEeCCCCCcHHHHHHHHHHHHHHCCCeEEEEECCCC
Confidence            4678889999999999999999999999999999999865

>3gqb_B V-type ATP synthase beta chain; A3B3, V-ATPase, ATP synthesis, ATP-binding, hydrogen ION TRA hydrolase, ION transport; 2.80A {Thermus thermophilus HB8} PDB: 3a5c_D* 3a5d_D 3j0j_D*

Probab=97.27  E-value=0.0004  Score=63.40  Aligned_cols=48  Identities=19%  Similarity=0.326  Sum_probs=41.9

Q ss_pred             CCCCCccccCcHHHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHHh
Q 024705           95 SRRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQ  145 (264)
Q Consensus        95 ~~~~~~i~tG~~~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~  145 (264)
                      ....+.+.||+..+|.++.   +-+|+-..|.|++|+|||+|+.+++..+.
T Consensus       125 ~~~~e~l~TGiraID~l~p---igrGQr~~Ifgg~G~GKt~L~~~Ia~~~~  172 (464)
T 3gqb_B          125 RKPEQFIQTGISTIDVMNT---LVRGQKLPIFSGSGLPANEIAAQIARQAT  172 (464)
T ss_dssp             CCCCCBCBCSCHHHHTTSC---CBTTCBCCEEEETTSCHHHHHHHHHHHCB
T ss_pred             cCccccccCcceeeecccc---cccCCEEEEecCCCCCchHHHHHHHHHHH
Confidence            4557889999999999986   77899999999999999999988877654

>2vp4_A Deoxynucleoside kinase; ATP-binding, DNA synthesis, phosphoprotein, feedback inhibition, deoxyribonucleoside kinase, salvage pathway; HET: DCP; 2.20A {Drosophila melanogaster} SCOP: c.37.1.1 PDB: 1j90_A* 2jj8_A* 2vp2_A* 1oe0_A* 2vp5_A* 2vp6_A* 2vp9_A* 2vpp_A* 2vqs_A* 2vp0_A* 1ot3_A* 2jcs_A* 1zm7_A* 1zmx_A*

Probab=97.26  E-value=0.00013  Score=60.65  Aligned_cols=36  Identities=31%  Similarity=0.134  Sum_probs=29.1

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEe
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLD  155 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~  155 (264)
                      ..++|.++.|.|++||||||++..++..    ++.+.+..
T Consensus        16 ~~~~g~~i~i~G~~GsGKSTl~~~L~~~----~g~v~~~~   51 (230)
T 2vp4_A           16 EGTQPFTVLIEGNIGSGKTTYLNHFEKY----KNDICLLT   51 (230)
T ss_dssp             TTCCCEEEEEECSTTSCHHHHHHTTGGG----TTTEEEEC
T ss_pred             CCCCceEEEEECCCCCCHHHHHHHHHhc----cCCeEEEe
Confidence            4578999999999999999988887664    55566654

>2plr_A DTMP kinase, probable thymidylate kinase; TMP-binding, ATP-binding, structural GEN NPPSFA; HET: 1PE PGE EPE PG4; 1.60A {Sulfolobus tokodaii}

Probab=97.26  E-value=0.00032  Score=56.74  Aligned_cols=35  Identities=20%  Similarity=0.167  Sum_probs=28.4

Q ss_pred             CCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEE
Q 024705          119 KGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYL  154 (264)
Q Consensus       119 ~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~  154 (264)
                      +|.+++|.|++||||||++..++..+...| .++..
T Consensus         3 ~~~~I~i~G~~GsGKsT~~~~L~~~l~~~g-~~~~~   37 (213)
T 2plr_A            3 KGVLIAFEGIDGSGKSSQATLLKDWIELKR-DVYLT   37 (213)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHHHTTTS-CEEEE
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHHHhhcC-CEEEe
Confidence            467899999999999999999988776555 55443

>1iqp_A RFCS; clamp loader, extended AAA-ATPase domain, complex with ADP, replication; HET: ADP; 2.80A {Pyrococcus furiosus} SCOP: a.80.1.1 c.37.1.20

Probab=97.26  E-value=0.00054  Score=59.10  Aligned_cols=24  Identities=33%  Similarity=0.321  Sum_probs=21.6

Q ss_pred             EEEEEecCCCChHHHHHHHHHHHh
Q 024705          122 IVEIYGREASGKTTLALHVIKEAQ  145 (264)
Q Consensus       122 ~~~I~G~~GsGKTtl~~~l~~~~~  145 (264)
                      .++|+||+|+|||+++..++..+.
T Consensus        48 ~~ll~G~~G~GKT~la~~l~~~l~   71 (327)
T 1iqp_A           48 HLLFAGPPGVGKTTAALALARELF   71 (327)
T ss_dssp             EEEEESCTTSSHHHHHHHHHHHHH
T ss_pred             eEEEECcCCCCHHHHHHHHHHHhc
Confidence            389999999999999999998764

>3vr4_A V-type sodium ATPase catalytic subunit A; V-ATPase, rotary motor, P-loop, hydrolas ATPase, ATP binding; HET: MSE B3P; 2.17A {Enterococcus hirae} PDB: 3vr3_A* 3vr2_A* 3vr5_A 3vr6_A*

Probab=97.23  E-value=0.0017  Score=60.85  Aligned_cols=59  Identities=19%  Similarity=0.213  Sum_probs=48.0

Q ss_pred             CCCCccccCcHHHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCC
Q 024705           96 RRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENA  159 (264)
Q Consensus        96 ~~~~~i~tG~~~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~  159 (264)
                      ...+.+.||+..+|.++.   +-+|+-..|.|++|+|||+++.+++.+.  ...-++|....+.
T Consensus       211 ~~~epl~TGirvID~l~P---igrGqr~~Ifgg~g~GKT~L~~~ia~~~--~~~v~V~~~iGER  269 (600)
T 3vr4_A          211 NPDVPMITGQRVIDTFFP---VTKGGAAAVPGPFGAGKTVVQHQIAKWS--DVDLVVYVGCGER  269 (600)
T ss_dssp             CCCSBCCCCCHHHHHHSC---CBTTCEEEEECCTTSCHHHHHHHHHHHS--SCSEEEEEEEEEC
T ss_pred             CCCceecccchhhhccCC---ccCCCEEeeecCCCccHHHHHHHHHhcc--CCCEEEEEEeccc
Confidence            456889999999999986   8899999999999999999999887753  3445666655444

>1a5t_A Delta prime, HOLB; zinc finger, DNA replication; 2.20A {Escherichia coli K12} SCOP: a.80.1.1 c.37.1.20 PDB: 1jr3_E* 1xxh_E* 1xxi_E* 3glf_E* 3glg_E* 3glh_E* 3gli_E*

Probab=97.22  E-value=0.003  Score=55.31  Aligned_cols=86  Identities=14%  Similarity=0.121  Sum_probs=48.3

Q ss_pred             cEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCH-HHHH--HcCCCccceeEeC-----CCCHHHHHHHHHH
Q 024705          121 RIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP-SLAE--AMGIDAENLLIAQ-----PDSAENLLSVVDT  192 (264)
Q Consensus       121 ~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~-~~~~--~~g~~~~~l~~~~-----~~~~ee~~~~i~~  192 (264)
                      ..++++||+|+|||+++..++..+.......     ...-.. ...+  .-|..++-..+..     ....+++.+.+..
T Consensus        25 ~a~L~~G~~G~GKt~~a~~la~~l~~~~~~~-----~~~c~~c~~c~~~~~~~~~d~~~~~~~~~~~~~~i~~ir~l~~~   99 (334)
T 1a5t_A           25 HALLIQALPGMGDDALIYALSRYLLCQQPQG-----HKSCGHCRGCQLMQAGTHPDYYTLAPEKGKNTLGVDAVREVTEK   99 (334)
T ss_dssp             SEEEEECCTTSCHHHHHHHHHHHHTCSSCBT-----TBCCSCSHHHHHHHHTCCTTEEEECCCTTCSSBCHHHHHHHHHH
T ss_pred             eeEEEECCCCchHHHHHHHHHHHHhCCCCCC-----CCCCCCCHHHHHHhcCCCCCEEEEeccccCCCCCHHHHHHHHHH
Confidence            4699999999999999999998875332110     000010 0111  1122222222221     2345666655554


Q ss_pred             Hhh---cCCccEEEEcCccccc
Q 024705          193 LTK---SGSIDVIVVDSVAALI  211 (264)
Q Consensus       193 ~~~---~~~~~~vvIDsl~~~~  211 (264)
                      ...   .++.++++||....+.
T Consensus       100 ~~~~~~~~~~kvviIdead~l~  121 (334)
T 1a5t_A          100 LNEHARLGGAKVVWVTDAALLT  121 (334)
T ss_dssp             TTSCCTTSSCEEEEESCGGGBC
T ss_pred             HhhccccCCcEEEEECchhhcC
Confidence            422   2467899999988775

>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=97.21  E-value=0.00038  Score=60.80  Aligned_cols=43  Identities=16%  Similarity=0.339  Sum_probs=38.3

Q ss_pred             CCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCC
Q 024705          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENA  159 (264)
Q Consensus       117 l~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~  159 (264)
                      +..-+++.|+|.-|+||||++.+++..++..|.+|+.+|.|-.
T Consensus        45 i~~aKVIAIaGKGGVGKTTtavNLA~aLA~~GkkVllID~Dpq   87 (314)
T 3fwy_A           45 ITGAKVFAVYGKGGIGKSTTSSNLSAAFSILGKRVLQIGCDPK   87 (314)
T ss_dssp             --CCEEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEEESSS
T ss_pred             CCCceEEEEECCCccCHHHHHHHHHHHHHHCCCeEEEEecCCC
Confidence            5556899999999999999999999999999999999999853

>2axn_A 6-phosphofructo-2-kinase/fructose-2,6- biphosphatase 3 (6PF-2-K/FRU- 2,6-P2ASE brain/placenta-type...; bifunctional enzyme, EDTA complex; HET: F6P EDT ADP; 2.10A {Homo sapiens} PDB: 2dwo_A* 2dwp_A* 2i1v_B* 3qpu_A* 3qpv_A* 3qpw_A*

Probab=97.21  E-value=0.0024  Score=59.59  Aligned_cols=40  Identities=18%  Similarity=0.242  Sum_probs=32.3

Q ss_pred             CCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCC
Q 024705          119 KGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVEN  158 (264)
Q Consensus       119 ~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~  158 (264)
                      ...+++++|.|||||||++..++..+...+..+.+|+.+.
T Consensus        34 ~~~lIvlvGlpGSGKSTia~~La~~L~~~~~d~~v~s~D~   73 (520)
T 2axn_A           34 SPTVIVMVGLPARGKTYISKKLTRYLNWIGVPTKVFNVGE   73 (520)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEEHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHhhcCCCeEEecccH
Confidence            4568999999999999999999987765666677777543

>1yrb_A ATP(GTP)binding protein; GTPase, P-loop, rossman fold, GDP, HYDR; HET: GDP; 1.75A {Pyrococcus abyssi} SCOP: c.37.1.10 PDB: 1yr6_A* 1yr8_A* 1yr9_A* 1yra_A* 1yr7_A* 2oxr_A*

Probab=97.20  E-value=0.00043  Score=58.11  Aligned_cols=41  Identities=27%  Similarity=0.261  Sum_probs=36.4

Q ss_pred             CCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCC
Q 024705          118 PKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENA  159 (264)
Q Consensus       118 ~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~  159 (264)
                      .+..++.+.|++|+||||++.+++..+. .|.+++.++.+..
T Consensus        12 ~~~~i~~~~GkgGvGKTTl~~~La~~l~-~g~~v~vvd~D~~   52 (262)
T 1yrb_A           12 MASMIVVFVGTAGSGKTTLTGEFGRYLE-DNYKVAYVNLDTG   52 (262)
T ss_dssp             CCCEEEEEECSTTSSHHHHHHHHHHHHT-TTSCEEEEECCSS
T ss_pred             cceEEEEEeCCCCCCHHHHHHHHHHHHH-CCCeEEEEeCCCC
Confidence            3457899999999999999999999998 8999999998764

>2www_A Methylmalonic aciduria type A protein, mitochondrial; transport protein, nucleotide-binding; HET: GDP 2PE; 2.64A {Homo sapiens}

Probab=97.20  E-value=0.0004  Score=61.51  Aligned_cols=42  Identities=24%  Similarity=0.215  Sum_probs=35.3

Q ss_pred             CCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCC
Q 024705          118 PKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENA  159 (264)
Q Consensus       118 ~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~  159 (264)
                      +.+..+.|+|+||+|||||+..++......++++.++..+..
T Consensus        72 ~~~~~v~lvG~pgaGKSTLln~L~~~~~~~~~~v~V~~~dp~  113 (349)
T 2www_A           72 PLAFRVGLSGPPGAGKSTFIEYFGKMLTERGHKLSVLAVDPS  113 (349)
T ss_dssp             CSCEEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEECCC-
T ss_pred             cCceEEEEEcCCCCCHHHHHHHHHHHhhhcCCeEEEEeecCC
Confidence            347889999999999999999999888788888888876543

>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=97.20  E-value=0.00022  Score=57.91  Aligned_cols=40  Identities=33%  Similarity=0.370  Sum_probs=30.9

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCC
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENA  159 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~  159 (264)
                      -+++|.++.|.|++||||||++..++...    ..+.+++.+..
T Consensus        17 ~~~~~~~i~i~G~~GsGKSTl~~~L~~~~----~~~~~i~~D~~   56 (207)
T 2qt1_A           17 RGSKTFIIGISGVTNSGKTTLAKNLQKHL----PNCSVISQDDF   56 (207)
T ss_dssp             CSCCCEEEEEEESTTSSHHHHHHHHHTTS----TTEEEEEGGGG
T ss_pred             cCCCCeEEEEECCCCCCHHHHHHHHHHhc----CCcEEEeCCcc
Confidence            46788999999999999999988876532    14667776643

>2c9o_A RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-binding, chromatin regulator, growth regulation, hydrolase, nuclear protein, DNA recombination; HET: ADP; 2.2A {Homo sapiens} PDB: 2xsz_A*

Probab=97.19  E-value=0.00057  Score=62.63  Aligned_cols=81  Identities=20%  Similarity=0.192  Sum_probs=50.4

Q ss_pred             CCCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCHHHHHHcCCCccceeEeCCCCHHHHHHHHHHHh
Q 024705          115 GGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLT  194 (264)
Q Consensus       115 gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~~~~~~~g~~~~~l~~~~~~~~ee~~~~i~~~~  194 (264)
                      .|..++.-++++||||+|||+++..++..+.. ....++++.......                .....+.+...+....
T Consensus        58 ~~~~~~~~iLl~GppGtGKT~la~ala~~l~~-~~~~~~~~~~~~~~~----------------~~~~~~~~~~~f~~a~  120 (456)
T 2c9o_A           58 SKKMAGRAVLLAGPPGTGKTALALAIAQELGS-KVPFCPMVGSEVYST----------------EIKKTEVLMENFRRAI  120 (456)
T ss_dssp             TTCCTTCEEEEECCTTSSHHHHHHHHHHHHCT-TSCEEEEEGGGGCCS----------------SSCHHHHHHHHHHHTE
T ss_pred             hCCCCCCeEEEECCCcCCHHHHHHHHHHHhCC-CceEEEEeHHHHHHH----------------hhhhhHHHHHHHHHHH
Confidence            36666677999999999999999999887532 244555553221111                0111233333333331


Q ss_pred             --hcCCccEEEEcCcccccc
Q 024705          195 --KSGSIDVIVVDSVAALIP  212 (264)
Q Consensus       195 --~~~~~~~vvIDsl~~~~~  212 (264)
                        ....+.++++|.+..+.+
T Consensus       121 ~~~~~~~~il~iDEid~l~~  140 (456)
T 2c9o_A          121 GLRIKETKEVYEGEVTELTP  140 (456)
T ss_dssp             EEEEEEEEEEEEEEEEEEEE
T ss_pred             hhhhcCCcEEEEechhhccc
Confidence              335678999999999885

>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=97.19  E-value=0.0009  Score=58.16  Aligned_cols=81  Identities=15%  Similarity=0.172  Sum_probs=48.0

Q ss_pred             HHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHHhhc---CCeEEEEecCCCCCHHHHHHcCCCccceeEeCCCCHH
Q 024705          108 LDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKL---GGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAE  184 (264)
Q Consensus       108 LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~---g~~v~~~~~e~~~~~~~~~~~g~~~~~l~~~~~~~~e  184 (264)
                      |-..+. .|-  ...++++||+|+|||+++..++......   ...+.+++.+.                    ....++
T Consensus         9 L~~~i~-~~~--~~~~Lf~Gp~G~GKtt~a~~la~~~~~~~~~~~d~~~l~~~~--------------------~~~~id   65 (305)
T 2gno_A            9 LKRIIE-KSE--GISILINGEDLSYPREVSLELPEYVEKFPPKASDVLEIDPEG--------------------ENIGID   65 (305)
T ss_dssp             HHHHHH-TCS--SEEEEEECSSSSHHHHHHHHHHHHHHTSCCCTTTEEEECCSS--------------------SCBCHH
T ss_pred             HHHHHH-CCC--CcEEEEECCCCCCHHHHHHHHHHhCchhhccCCCEEEEcCCc--------------------CCCCHH
Confidence            444444 332  4589999999999999999998753111   11222222110                    023455


Q ss_pred             HHHHHHHHHhh---cCCccEEEEcCccccc
Q 024705          185 NLLSVVDTLTK---SGSIDVIVVDSVAALI  211 (264)
Q Consensus       185 e~~~~i~~~~~---~~~~~~vvIDsl~~~~  211 (264)
                      ++.+.+.....   .++.++++||....+.
T Consensus        66 ~ir~li~~~~~~p~~~~~kvviIdead~lt   95 (305)
T 2gno_A           66 DIRTIKDFLNYSPELYTRKYVIVHDCERMT   95 (305)
T ss_dssp             HHHHHHHHHTSCCSSSSSEEEEETTGGGBC
T ss_pred             HHHHHHHHHhhccccCCceEEEeccHHHhC
Confidence            55555544421   2356899999988775

>3ney_A 55 kDa erythrocyte membrane protein; structural genomics consortium, SGC, 55 kDa erythrocyte MEMB protein; 2.26A {Homo sapiens} SCOP: c.37.1.0

Probab=97.17  E-value=0.00025  Score=57.78  Aligned_cols=27  Identities=7%  Similarity=0.282  Sum_probs=23.7

Q ss_pred             CCCcEEEEEecCCCChHHHHHHHHHHH
Q 024705          118 PKGRIVEIYGREASGKTTLALHVIKEA  144 (264)
Q Consensus       118 ~~G~~~~I~G~~GsGKTtl~~~l~~~~  144 (264)
                      .+|.+++|.||+|+|||||+..++...
T Consensus        17 ~~g~~ivl~GPSGaGKsTL~~~L~~~~   43 (197)
T 3ney_A           17 QGRKTLVLIGASGVGRSHIKNALLSQN   43 (197)
T ss_dssp             CSCCEEEEECCTTSSHHHHHHHHHHHC
T ss_pred             CCCCEEEEECcCCCCHHHHHHHHHhhC
Confidence            478999999999999999999888653

>3cr8_A Sulfate adenylyltranferase, adenylylsulfate kinase; APS kinase, transferase, sulfate metabolism, nucleotide 2 kinase; 2.95A {Thiobacillus denitrificans}

Probab=97.17  E-value=0.00019  Score=67.41  Aligned_cols=41  Identities=29%  Similarity=0.382  Sum_probs=33.8

Q ss_pred             CCCCcEEEEEecCCCChHHHHHHHHHHHhhcCC-eEEEEecC
Q 024705          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGG-YCAYLDVE  157 (264)
Q Consensus       117 l~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~-~v~~~~~e  157 (264)
                      +.+|.++.|+|+|||||||++..++..+...++ .+.+++.+
T Consensus       366 ~~~G~iI~LiG~sGSGKSTLar~La~~L~~~~G~~i~~lDgD  407 (552)
T 3cr8_A          366 ERQGFTVFFTGLSGAGKSTLARALAARLMEMGGRCVTLLDGD  407 (552)
T ss_dssp             GGSCEEEEEEESSCHHHHHHHHHHHHHHHTTCSSCEEEESSH
T ss_pred             cccceEEEEECCCCChHHHHHHHHHHhhcccCCceEEEECCc
Confidence            568999999999999999999999988766554 56667654

>1nn5_A Similar to deoxythymidylate kinase (thymidylate K; P-loop, D4TMP, transferase; HET: 2DT ANP; 1.50A {Homo sapiens} SCOP: c.37.1.1 PDB: 1e2e_A* 1e2d_A* 1e2g_A* 1e2q_A* 1e99_A* 1e9a_A* 1e9b_A* 1nmx_A* 1nmz_A* 1nn0_A* 1nn1_A* 1e2f_A* 1nn3_A* 2xx3_A* 1e9c_A* 1e9d_A* 1e9e_A* 1e98_A* 1nmy_A* 1e9f_A*

Probab=97.17  E-value=0.00051  Score=55.68  Aligned_cols=38  Identities=18%  Similarity=0.351  Sum_probs=31.0

Q ss_pred             CCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEe
Q 024705          118 PKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLD  155 (264)
Q Consensus       118 ~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~  155 (264)
                      .+|.+++|.|++||||||++..++..+...+-.+..+.
T Consensus         7 ~~~~~I~l~G~~GsGKsT~~~~L~~~l~~~~~~v~~~~   44 (215)
T 1nn5_A            7 RRGALIVLEGVDRAGKSTQSRKLVEALCAAGHRAELLR   44 (215)
T ss_dssp             CCCCEEEEEESTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEee
Confidence            36789999999999999999999988766666664443

>2bbw_A Adenylate kinase 4, AK4; nucleotide kinase, nucleotide binding, human, structura genomics, structural genomics consortium, SGC, transferase; HET: GP5; 2.05A {Homo sapiens} PDB: 2ar7_A* 3ndp_A

Probab=97.15  E-value=0.00028  Score=59.04  Aligned_cols=26  Identities=27%  Similarity=0.248  Sum_probs=22.8

Q ss_pred             CCcEEEEEecCCCChHHHHHHHHHHH
Q 024705          119 KGRIVEIYGREASGKTTLALHVIKEA  144 (264)
Q Consensus       119 ~G~~~~I~G~~GsGKTtl~~~l~~~~  144 (264)
                      ++.++.|.|||||||||++..++...
T Consensus        26 ~~~~i~l~G~~GsGKSTl~k~La~~l   51 (246)
T 2bbw_A           26 KLLRAVILGPPGSGKGTVCQRIAQNF   51 (246)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHh
Confidence            46899999999999999999988543

>1qhx_A CPT, protein (chloramphenicol phosphotransferase); kinase, antibiotic resistance, phosphorylation, mononucleoti binding fold; HET: ATP; 2.50A {Streptomyces venezuelae} SCOP: c.37.1.3 PDB: 1grr_A* 1grq_A 1qhs_A* 1qhn_A* 1qhy_A*

Probab=97.15  E-value=0.00029  Score=55.58  Aligned_cols=25  Identities=16%  Similarity=0.300  Sum_probs=22.1

Q ss_pred             CcEEEEEecCCCChHHHHHHHHHHH
Q 024705          120 GRIVEIYGREASGKTTLALHVIKEA  144 (264)
Q Consensus       120 G~~~~I~G~~GsGKTtl~~~l~~~~  144 (264)
                      |.+++|.|+|||||||++..++...
T Consensus         3 ~~~i~l~G~~GsGKST~a~~La~~l   27 (178)
T 1qhx_A            3 TRMIILNGGSSAGKSGIVRCLQSVL   27 (178)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHS
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHhc
Confidence            5789999999999999999988754

>3cm0_A Adenylate kinase; ATP-binding, cytoplasm, nucleotide biosynthesis, nucleotide-binding, transferase, structural genomics; 1.80A {Thermus thermophilus}

Probab=97.15  E-value=0.00025  Score=56.31  Aligned_cols=27  Identities=30%  Similarity=0.357  Sum_probs=23.0

Q ss_pred             CCCcEEEEEecCCCChHHHHHHHHHHH
Q 024705          118 PKGRIVEIYGREASGKTTLALHVIKEA  144 (264)
Q Consensus       118 ~~G~~~~I~G~~GsGKTtl~~~l~~~~  144 (264)
                      .+|.++.|.|+|||||||++..++...
T Consensus         2 ~~g~~I~l~G~~GsGKST~~~~La~~l   28 (186)
T 3cm0_A            2 DVGQAVIFLGPPGAGKGTQASRLAQEL   28 (186)
T ss_dssp             -CEEEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            357889999999999999999988654

>3igf_A ALL4481 protein; two-domained protein consisting of the N-terminal alpha-beta the C-terminal all beta domain., structural genomics; 2.00A {Nostoc SP}

Probab=97.15  E-value=0.0011  Score=59.16  Aligned_cols=36  Identities=17%  Similarity=0.247  Sum_probs=33.7

Q ss_pred             cEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEec
Q 024705          121 RIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDV  156 (264)
Q Consensus       121 ~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~  156 (264)
                      .++.+.|..|+||||++.+++..++..|.+|++++.
T Consensus         3 ~i~~~~gkGG~GKTt~a~~la~~la~~g~~vllvd~   38 (374)
T 3igf_A            3 LILTFLGKSGVARTKIAIAAAKLLASQGKRVLLAGL   38 (374)
T ss_dssp             EEEEEECSBHHHHHHHHHHHHHHHHHTTCCEEEEEC
T ss_pred             EEEEEeCCCCCcHHHHHHHHHHHHHHCCCCeEEEeC
Confidence            467889999999999999999999999999999998

>1um8_A ATP-dependent CLP protease ATP-binding subunit CL; CLPP binding loop, chaperone; HET: ADP; 2.60A {Helicobacter pylori} SCOP: c.37.1.20

Probab=97.14  E-value=0.00084  Score=59.71  Aligned_cols=36  Identities=25%  Similarity=0.168  Sum_probs=28.2

Q ss_pred             CCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEec
Q 024705          118 PKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDV  156 (264)
Q Consensus       118 ~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~  156 (264)
                      .++..++|+||||+|||+++..++..+   +.+++.++.
T Consensus        70 ~~~~~ill~Gp~GtGKT~la~~la~~l---~~~~~~~~~  105 (376)
T 1um8_A           70 LSKSNILLIGPTGSGKTLMAQTLAKHL---DIPIAISDA  105 (376)
T ss_dssp             CCCCCEEEECCTTSSHHHHHHHHHHHT---TCCEEEEEG
T ss_pred             cCCCCEEEECCCCCCHHHHHHHHHHHh---CCCEEEecc
Confidence            345568999999999999999998765   556666654

>1svm_A Large T antigen; AAA+ fold, viral protein; HET: ATP; 1.94A {Simian virus 40} SCOP: c.37.1.20 PDB: 1svl_A* 1svo_A 1n25_A 2h1l_A

Probab=97.13  E-value=0.00037  Score=62.44  Aligned_cols=35  Identities=37%  Similarity=0.449  Sum_probs=29.2

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEE
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAY  153 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~  153 (264)
                      ++++|++++|.||||+||||++..++...   ++.+++
T Consensus       165 ~i~~~~~i~l~G~~GsGKSTl~~~l~~~~---~g~~~~  199 (377)
T 1svm_A          165 NIPKKRYWLFKGPIDSGKTTLAAALLELC---GGKALN  199 (377)
T ss_dssp             CCTTCCEEEEECSTTSSHHHHHHHHHHHH---CCEEEC
T ss_pred             ccCCCCEEEEECCCCCCHHHHHHHHHhhc---CCcEEE
Confidence            79999999999999999999999988743   445443

>1gvn_B Zeta; postsegregational killing system, plasmid; 1.95A {Streptococcus pyogenes} SCOP: c.37.1.21 PDB: 3q8x_B*

Probab=97.13  E-value=0.00046  Score=59.44  Aligned_cols=37  Identities=24%  Similarity=0.339  Sum_probs=28.5

Q ss_pred             CCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecC
Q 024705          118 PKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVE  157 (264)
Q Consensus       118 ~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e  157 (264)
                      .+|.+++|+|||||||||++..++...   +....+++.|
T Consensus        31 ~~~~livl~G~sGsGKSTla~~L~~~~---~~~~~~Is~D   67 (287)
T 1gvn_B           31 ESPTAFLLGGQPGSGKTSLRSAIFEET---QGNVIVIDND   67 (287)
T ss_dssp             SSCEEEEEECCTTSCTHHHHHHHHHHT---TTCCEEECTH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHh---CCCeEEEech
Confidence            457899999999999999999987643   2245667654

>4a8j_A Elongator complex protein 4; transcription; 2.10A {Saccharomyces cerevisiae} PDB: 4ejs_A

Probab=97.12  E-value=0.00017  Score=63.75  Aligned_cols=39  Identities=38%  Similarity=0.464  Sum_probs=34.9

Q ss_pred             CCCccccCcHHHHHHhcCCCCCCCcEEEEEecCCCChHHHHH
Q 024705           97 RGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLAL  138 (264)
Q Consensus        97 ~~~~i~tG~~~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~  138 (264)
                      ....++||+++||.+||-||++.|++++|.|+   |||+++.
T Consensus        17 ~~~~~stG~~~lD~llghgGlp~g~~~li~e~---~~t~~~~   55 (361)
T 4a8j_A           17 SQPTTSTGSADLDSILGHMGLPLGNSVLVEEQ---STTEFHS   55 (361)
T ss_dssp             CCEEECCSCHHHHHHTTSSSEETTCEEEEEEC---SSCCTHH
T ss_pred             CCeeeccCCccHHHHhccCCccCCcEEEEeCC---CCCcHHH
Confidence            35789999999999997579999999999998   8999884

>3kta_A Chromosome segregation protein SMC; structural maintenance of chromosomes, ABC ATPase, CFTR adenylate kinase, AP5A, transferase; HET: AP5; 1.63A {Pyrococcus furiosus} PDB: 1xex_A* 1xew_X*

Probab=97.12  E-value=0.0003  Score=55.77  Aligned_cols=27  Identities=26%  Similarity=0.439  Sum_probs=22.8

Q ss_pred             CCCCcEEEEEecCCCChHHHHHHHHHHH
Q 024705          117 LPKGRIVEIYGREASGKTTLALHVIKEA  144 (264)
Q Consensus       117 l~~G~~~~I~G~~GsGKTtl~~~l~~~~  144 (264)
                      +.+| +++|+|||||||||++..+...+
T Consensus        24 ~~~g-~~~i~G~NGsGKStll~ai~~~l   50 (182)
T 3kta_A           24 FSKG-FTAIVGANGSGKSNIGDAILFVL   50 (182)
T ss_dssp             CCSS-EEEEEECTTSSHHHHHHHHHHHT
T ss_pred             cCCC-cEEEECCCCCCHHHHHHHHHHHH
Confidence            4466 89999999999999988887654

>2wwf_A Thymidilate kinase, putative; transferase, malaria; HET: TMP ADP; 1.89A {Plasmodium falciparum} PDB: 2wwg_A* 2wwh_A* 2wwi_A*

Probab=97.09  E-value=0.00082  Score=54.40  Aligned_cols=40  Identities=20%  Similarity=0.193  Sum_probs=31.5

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEe
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLD  155 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~  155 (264)
                      ...+|.+++|.|++||||||++..++..+...+-.+..+.
T Consensus         6 ~~~~~~~I~l~G~~GsGKST~~~~L~~~l~~~~~~~~~~~   45 (212)
T 2wwf_A            6 DKKKGKFIVFEGLDRSGKSTQSKLLVEYLKNNNVEVKHLY   45 (212)
T ss_dssp             CCBCSCEEEEEESTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             hhhcCCEEEEEcCCCCCHHHHHHHHHHHHHHcCCcEEEEe
Confidence            3557889999999999999999999987765555554433

>1z6t_A APAF-1, apoptotic protease activating factor 1; caspase activation, ADP, nucleotide binding, CARD, apoptosis; HET: ADP; 2.21A {Homo sapiens}

Probab=97.08  E-value=0.00067  Score=63.85  Aligned_cols=101  Identities=17%  Similarity=0.182  Sum_probs=58.5

Q ss_pred             HHHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHH---hhc-CCeEEEEecCCCCCHH-------HHHHcCCCccc
Q 024705          106 LKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEA---QKL-GGYCAYLDVENALDPS-------LAEAMGIDAEN  174 (264)
Q Consensus       106 ~~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~---~~~-g~~v~~~~~e~~~~~~-------~~~~~g~~~~~  174 (264)
                      ..|...+. .+-..+.++.|+|++|+|||||+..++...   ... ...+.|++........       ....++.... 
T Consensus       134 ~~L~~~L~-~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~v~wv~~~~~~~~~~~~~l~~l~~~l~~~~~-  211 (591)
T 1z6t_A          134 NAIQQKLS-KLKGEPGWVTIHGMAGCGKSVLAAEAVRDHSLLEGCFPGGVHWVSVGKQDKSGLLMKLQNLCTRLDQDES-  211 (591)
T ss_dssp             HHHHHHHT-TSTTSCEEEEEECCTTSSHHHHHHHHHCCHHHHHHHCTTCEEEEEEESCCHHHHHHHHHHHHHHHCSSCC-
T ss_pred             HHHHHHHh-cccCCCceEEEEcCCCCCHHHHHHHHHhchhHHHhhCCCceEEEECCCCchHHHHHHHHHHHHHhccccc-
Confidence            34555554 222346799999999999999999987543   111 2458888765442221       1222331100 


Q ss_pred             eeEeCCCCHHHHHHHHHHHhhcC-CccEEEEcCcc
Q 024705          175 LLIAQPDSAENLLSVVDTLTKSG-SIDVIVVDSVA  208 (264)
Q Consensus       175 l~~~~~~~~ee~~~~i~~~~~~~-~~~~vvIDsl~  208 (264)
                      ..-..+.+.++....+....... +.-++|+|.+.
T Consensus       212 ~~~~~~~~~~~~~~~l~~~l~~~~~~~LLVLDdv~  246 (591)
T 1z6t_A          212 FSQRLPLNIEEAKDRLRILMLRKHPRSLLILDDVW  246 (591)
T ss_dssp             SCSSCCCSHHHHHHHHHHHHHHTCTTCEEEEEEEC
T ss_pred             cccCCCCCHHHHHHHHHHHHccCCCCeEEEEeCCC
Confidence            00112345666666666655443 57789999874

>1cp2_A CP2, nitrogenase iron protein; oxidoreductase; 1.93A {Clostridium pasteurianum} SCOP: c.37.1.10

Probab=97.05  E-value=0.00076  Score=56.90  Aligned_cols=39  Identities=21%  Similarity=0.334  Sum_probs=34.7

Q ss_pred             EEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCC
Q 024705          122 IVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENAL  160 (264)
Q Consensus       122 ~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~  160 (264)
                      ++.|.|..|+||||++.+++..++..|.+|+++|.+...
T Consensus         3 vI~vs~KGGvGKTT~a~nLA~~la~~G~~VlliD~D~q~   41 (269)
T 1cp2_A            3 QVAIYGKGGIGKSTTTQNLTSGLHAMGKTIMVVGCDPKA   41 (269)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHHHHTTTCCEEEEEECTTS
T ss_pred             EEEEecCCCCcHHHHHHHHHHHHHHCCCcEEEEcCCCCC
Confidence            456689999999999999999999999999999998654

>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=97.05  E-value=0.00035  Score=60.33  Aligned_cols=44  Identities=14%  Similarity=0.189  Sum_probs=32.3

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcC--C-eEEEEecCCC
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLG--G-YCAYLDVENA  159 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g--~-~v~~~~~e~~  159 (264)
                      .-.++.++.|.|++||||||++..++..+...+  . .+.+++.+.-
T Consensus        27 ~~~~~~ii~I~G~sGsGKSTla~~L~~~l~~~g~~~~~~~iv~~D~f   73 (290)
T 1odf_A           27 GNKCPLFIFFSGPQGSGKSFTSIQIYNHLMEKYGGEKSIGYASIDDF   73 (290)
T ss_dssp             TCCSCEEEEEECCTTSSHHHHHHHHHHHHHHHHGGGSCEEEEEGGGG
T ss_pred             cCCCCeEEEEECCCCCCHHHHHHHHHHHhhhcCCCCceEEEeccccc
Confidence            345788999999999999999999888776543  2 3334366543

>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=97.04  E-value=0.0004  Score=54.20  Aligned_cols=23  Identities=26%  Similarity=0.342  Sum_probs=20.6

Q ss_pred             EEEEEecCCCChHHHHHHHHHHH
Q 024705          122 IVEIYGREASGKTTLALHVIKEA  144 (264)
Q Consensus       122 ~~~I~G~~GsGKTtl~~~l~~~~  144 (264)
                      +++|.|++||||||++..++...
T Consensus         3 ~i~l~G~~GsGKsT~~~~L~~~l   25 (173)
T 3kb2_A            3 LIILEGPDCCFKSTVAAKLSKEL   25 (173)
T ss_dssp             EEEEECSSSSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            68999999999999999988754

>3uk6_A RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding, hydrolase; HET: ADP; 2.95A {Homo sapiens} PDB: 2xsz_D*

Probab=97.03  E-value=0.00058  Score=60.25  Aligned_cols=35  Identities=29%  Similarity=0.393  Sum_probs=29.2

Q ss_pred             HHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHHh
Q 024705          110 LALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQ  145 (264)
Q Consensus       110 ~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~  145 (264)
                      ..+. .|..+|..++|+||||+|||+++..++..+.
T Consensus        61 ~~~~-~~~~~~~~vLl~GppGtGKT~la~~la~~l~   95 (368)
T 3uk6_A           61 EMIR-EGKIAGRAVLIAGQPGTGKTAIAMGMAQALG   95 (368)
T ss_dssp             HHHH-TTCCTTCEEEEEESTTSSHHHHHHHHHHHHC
T ss_pred             HHHH-cCCCCCCEEEEECCCCCCHHHHHHHHHHHhc
Confidence            3344 5667788999999999999999999998774

>1a7j_A Phosphoribulokinase; transferase, calvin cycle; 2.50A {Rhodobacter sphaeroides} SCOP: c.37.1.6

Probab=97.03  E-value=0.00042  Score=59.82  Aligned_cols=42  Identities=14%  Similarity=0.177  Sum_probs=30.9

Q ss_pred             CCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCC
Q 024705          119 KGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENAL  160 (264)
Q Consensus       119 ~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~  160 (264)
                      ++-++.|.|++||||||++..++..+...+..+.+++.+.-.
T Consensus         4 ~~~iIgItG~sGSGKSTva~~L~~~lg~~~~~~~vI~~D~~~   45 (290)
T 1a7j_A            4 KHPIISVTGSSGAGTSTVKHTFDQIFRREGVKAVSIEGDAFH   45 (290)
T ss_dssp             TSCEEEEESCC---CCTHHHHHHHHHHHHTCCEEEEEGGGGB
T ss_pred             CceEEEEECCCCCCHHHHHHHHHHHHhhcCCCeeEeecchhh
Confidence            456899999999999999999987665556668888877654

>4e22_A Cytidylate kinase; P-loop, CMP/ATP binding, transferase; 2.32A {Yersinia pseudotuberculosis}

Probab=97.02  E-value=0.00038  Score=58.69  Aligned_cols=26  Identities=19%  Similarity=0.346  Sum_probs=23.3

Q ss_pred             CCCcEEEEEecCCCChHHHHHHHHHH
Q 024705          118 PKGRIVEIYGREASGKTTLALHVIKE  143 (264)
Q Consensus       118 ~~G~~~~I~G~~GsGKTtl~~~l~~~  143 (264)
                      .+|.++.|.||+||||||++..++..
T Consensus        25 ~~g~~I~I~G~~GsGKSTl~k~La~~   50 (252)
T 4e22_A           25 AIAPVITVDGPSGAGKGTLCKALAES   50 (252)
T ss_dssp             TTSCEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHh
Confidence            57899999999999999999988853

>2p5t_B PEZT; postsegregational killing system, phosphoryltransferase, HEL helix motif, transcription regulator; 3.20A {Streptococcus pneumoniae}

Probab=97.00  E-value=0.00039  Score=58.56  Aligned_cols=38  Identities=24%  Similarity=0.253  Sum_probs=29.4

Q ss_pred             CCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCC
Q 024705          118 PKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVEN  158 (264)
Q Consensus       118 ~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~  158 (264)
                      .++.+++|.|+|||||||++..++...   +..+.+++.+.
T Consensus        30 ~~~~~i~l~G~~GsGKSTla~~L~~~l---~~~~~~~~~D~   67 (253)
T 2p5t_B           30 KQPIAILLGGQSGAGKTTIHRIKQKEF---QGNIVIIDGDS   67 (253)
T ss_dssp             SSCEEEEEESCGGGTTHHHHHHHHHHT---TTCCEEECGGG
T ss_pred             cCCeEEEEECCCCCCHHHHHHHHHHhc---CCCcEEEecHH
Confidence            456899999999999999999988754   33456666654

>2pbr_A DTMP kinase, thymidylate kinase; transferase, nucleotide biosynthesis, TMP-binding, A binding, structural genomics, NPPSFA; 1.96A {Aquifex aeolicus}

Probab=96.99  E-value=0.00085  Score=53.34  Aligned_cols=34  Identities=24%  Similarity=0.351  Sum_probs=27.4

Q ss_pred             EEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEe
Q 024705          122 IVEIYGREASGKTTLALHVIKEAQKLGGYCAYLD  155 (264)
Q Consensus       122 ~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~  155 (264)
                      +++|.|++||||||++..++..+...|..++..+
T Consensus         2 ~I~l~G~~GsGKsT~~~~L~~~l~~~g~~~i~~d   35 (195)
T 2pbr_A            2 LIAFEGIDGSGKTTQAKKLYEYLKQKGYFVSLYR   35 (195)
T ss_dssp             EEEEECSTTSCHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEe
Confidence            5889999999999999999887765566655444

>3llm_A ATP-dependent RNA helicase A; alpha-beta-alpha, structural genomics, structural genomics consortium, SGC, activator, ATP-binding, DNA-binding; HET: ADP; 2.80A {Homo sapiens}

Probab=96.99  E-value=0.0038  Score=51.64  Aligned_cols=92  Identities=18%  Similarity=0.138  Sum_probs=49.7

Q ss_pred             CCCCcEEEEEecCCCChHHHHHHHHHHHh-hcCC----eEEEEecCCCCCHH----HHHHcCCCccc--------eeEe-
Q 024705          117 LPKGRIVEIYGREASGKTTLALHVIKEAQ-KLGG----YCAYLDVENALDPS----LAEAMGIDAEN--------LLIA-  178 (264)
Q Consensus       117 l~~G~~~~I~G~~GsGKTtl~~~l~~~~~-~~g~----~v~~~~~e~~~~~~----~~~~~g~~~~~--------l~~~-  178 (264)
                      +..|+.+++.||+||||||++...+.... ..+.    ++++..........    .+..++.....        -... 
T Consensus        73 i~~g~~~~i~g~TGsGKTt~~~~~~~~~~~~~~~~~~~~~l~~~p~~~la~q~~~~~~~~~~~~~~~~~g~~~~~~~~~~  152 (235)
T 3llm_A           73 ISQNSVVIIRGATGCGKTTQVPQFILDDFIQNDRAAECNIVVTQPRRISAVSVAERVAFERGEEPGKSCGYSVRFESILP  152 (235)
T ss_dssp             HHHCSEEEEECCTTSSHHHHHHHHHHHHHHHTTCGGGCEEEEEESSHHHHHHHHHHHHHTTTCCTTSSEEEEETTEEECC
T ss_pred             HhcCCEEEEEeCCCCCcHHhHHHHHhcchhhcCCCCceEEEEeccchHHHHHHHHHHHHHhccccCceEEEeechhhccC
Confidence            34578999999999999987766665433 2222    56665432111111    12222222110        0000 


Q ss_pred             -C-----CCCHHHHHHHHHHHhhcCCccEEEEcCcccc
Q 024705          179 -Q-----PDSAENLLSVVDTLTKSGSIDVIVVDSVAAL  210 (264)
Q Consensus       179 -~-----~~~~ee~~~~i~~~~~~~~~~~vvIDsl~~~  210 (264)
                       .     ..+...+...+...  -.+++++|+|....+
T Consensus       153 ~~~~~Ivv~Tpg~l~~~l~~~--l~~~~~lVlDEah~~  188 (235)
T 3llm_A          153 RPHASIMFCTVGVLLRKLEAG--IRGISHVIVDEIHER  188 (235)
T ss_dssp             CSSSEEEEEEHHHHHHHHHHC--CTTCCEEEECCTTSC
T ss_pred             CCCCeEEEECHHHHHHHHHhh--hcCCcEEEEECCccC
Confidence             0     12455555555442  357899999998764

>1y63_A LMAJ004144AAA protein; structural genomics, protein structure initiative, PSI, SGPP structural genomics of pathogenic protozoa consortium; HET: ADP; 1.70A {Leishmania major} SCOP: c.37.1.1

Probab=96.97  E-value=0.00056  Score=54.59  Aligned_cols=37  Identities=35%  Similarity=0.441  Sum_probs=27.8

Q ss_pred             CCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecC
Q 024705          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVE  157 (264)
Q Consensus       117 l~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e  157 (264)
                      .++|..++|+|++||||||++..++..+  .|  ..+++.+
T Consensus         7 ~~~~~~I~l~G~~GsGKSTv~~~La~~l--~g--~~~id~d   43 (184)
T 1y63_A            7 QPKGINILITGTPGTGKTSMAEMIAAEL--DG--FQHLEVG   43 (184)
T ss_dssp             CCSSCEEEEECSTTSSHHHHHHHHHHHS--TT--EEEEEHH
T ss_pred             CCCCCEEEEECCCCCCHHHHHHHHHHhc--CC--CEEeeHH
Confidence            4567899999999999999998887642  12  4566644

>3sop_A Neuronal-specific septin-3; hydrolase; HET: GDP; 2.88A {Homo sapiens}

Probab=96.97  E-value=0.00043  Score=59.12  Aligned_cols=32  Identities=19%  Similarity=0.175  Sum_probs=21.4

Q ss_pred             EEEEEecCCCChHHHHHHHHHHHhhcCCeEEE
Q 024705          122 IVEIYGREASGKTTLALHVIKEAQKLGGYCAY  153 (264)
Q Consensus       122 ~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~  153 (264)
                      .+.|.||||+|||||+..++....+..+.+.+
T Consensus         4 ~v~lvG~nGaGKSTLln~L~g~~~~~~G~i~~   35 (270)
T 3sop_A            4 NIMVVGQSGLGKSTLVNTLFKSQVSRKASSWN   35 (270)
T ss_dssp             EEEEEESSSSSHHHHHHHHHHHHC--------
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCCCCCcccc
Confidence            47899999999999999988877665555544

>3euj_A Chromosome partition protein MUKB, linker; MUKB, MUKE, chromosome condensation, condensin, SMC, N subunit, ABC-type ATPase, WHD, ATP-binding; HET: AGS; 3.10A {Haemophilus ducreyi} PDB: 3euk_A*

Probab=96.97  E-value=0.00031  Score=64.91  Aligned_cols=36  Identities=11%  Similarity=0.140  Sum_probs=29.2

Q ss_pred             CCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEE
Q 024705          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAY  153 (264)
Q Consensus       117 l~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~  153 (264)
                      +++ +++.|.||||||||||+..++....+..+.+.+
T Consensus        27 i~~-e~~~liG~nGsGKSTLl~~l~Gl~~p~~G~I~~   62 (483)
T 3euj_A           27 FDE-LVTTLSGGNGAGKSTTMAGFVTALIPDLTLLNF   62 (483)
T ss_dssp             CCS-SEEEEECCTTSSHHHHHHHHHHHHCCCTTTCCC
T ss_pred             Ecc-ceEEEECCCCCcHHHHHHHHhcCCCCCCCEEEE
Confidence            677 999999999999999999888876655555444

>3io3_A DEHA2D07832P; chaperone, membrane traffic, ATPase; HET: ADP; 1.80A {Debaryomyces hansenii}

Probab=96.96  E-value=0.0013  Score=58.15  Aligned_cols=58  Identities=16%  Similarity=0.154  Sum_probs=45.0

Q ss_pred             HHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHHh--hcCCeEEEEecCCCCCHHHHHHcCC
Q 024705          108 LDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQ--KLGGYCAYLDVENALDPSLAEAMGI  170 (264)
Q Consensus       108 LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~--~~g~~v~~~~~e~~~~~~~~~~~g~  170 (264)
                      |+.++. .  +.-.++++.|..|+||||++.+++..++  ..|.+|++++.+.  .......+|.
T Consensus         9 L~~~l~-~--~~~~i~~~~gkGGvGKTt~a~~lA~~la~~~~g~~vllid~D~--~~~l~~~~~~   68 (348)
T 3io3_A            9 LESIVQ-H--DSLKWIFVGGKGGVGKTTTSSSVAVQLALAQPNEQFLLISTDP--AHNLSDAFCQ   68 (348)
T ss_dssp             SHHHHT-C--TTCSEEEEECSTTSSHHHHHHHHHHHHHHHCTTSCEEEEECCS--SCHHHHHHTS
T ss_pred             HHHHhc-C--CCcEEEEEeCCCCCcHHHHHHHHHHHHHHhcCCCeEEEEECCC--CCChHHHhcc
Confidence            566665 2  2347999999999999999999999999  8899999999983  3334444553

>2oap_1 GSPE-2, type II secretion system protein; hexameric ATPase, hydrolase; HET: ANP; 2.95A {Archaeoglobus fulgidus} PDB: 2oaq_1

Probab=96.96  E-value=0.00028  Score=65.73  Aligned_cols=38  Identities=18%  Similarity=0.134  Sum_probs=29.1

Q ss_pred             CCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEe
Q 024705          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLD  155 (264)
Q Consensus       117 l~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~  155 (264)
                      +++|.+++|+||+||||||++..++..+ +...+++.+.
T Consensus       257 v~~g~~i~I~GptGSGKTTlL~aL~~~i-~~~~giitie  294 (511)
T 2oap_1          257 IEHKFSAIVVGETASGKTTTLNAIMMFI-PPDAKVVSIE  294 (511)
T ss_dssp             HHTTCCEEEEESTTSSHHHHHHHHGGGS-CTTCCEEEEE
T ss_pred             HhCCCEEEEECCCCCCHHHHHHHHHhhC-CCCCCEEEEc
Confidence            3688999999999999999988877655 4444555554

>3t61_A Gluconokinase; PSI-biology, structural genomics, protein structure initiati YORK structural genomics research consortium, nysgrc; 2.20A {Sinorhizobium meliloti}

Probab=96.96  E-value=0.00052  Score=55.44  Aligned_cols=36  Identities=14%  Similarity=0.332  Sum_probs=27.8

Q ss_pred             CcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCC
Q 024705          120 GRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENAL  160 (264)
Q Consensus       120 G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~  160 (264)
                      ..+++|.|++||||||++..++...   |  ..+++.+.-.
T Consensus        18 ~~~I~l~G~~GsGKSTla~~L~~~l---g--~~~i~~d~~~   53 (202)
T 3t61_A           18 PGSIVVMGVSGSGKSSVGEAIAEAC---G--YPFIEGDALH   53 (202)
T ss_dssp             SSCEEEECSTTSCHHHHHHHHHHHH---T--CCEEEGGGGC
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHh---C--CEEEeCCcCc
Confidence            4689999999999999999988765   2  4466665543

>3qxc_A Dethiobiotin synthetase; DTBS, structural genomics, ATP BIND biology, protein structure initiative, midwest center for S genomics, MCSG; HET: ATP; 1.34A {Helicobacter pylori} PDB: 3mle_A* 3qxh_A* 3qxj_A* 3qxs_A* 3qxx_A* 3qy0_A* 2qmo_A

Probab=96.96  E-value=0.008  Score=50.38  Aligned_cols=90  Identities=20%  Similarity=0.314  Sum_probs=58.4

Q ss_pred             CcEEEEEec-CCCChHHHHHHHHHHHhhcCCeEEEEe-----cCC----CCCH-HHH---HHc--CCCccce--eEe-C-
Q 024705          120 GRIVEIYGR-EASGKTTLALHVIKEAQKLGGYCAYLD-----VEN----ALDP-SLA---EAM--GIDAENL--LIA-Q-  179 (264)
Q Consensus       120 G~~~~I~G~-~GsGKTtl~~~l~~~~~~~g~~v~~~~-----~e~----~~~~-~~~---~~~--g~~~~~l--~~~-~-  179 (264)
                      ...+.|+|. +|+|||+++..++..+..+|.+|.||-     ...    ..+. ..+   +++  |.+.+++  +.+ . 
T Consensus        21 ~k~i~ItgT~t~vGKT~vs~gL~~~L~~~G~~V~~fKPv~~g~~~~~~~~~D~~~~~~~~~~~~~g~~~~~~~p~~~~~p  100 (242)
T 3qxc_A           21 GHMLFISATNTNAGKTTCARLLAQYCNACGVKTILLKPIETGVNDAINHSSDAHLFLQDNRLLDRSLTLKDISFYRYHKV  100 (242)
T ss_dssp             CEEEEEEESSTTSSHHHHHHHHHHHHHHTTCCEEEECCEECSCCTTTCCCSHHHHHHHHHHTTCTTCCHHHHCCEECSSS
T ss_pred             CcEEEEEeCCCCCcHHHHHHHHHHHHHhCCCceEEEeeeecCCcccCCCCchHHHHHHHHHHHhCCCChHHeeeEEECCC
Confidence            456788887 999999999999999999999999995     221    1111 221   222  4544322  222 1 


Q ss_pred             --------------CCCHHHHHHHHHHHhhcCCccEEEEcCccccc
Q 024705          180 --------------PDSAENLLSVVDTLTKSGSIDVIVVDSVAALI  211 (264)
Q Consensus       180 --------------~~~~ee~~~~i~~~~~~~~~~~vvIDsl~~~~  211 (264)
                                    ....+++.+.+..+.  .+.++++||....+.
T Consensus       101 ~sp~~aa~~~g~~~~i~~~~I~~~~~~l~--~~~D~vlIEGagGl~  144 (242)
T 3qxc_A          101 SAPLIAQQEEDPNAPIDTDNLTQRLHNFT--KTYDLVIVEGAGGLC  144 (242)
T ss_dssp             SCHHHHHHHHCTTCCCCHHHHHHHHHHGG--GTCSEEEEECCSCTT
T ss_pred             CChHHHHHHcCCCCcCCHHHHHHHHHHHH--hcCCEEEEECCCCcc
Confidence                          123455555555542  478999999988877

>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=96.95  E-value=0.003  Score=54.82  Aligned_cols=35  Identities=26%  Similarity=0.334  Sum_probs=28.9

Q ss_pred             cEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCC
Q 024705          121 RIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVEN  158 (264)
Q Consensus       121 ~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~  158 (264)
                      .+++|+||+|+|||+|+..++..+.   ..++|++...
T Consensus        31 ~~v~i~G~~G~GKT~L~~~~~~~~~---~~~~~~~~~~   65 (357)
T 2fna_A           31 PITLVLGLRRTGKSSIIKIGINELN---LPYIYLDLRK   65 (357)
T ss_dssp             SEEEEEESTTSSHHHHHHHHHHHHT---CCEEEEEGGG
T ss_pred             CcEEEECCCCCCHHHHHHHHHHhcC---CCEEEEEchh
Confidence            5999999999999999999987653   3478888654

>2afh_E Nitrogenase iron protein 1; nitrogen fixation, iron-sulfur, metal-binding, molybdenum, oxidoreductase; HET: HCA CFN CLF PGE PG4 P6G 1PE; 2.10A {Azotobacter vinelandii} SCOP: c.37.1.10 PDB: 1g1m_A 1g5p_A 1m1y_E* 1m34_E* 1n2c_E* 1nip_A* 1fp6_A* 2afi_E* 2afk_E* 2nip_A 1de0_A 1xcp_A* 1xdb_A 1xd8_A 1xd9_A* 1g20_E* 1g21_E* 2c8v_A* 1rw4_A

Probab=96.95  E-value=0.001  Score=56.83  Aligned_cols=39  Identities=18%  Similarity=0.352  Sum_probs=34.9

Q ss_pred             EEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCC
Q 024705          122 IVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENAL  160 (264)
Q Consensus       122 ~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~  160 (264)
                      ++.|.|..|+||||++.+++..++..|.+|+++|.+...
T Consensus         4 vIavs~KGGvGKTT~a~nLA~~La~~G~rVlliD~D~q~   42 (289)
T 2afh_E            4 QCAIYGKGGIGKSTTTQNLVAALAEMGKKVMIVGCDPKA   42 (289)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHHHHHTTCCEEEEEECSSS
T ss_pred             EEEEeCCCcCcHHHHHHHHHHHHHHCCCeEEEEecCCCC
Confidence            566689999999999999999999999999999998653

>2c95_A Adenylate kinase 1; transferase, AP4A, nucleotide kinase, transferase ATP-bindi; HET: B4P; 1.71A {Homo sapiens} PDB: 1z83_A* 3adk_A

Probab=96.95  E-value=0.00056  Score=54.60  Aligned_cols=26  Identities=27%  Similarity=0.386  Sum_probs=23.0

Q ss_pred             CCcEEEEEecCCCChHHHHHHHHHHH
Q 024705          119 KGRIVEIYGREASGKTTLALHVIKEA  144 (264)
Q Consensus       119 ~G~~~~I~G~~GsGKTtl~~~l~~~~  144 (264)
                      ++.+++|.|++||||||++..++...
T Consensus         8 ~~~~I~l~G~~GsGKsT~~~~La~~l   33 (196)
T 2c95_A            8 KTNIIFVVGGPGSGKGTQCEKIVQKY   33 (196)
T ss_dssp             TSCEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHh
Confidence            56799999999999999999988754

>4ag6_A VIRB4 ATPase, type IV secretory pathway VIRB4 components-like P; hydrolase, type IV secretion, conjugation; 2.35A {Thermoanaerobacter pseudethanolicus} PDB: 4ag5_A

Probab=96.94  E-value=0.001  Score=59.53  Aligned_cols=42  Identities=17%  Similarity=0.165  Sum_probs=35.5

Q ss_pred             CCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCC
Q 024705          118 PKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENA  159 (264)
Q Consensus       118 ~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~  159 (264)
                      ..+..+.|.|++|+||||++..++......|.++++++.+..
T Consensus        33 ~~~~~~~i~G~~G~GKs~~~~~~~~~~~~~~~~~~~~D~~~~   74 (392)
T 4ag6_A           33 RTNSNWTILAKPGAGKSFTAKMLLLREYMQGSRVIIIDPERE   74 (392)
T ss_dssp             BCCCCEEEECCTTSSHHHHHHHHHHHHHTTTCCEEEEESSCC
T ss_pred             cccCceEEEcCCCCCHHHHHHHHHHHHHHCCCEEEEEeCCcC
Confidence            356678999999999999999999988888888888886543

>3trf_A Shikimate kinase, SK; amino acid biosynthesis, transferase; 2.60A {Coxiella burnetii}

Probab=96.94  E-value=0.00059  Score=54.13  Aligned_cols=25  Identities=20%  Similarity=0.219  Sum_probs=22.2

Q ss_pred             CcEEEEEecCCCChHHHHHHHHHHH
Q 024705          120 GRIVEIYGREASGKTTLALHVIKEA  144 (264)
Q Consensus       120 G~~~~I~G~~GsGKTtl~~~l~~~~  144 (264)
                      +..++|.|++||||||++..++..+
T Consensus         5 ~~~i~l~G~~GsGKst~a~~La~~l   29 (185)
T 3trf_A            5 LTNIYLIGLMGAGKTSVGSQLAKLT   29 (185)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHh
Confidence            5689999999999999999998755

>3iij_A Coilin-interacting nuclear ATPase protein; alpha and beta proteins (A/B), protein binding, transferase, phosphotransferase; HET: ADP; 1.76A {Homo sapiens} SCOP: c.37.1.1 PDB: 3iik_A 3iil_A* 3iim_A* 1rkb_A

Probab=96.93  E-value=0.00058  Score=54.03  Aligned_cols=28  Identities=21%  Similarity=0.204  Sum_probs=23.8

Q ss_pred             CCCCcEEEEEecCCCChHHHHHHHHHHH
Q 024705          117 LPKGRIVEIYGREASGKTTLALHVIKEA  144 (264)
Q Consensus       117 l~~G~~~~I~G~~GsGKTtl~~~l~~~~  144 (264)
                      +.++.+++|.|++||||||++..++...
T Consensus         8 ~~~~~~i~i~G~~GsGKst~~~~l~~~~   35 (180)
T 3iij_A            8 FMLLPNILLTGTPGVGKTTLGKELASKS   35 (180)
T ss_dssp             TCCCCCEEEECSTTSSHHHHHHHHHHHH
T ss_pred             cccCCeEEEEeCCCCCHHHHHHHHHHHh
Confidence            3457789999999999999999888754

>1ly1_A Polynucleotide kinase; PNK, phosphatase, transferase; 2.00A {Enterobacteria phage T4} SCOP: c.37.1.1

Probab=96.93  E-value=0.00049  Score=54.11  Aligned_cols=32  Identities=25%  Similarity=0.255  Sum_probs=24.5

Q ss_pred             cEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEec
Q 024705          121 RIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDV  156 (264)
Q Consensus       121 ~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~  156 (264)
                      .+++|.|+|||||||++..++..    .....+++.
T Consensus         3 ~~I~i~G~~GsGKST~a~~L~~~----~~~~~~i~~   34 (181)
T 1ly1_A            3 KIILTIGCPGSGKSTWAREFIAK----NPGFYNINR   34 (181)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHH----STTEEEECH
T ss_pred             eEEEEecCCCCCHHHHHHHHHhh----cCCcEEecH
Confidence            47899999999999999988762    123556664

>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=96.92  E-value=0.00073  Score=52.50  Aligned_cols=19  Identities=32%  Similarity=0.457  Sum_probs=17.8

Q ss_pred             EEEEEecCCCChHHHHHHH
Q 024705          122 IVEIYGREASGKTTLALHV  140 (264)
Q Consensus       122 ~~~I~G~~GsGKTtl~~~l  140 (264)
                      ++.|.|+|||||||++..+
T Consensus         3 ~I~l~G~~GsGKsT~a~~L   21 (179)
T 3lw7_A            3 VILITGMPGSGKSEFAKLL   21 (179)
T ss_dssp             EEEEECCTTSCHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            6899999999999999988

>2f1r_A Molybdopterin-guanine dinucleotide biosynthesis protein B (MOBB); structural genomics, PSI, protein structure initiative; 2.10A {Archaeoglobus fulgidus}

Probab=96.91  E-value=0.00056  Score=54.35  Aligned_cols=28  Identities=36%  Similarity=0.468  Sum_probs=24.8

Q ss_pred             cEEEEEecCCCChHHHHHHHHHHHhhcC
Q 024705          121 RIVEIYGREASGKTTLALHVIKEAQKLG  148 (264)
Q Consensus       121 ~~~~I~G~~GsGKTtl~~~l~~~~~~~g  148 (264)
                      +++.|.|++|||||||+..++....+.|
T Consensus         3 ~~v~IvG~SGsGKSTL~~~L~~~~~~~g   30 (171)
T 2f1r_A            3 LILSIVGTSDSGKTTLITRMMPILRERG   30 (171)
T ss_dssp             CEEEEEESCHHHHHHHHHHHHHHHHHTT
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhhhcC
Confidence            4789999999999999999998887765

>1cke_A CK, MSSA, protein (cytidine monophosphate kinase); nucleotide monophosphate kinase,, transferase; 1.75A {Escherichia coli} SCOP: c.37.1.1 PDB: 1kdo_A* 1kdp_A* 1kdr_A* 1kdt_A* 2cmk_A* 2fem_A 2feo_A*

Probab=96.91  E-value=0.00068  Score=55.54  Aligned_cols=25  Identities=24%  Similarity=0.375  Sum_probs=21.8

Q ss_pred             CcEEEEEecCCCChHHHHHHHHHHH
Q 024705          120 GRIVEIYGREASGKTTLALHVIKEA  144 (264)
Q Consensus       120 G~~~~I~G~~GsGKTtl~~~l~~~~  144 (264)
                      +.++.|.||+||||||++..++...
T Consensus         5 ~~~i~i~G~~GsGKSTl~~~L~~~~   29 (227)
T 1cke_A            5 APVITIDGPSGAGKGTLCKAMAEAL   29 (227)
T ss_dssp             SCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHh
Confidence            4689999999999999999887754

>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=96.90  E-value=0.00034  Score=56.77  Aligned_cols=33  Identities=27%  Similarity=0.353  Sum_probs=27.1

Q ss_pred             EEEEEecCCCChHHHHHHHHHHHhhcCCeEEEE
Q 024705          122 IVEIYGREASGKTTLALHVIKEAQKLGGYCAYL  154 (264)
Q Consensus       122 ~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~  154 (264)
                      ++.|.|++||||||++..++..+...|..+.++
T Consensus         2 ~I~i~G~~GsGKsTl~~~L~~~l~~~g~~v~~~   34 (214)
T 1gtv_A            2 LIAIEGVDGAGKRTLVEKLSGAFRAAGRSVATL   34 (214)
T ss_dssp             EEEEEEEEEEEHHHHHHHHHHHHHEEEEEEEEE
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHhcCCeEEEE
Confidence            688999999999999999998876556555544

>1in4_A RUVB, holliday junction DNA helicase RUVB; AAA+-class ATPase, winged-helix domain, ATP hydrolysis, walker A, walker B, sensor 1, sensor 2; HET: ADP; 1.60A {Thermotoga maritima} SCOP: a.4.5.11 c.37.1.20 PDB: 1in5_A* 1in6_A* 1in8_A* 1in7_A* 1j7k_A*

Probab=96.89  E-value=0.00056  Score=60.04  Aligned_cols=24  Identities=38%  Similarity=0.338  Sum_probs=21.9

Q ss_pred             cEEEEEecCCCChHHHHHHHHHHH
Q 024705          121 RIVEIYGREASGKTTLALHVIKEA  144 (264)
Q Consensus       121 ~~~~I~G~~GsGKTtl~~~l~~~~  144 (264)
                      ..++|+||||+||||++..++..+
T Consensus        52 ~~~ll~Gp~G~GKTTLa~~ia~~l   75 (334)
T 1in4_A           52 DHVLLAGPPGLGKTTLAHIIASEL   75 (334)
T ss_dssp             CCEEEESSTTSSHHHHHHHHHHHH
T ss_pred             CeEEEECCCCCcHHHHHHHHHHHh
Confidence            679999999999999999998876

>1tev_A UMP-CMP kinase; ploop, NMP binding region, LID region, conformational changes, transferase; 2.10A {Homo sapiens} SCOP: c.37.1.1

Probab=96.89  E-value=0.00064  Score=54.05  Aligned_cols=26  Identities=23%  Similarity=0.356  Sum_probs=21.9

Q ss_pred             CCcEEEEEecCCCChHHHHHHHHHHH
Q 024705          119 KGRIVEIYGREASGKTTLALHVIKEA  144 (264)
Q Consensus       119 ~G~~~~I~G~~GsGKTtl~~~l~~~~  144 (264)
                      ++.+++|.|++||||||++..++...
T Consensus         2 ~~~~I~l~G~~GsGKsT~a~~L~~~~   27 (196)
T 1tev_A            2 KPLVVFVLGGPGAGKGTQCARIVEKY   27 (196)
T ss_dssp             -CEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CceEEEEECCCCCCHHHHHHHHHHHh
Confidence            35689999999999999999887654

>3ea0_A ATPase, para family; alpha-beta-alpha sandwich, structural genomics, PSI-2, prote structure initiative; HET: ATP; 2.20A {Chlorobium tepidum}

Probab=96.89  E-value=0.0012  Score=54.60  Aligned_cols=41  Identities=10%  Similarity=0.095  Sum_probs=34.9

Q ss_pred             CCcEEEEE-ecCCCChHHHHHHHHHHHhhc-CCeEEEEecCCC
Q 024705          119 KGRIVEIY-GREASGKTTLALHVIKEAQKL-GGYCAYLDVENA  159 (264)
Q Consensus       119 ~G~~~~I~-G~~GsGKTtl~~~l~~~~~~~-g~~v~~~~~e~~  159 (264)
                      .+.++.++ +..|+||||++.+++..++.. |.+|+++|.+..
T Consensus         3 ~~~vI~v~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~   45 (245)
T 3ea0_A            3 AKRVFGFVSAKGGDGGSCIAANFAFALSQEPDIHVLAVDISLP   45 (245)
T ss_dssp             CCEEEEEEESSTTSSHHHHHHHHHHHHTTSTTCCEEEEECCTT
T ss_pred             CCeEEEEECCCCCcchHHHHHHHHHHHHhCcCCCEEEEECCCC
Confidence            35566666 458999999999999999998 999999999865

>4b3f_X DNA-binding protein smubp-2; hydrolase, helicase; 2.50A {Homo sapiens} PDB: 4b3g_A

Probab=96.88  E-value=0.00066  Score=64.96  Aligned_cols=42  Identities=26%  Similarity=0.267  Sum_probs=36.2

Q ss_pred             CCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCC
Q 024705          118 PKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENA  159 (264)
Q Consensus       118 ~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~  159 (264)
                      ....+.+|.||||+|||+++..++..+..++.+++....-..
T Consensus       203 ~~~~~~lI~GPPGTGKT~ti~~~I~~l~~~~~~ILv~a~TN~  244 (646)
T 4b3f_X          203 SQKELAIIHGPPGTGKTTTVVEIILQAVKQGLKVLCCAPSNI  244 (646)
T ss_dssp             HCSSEEEEECCTTSCHHHHHHHHHHHHHHTTCCEEEEESSHH
T ss_pred             cCCCceEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEcCchH
Confidence            345699999999999999999999999999999988876543

>3zvl_A Bifunctional polynucleotide phosphatase/kinase; hydrolase-transferase complex, base excision repair, BER, non-homologous END-joining, NHEJ; 1.65A {Mus musculus} PDB: 3zvm_A* 3zvn_A* 1yj5_A 3u7e_B* 3u7f_B* 3u7h_B* 3u7g_A*

Probab=96.88  E-value=0.0023  Score=57.91  Aligned_cols=25  Identities=24%  Similarity=0.365  Sum_probs=21.9

Q ss_pred             CCCcEEEEEecCCCChHHHHHHHHH
Q 024705          118 PKGRIVEIYGREASGKTTLALHVIK  142 (264)
Q Consensus       118 ~~G~~~~I~G~~GsGKTtl~~~l~~  142 (264)
                      ....+++|+|+|||||||++..++.
T Consensus       256 ~~~~lIil~G~pGSGKSTla~~L~~  280 (416)
T 3zvl_A          256 PNPEVVVAVGFPGAGKSTFIQEHLV  280 (416)
T ss_dssp             SSCCEEEEESCTTSSHHHHHHHHTG
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHH
Confidence            3568999999999999999988765

>2yv5_A YJEQ protein; hydrolase, GTPase, permutation, structural genomics, NPPSFA, national project on protein structural and functional analyses; HET: GDP; 1.90A {Aquifex aeolicus}

Probab=96.88  E-value=0.00034  Score=60.70  Aligned_cols=36  Identities=14%  Similarity=0.131  Sum_probs=26.8

Q ss_pred             CCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEE
Q 024705          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAY  153 (264)
Q Consensus       117 l~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~  153 (264)
                      +..|.++.|.||||+|||||+..++ ......+.+.+
T Consensus       162 ~l~G~i~~l~G~sG~GKSTLln~l~-~~~~~~G~i~~  197 (302)
T 2yv5_A          162 YLEGFICILAGPSGVGKSSILSRLT-GEELRTQEVSE  197 (302)
T ss_dssp             HTTTCEEEEECSTTSSHHHHHHHHH-SCCCCCSCC--
T ss_pred             hccCcEEEEECCCCCCHHHHHHHHH-HhhCccccccc
Confidence            3458899999999999999999988 55444555544

>3umf_A Adenylate kinase; rossmann fold, transferase; 2.05A {Schistosoma mansoni}

Probab=96.88  E-value=0.00076  Score=55.75  Aligned_cols=30  Identities=23%  Similarity=0.390  Sum_probs=26.1

Q ss_pred             CCCCCCcEEEEEecCCCChHHHHHHHHHHH
Q 024705          115 GGLPKGRIVEIYGREASGKTTLALHVIKEA  144 (264)
Q Consensus       115 gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~  144 (264)
                      .-+.+..+++|.|||||||+|.+..++...
T Consensus        24 ~~~~k~kiI~llGpPGsGKgTqa~~L~~~~   53 (217)
T 3umf_A           24 QKLAKAKVIFVLGGPGSGKGTQCEKLVQKF   53 (217)
T ss_dssp             CCTTSCEEEEEECCTTCCHHHHHHHHHHHH
T ss_pred             hhccCCcEEEEECCCCCCHHHHHHHHHHHH
Confidence            456788899999999999999999988764

>1r6b_X CLPA protein; AAA+, N-terminal domain, CLPS, crystal, binding mechanism, hydrolase; HET: ADP; 2.25A {Escherichia coli} SCOP: a.174.1.1 c.37.1.20 c.37.1.20 PDB: 1ksf_X*

Probab=96.87  E-value=0.0013  Score=64.08  Aligned_cols=81  Identities=15%  Similarity=0.158  Sum_probs=47.5

Q ss_pred             CCCcEEEEEecCCCChHHHHHHHHHHHhhc-------CCeEEEEecCCCCCHHHHHHcCCCccceeEeCCCCHHHHHHHH
Q 024705          118 PKGRIVEIYGREASGKTTLALHVIKEAQKL-------GGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVV  190 (264)
Q Consensus       118 ~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~-------g~~v~~~~~e~~~~~~~~~~~g~~~~~l~~~~~~~~ee~~~~i  190 (264)
                      .++..++|+||||+|||+++..++..+...       +..+..++.....       .|..       .....++.+..+
T Consensus       205 ~~~~~vlL~G~~GtGKT~la~~la~~l~~~~v~~~~~~~~~~~~~~~~l~-------~~~~-------~~g~~e~~l~~~  270 (758)
T 1r6b_X          205 RRKNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLDIGSLL-------AGTK-------YRGDFEKRFKAL  270 (758)
T ss_dssp             SSSCEEEEECCTTSSHHHHHHHHHHHHHHTCSCGGGTTCEEEECCCC----------CCCC-------CSSCHHHHHHHH
T ss_pred             cCCCCeEEEcCCCCCHHHHHHHHHHHHHhCCCChhhcCCEEEEEcHHHHh-------cccc-------ccchHHHHHHHH
Confidence            367788999999999999999999877542       2222222211000       0000       012234444433


Q ss_pred             HHHhhcCCccEEEEcCcccccc
Q 024705          191 DTLTKSGSIDVIVVDSVAALIP  212 (264)
Q Consensus       191 ~~~~~~~~~~~vvIDsl~~~~~  212 (264)
                      ...+...+..+++||.+..+.+
T Consensus       271 ~~~~~~~~~~iL~IDEi~~l~~  292 (758)
T 1r6b_X          271 LKQLEQDTNSILFIDEIHTIIG  292 (758)
T ss_dssp             HHHHSSSSCEEEEETTTTTTTT
T ss_pred             HHHHHhcCCeEEEEechHHHhh
Confidence            3333444578999999998874

>2ze6_A Isopentenyl transferase; crown GALL tumor, cytokinin biosynthesis; HET: DST AMP; 2.10A {Agrobacterium tumefaciens} PDB: 2ze5_A* 2ze7_A* 2ze8_A

Probab=96.85  E-value=0.00067  Score=57.23  Aligned_cols=23  Identities=39%  Similarity=0.690  Sum_probs=20.8

Q ss_pred             EEEEEecCCCChHHHHHHHHHHH
Q 024705          122 IVEIYGREASGKTTLALHVIKEA  144 (264)
Q Consensus       122 ~~~I~G~~GsGKTtl~~~l~~~~  144 (264)
                      +++|.|||||||||++..++...
T Consensus         3 li~I~G~~GSGKSTla~~La~~~   25 (253)
T 2ze6_A            3 LHLIYGPTCSGKTDMAIQIAQET   25 (253)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHhcC
Confidence            68999999999999999998754

>2v54_A DTMP kinase, thymidylate kinase; nucleotide biosynthesis, ATP-binding, nucleotide-binding, poxvirus, transferase; HET: TYD POP; 2.4A {Vaccinia virus copenhagen} PDB: 2w0s_A*

Probab=96.82  E-value=0.00083  Score=54.02  Aligned_cols=36  Identities=25%  Similarity=0.495  Sum_probs=27.2

Q ss_pred             CCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEe
Q 024705          118 PKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLD  155 (264)
Q Consensus       118 ~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~  155 (264)
                      .+|.+++|.|++||||||++..++..+  .|.+++.++
T Consensus         2 ~~~~~I~l~G~~GsGKsT~~~~L~~~l--~g~~~~~~~   37 (204)
T 2v54_A            2 SRGALIVFEGLDKSGKTTQCMNIMESI--PANTIKYLN   37 (204)
T ss_dssp             CCCCEEEEECCTTSSHHHHHHHHHHTS--CGGGEEEEE
T ss_pred             CCCcEEEEEcCCCCCHHHHHHHHHHHH--CCCceEEEe
Confidence            367899999999999999999887754  233454444

>2qag_B Septin-6, protein NEDD5; cell cycle, cell division, GTP-binding, nucleotide-binding, phosphorylation, acetylation, alternative splicing, coiled coil; HET: GDP GTP; 4.00A {Homo sapiens}

Probab=96.81  E-value=0.00062  Score=61.86  Aligned_cols=28  Identities=21%  Similarity=0.312  Sum_probs=24.0

Q ss_pred             CCCCCcE--EEEEecCCCChHHHHHHHHHH
Q 024705          116 GLPKGRI--VEIYGREASGKTTLALHVIKE  143 (264)
Q Consensus       116 Gl~~G~~--~~I~G~~GsGKTtl~~~l~~~  143 (264)
                      -+++|.+  ++|+||||+|||||+..++..
T Consensus        36 ~i~~Gei~~vaLvG~nGaGKSTLln~L~G~   65 (427)
T 2qag_B           36 SVSQGFCFNILCVGETGLGKSTLMDTLFNT   65 (427)
T ss_dssp             SCC-CCEEEEEEECSTTSSSHHHHHHHHTS
T ss_pred             EecCCCeeEEEEECCCCCCHHHHHHHHhCc
Confidence            5789999  999999999999998888754

>3fgn_A Dethiobiotin synthetase; biotin biosynthesis, BIOD, ATP-BIND ligase, magnesium, nucleotide-binding; 1.85A {Mycobacterium tuberculosis} PDB: 3fmf_A* 3fmi_A* 3fpa_A*

Probab=96.81  E-value=0.018  Score=48.42  Aligned_cols=89  Identities=17%  Similarity=0.271  Sum_probs=57.0

Q ss_pred             cEEEEEec-CCCChHHHHHHHHHHHhhcCCeEEEEe-----cC-CCCCH-HHHHHcCCCc-cceeEeC-C----------
Q 024705          121 RIVEIYGR-EASGKTTLALHVIKEAQKLGGYCAYLD-----VE-NALDP-SLAEAMGIDA-ENLLIAQ-P----------  180 (264)
Q Consensus       121 ~~~~I~G~-~GsGKTtl~~~l~~~~~~~g~~v~~~~-----~e-~~~~~-~~~~~~g~~~-~~l~~~~-~----------  180 (264)
                      ..+.|+|. +|+|||+++..++..+.++|.+|.||-     .. ...+. ...+..|... .+.+.+. +          
T Consensus        27 ~~i~Itgt~t~vGKT~vt~gL~~~l~~~G~~V~~fKPv~~g~~~~~~D~~~~~~~~g~~~~~~~~~~~~p~sP~~aa~~~  106 (251)
T 3fgn_A           27 TILVVTGTGTGVGKTVVCAALASAARQAGIDVAVCKPVQTGTARGDDDLAEVGRLAGVTQLAGLARYPQPMAPAAAAEHA  106 (251)
T ss_dssp             EEEEEEESSTTSCHHHHHHHHHHHHHHTTCCEEEEEEEECCGGGTCCHHHHHHHHHCCCEEEEEEECSSSSCHHHHHHHT
T ss_pred             CEEEEEeCCCCCcHHHHHHHHHHHHHHCCCeEEEEeeeecCCCCCCHHHHHHHHHcCCCCCCCCeeECCCCChHHHHHHc
Confidence            45778887 799999999999999999999999986     21 11122 2334456532 2332222 1          


Q ss_pred             ----CCHHHHHHHHHHHhhcCCccEEEEcCccccc
Q 024705          181 ----DSAENLLSVVDTLTKSGSIDVIVVDSVAALI  211 (264)
Q Consensus       181 ----~~~ee~~~~i~~~~~~~~~~~vvIDsl~~~~  211 (264)
                          ...+++.+.+.++  ..+.++++||....++
T Consensus       107 ~~~~~~~~~i~~~~~~l--~~~~D~vlIEGagGl~  139 (251)
T 3fgn_A          107 GMALPARDQIVRLIADL--DRPGRLTLVEGAGGLL  139 (251)
T ss_dssp             TCCCCCHHHHHHHHHTT--CCTTCEEEEECSSSTT
T ss_pred             CCCCCCHHHHHHHHHHH--HhcCCEEEEECCCCCc
Confidence                2334444444443  3478999999988776

>2iut_A DNA translocase FTSK; nucleotide-binding, chromosome partition, ATP-binding, DNA- cell division, DNA translocation, KOPS, membrane; HET: DNA SAP; 2.25A {Pseudomonas aeruginosa} PDB: 2iuu_A*

Probab=96.80  E-value=0.003  Score=59.35  Aligned_cols=39  Identities=13%  Similarity=0.005  Sum_probs=29.6

Q ss_pred             CcEEEEEecCCCChHHHHHHHHHHHhhc----CCeEEEEecCC
Q 024705          120 GRIVEIYGREASGKTTLALHVIKEAQKL----GGYCAYLDVEN  158 (264)
Q Consensus       120 G~~~~I~G~~GsGKTtl~~~l~~~~~~~----g~~v~~~~~e~  158 (264)
                      +--++|+|.+|||||+++..++..++..    .-+++.+|...
T Consensus       214 ~pHlLIaG~TGSGKS~~L~tlI~sLl~~~sP~ev~lilIDpKg  256 (574)
T 2iut_A          214 MPHLLVAGTTGSGKSVGVNAMLLSILFKSTPSEARLIMIDPKM  256 (574)
T ss_dssp             SCCEEEECCTTSSHHHHHHHHHHHHHTTCCTTTEEEEEECSSS
T ss_pred             CCeeEEECCCCCCHHHHHHHHHHHHHHhCCCcceEEEEeCCCh
Confidence            3458999999999999999998887743    33566666543

>4edh_A DTMP kinase, thymidylate kinase; structural genomics, PSI-biology; HET: TMP ADP; 1.32A {Pseudomonas aeruginosa PAO1} PDB: 4e5u_A* 4esh_A* 4gmd_A* 3uwk_A* 3uwo_A* 3uxm_A*

Probab=96.79  E-value=0.0015  Score=53.80  Aligned_cols=38  Identities=21%  Similarity=0.185  Sum_probs=32.0

Q ss_pred             CCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEe
Q 024705          118 PKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLD  155 (264)
Q Consensus       118 ~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~  155 (264)
                      .+|.++.|.|++||||||.+..++..+...|..+....
T Consensus         4 m~g~~i~~eG~~gsGKsT~~~~l~~~l~~~~~~v~~~~   41 (213)
T 4edh_A            4 MTGLFVTLEGPEGAGKSTNRDYLAERLRERGIEVQLTR   41 (213)
T ss_dssp             -CCEEEEEECSTTSSHHHHHHHHHHHHHTTTCCEEEEE
T ss_pred             CCceEEEEEcCCCCCHHHHHHHHHHHHHHcCCCccccc
Confidence            46889999999999999999999988877777776554

>1ihu_A Arsenical pump-driving ATPase; aluminum fluoride, ADP, ARSA ATPase, ATP binding site, hydro; HET: ADP; 2.15A {Escherichia coli} SCOP: c.37.1.10 c.37.1.10 PDB: 1f48_A* 1ii0_A* 1ii9_A*

Probab=96.78  E-value=0.001  Score=62.90  Aligned_cols=53  Identities=17%  Similarity=0.211  Sum_probs=43.4

Q ss_pred             HHHHHHhcCC-CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCC
Q 024705          106 LKLDLALGIG-GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENA  159 (264)
Q Consensus       106 ~~LD~~l~~g-Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~  159 (264)
                      +.||.+++ + +-....++++.|.+|+||||++.+++..++..|.+++++|.+..
T Consensus       313 ~~l~~~~~-~~~~~~~~~~~~~~~~g~Gktt~a~~lA~~l~~~g~~vllvD~Dp~  366 (589)
T 1ihu_A          313 PSLSALVD-DIARNEHGLIMLMGKGGVGKTTMAAAIAVRLADMGFDVHLTTSDPA  366 (589)
T ss_dssp             CCHHHHHH-HHHTTSCEEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEESCCC
T ss_pred             chhhhhhh-hhhccCCeEEEEecCCCCChhhHHHHHHHHHHHCCCcEEEEeCCCc
Confidence            56777765 2 23345678889999999999999999999999999999998854

>1ihu_A Arsenical pump-driving ATPase; aluminum fluoride, ADP, ARSA ATPase, ATP binding site, hydro; HET: ADP; 2.15A {Escherichia coli} SCOP: c.37.1.10 c.37.1.10 PDB: 1f48_A* 1ii0_A* 1ii9_A*

Probab=96.78  E-value=0.0015  Score=61.71  Aligned_cols=41  Identities=15%  Similarity=0.163  Sum_probs=37.7

Q ss_pred             CCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCC
Q 024705          119 KGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENA  159 (264)
Q Consensus       119 ~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~  159 (264)
                      ...++++.|.+|+||||++.+++..++..|.+|++++.+..
T Consensus         7 ~~~i~~~sgkGGvGKTT~a~~lA~~lA~~G~rVLlvd~D~~   47 (589)
T 1ihu_A            7 IPPYLFFTGKGGVGKTSISCATAIRLAEQGKRVLLVSTDPA   47 (589)
T ss_dssp             CCSEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEECCTT
T ss_pred             CCEEEEEeCCCcCHHHHHHHHHHHHHHHCCCcEEEEECCCC
Confidence            45789999999999999999999999999999999999874

>1zd8_A GTP:AMP phosphotransferase mitochondrial; ATP:AMP phosphotransferase, myokinase, structural genomics, structural genomics consortium, SGC; 1.48A {Homo sapiens} PDB: 2ak3_A*

Probab=96.77  E-value=0.00088  Score=55.18  Aligned_cols=28  Identities=21%  Similarity=0.218  Sum_probs=21.8

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHH
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKE  143 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~  143 (264)
                      +..++.+++|.|++||||||++..++..
T Consensus         3 ~~~~~~~I~l~G~~GsGKsT~a~~La~~   30 (227)
T 1zd8_A            3 ASARLLRAVIMGAPGSGKGTVSSRITTH   30 (227)
T ss_dssp             ----CCEEEEEECTTSSHHHHHHHHHHH
T ss_pred             ccccCcEEEEECCCCCCHHHHHHHHHHH
Confidence            3456788999999999999999988764

>2woj_A ATPase GET3; tail-anchored, membrane protein, targeting factor, endoplasmic reticulum, TRC40, ATP-binding, golgi apparatus; HET: ADP; 1.99A {Saccharomyces cerevisiae} PDB: 3h84_A 3zs8_A 3zs9_A* 3sja_A 3sjb_A 3sjc_A 3sjd_A* 3idq_A 3a36_A 3a37_A*

Probab=96.75  E-value=0.0016  Score=57.74  Aligned_cols=49  Identities=14%  Similarity=0.169  Sum_probs=41.2

Q ss_pred             HHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHHh--hcCCeEEEEecCCC
Q 024705          108 LDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQ--KLGGYCAYLDVENA  159 (264)
Q Consensus       108 LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~--~~g~~v~~~~~e~~  159 (264)
                      |+.++. .  +.-.+++..|..|+||||++.+++..++  ..|.+|+.++.+..
T Consensus         9 l~~l~~-~--~~~~i~v~sgKGGvGKTTvaanLA~~lA~~~~G~rVLLvD~D~~   59 (354)
T 2woj_A            9 LHSLIT-S--TTHKWIFVGGKGGVGKTTSSCSIAIQMALSQPNKQFLLISTDPA   59 (354)
T ss_dssp             CHHHHT-C--SSCCEEEEEESTTSSHHHHHHHHHHHHHHHCTTSCEEEEECCSS
T ss_pred             HHHHhc-C--CCcEEEEEeCCCCCcHHHHHHHHHHHHHHhcCCCeEEEEECCCC
Confidence            566665 2  2346788889999999999999999999  88999999999975

>1aky_A Adenylate kinase; ATP:AMP phosphotransferase, myokinase, transferase (phosphotransferase); HET: AP5; 1.63A {Saccharomyces cerevisiae} SCOP: c.37.1.1 g.41.2.1 PDB: 2aky_A* 3aky_A* 1dvr_A*

Probab=96.75  E-value=0.001  Score=54.47  Aligned_cols=26  Identities=19%  Similarity=0.201  Sum_probs=22.8

Q ss_pred             CCcEEEEEecCCCChHHHHHHHHHHH
Q 024705          119 KGRIVEIYGREASGKTTLALHVIKEA  144 (264)
Q Consensus       119 ~G~~~~I~G~~GsGKTtl~~~l~~~~  144 (264)
                      +|.+++|.|++||||||++..++...
T Consensus         3 ~~~~I~l~G~~GsGKsT~a~~La~~l   28 (220)
T 1aky_A            3 ESIRMVLIGPPGAGKGTQAPNLQERF   28 (220)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHc
Confidence            46789999999999999999988754

>2dy1_A Elongation factor G; translocation, GTP complex, structural genomics, NPPSFA; HET: GTP; 1.60A {Thermus thermophilus} SCOP: b.43.3.1 c.37.1.8 d.14.1.1 d.58.11.1 d.58.11.1 PDB: 1wdt_A*

Probab=96.75  E-value=0.0035  Score=60.24  Aligned_cols=91  Identities=13%  Similarity=0.160  Sum_probs=50.3

Q ss_pred             CCCCcEEEEEecCCCChHHHHHHHHHHHhh--cCCeEEEEecCCC--CC-HHHHHHcCCCccc---------eeEeCCCC
Q 024705          117 LPKGRIVEIYGREASGKTTLALHVIKEAQK--LGGYCAYLDVENA--LD-PSLAEAMGIDAEN---------LLIAQPDS  182 (264)
Q Consensus       117 l~~G~~~~I~G~~GsGKTtl~~~l~~~~~~--~g~~v~~~~~e~~--~~-~~~~~~~g~~~~~---------l~~~~~~~  182 (264)
                      ++++..+.|.|++|+|||||+..++.....  ..+.+  .+....  .. ..+.+.+.+..+.         +.+.+...
T Consensus         6 ~~~~~~i~IiG~~gaGKTTLl~~L~~~~~~~~~~G~V--~~g~~~~d~~~~e~~~giti~~~~~~~~~~~~~~nliDTpG   83 (665)
T 2dy1_A            6 GAMIRTVALVGHAGSGKTTLTEALLYKTGAKERRGRV--EEGTTTTDYTPEAKLHRTTVRTGVAPLLFRGHRVFLLDAPG   83 (665)
T ss_dssp             CCCEEEEEEEESTTSSHHHHHHHHHHHTTSSSSCCCG--GGTCCSSCCSHHHHHTTSCCSCEEEEEEETTEEEEEEECCC
T ss_pred             cCCCcEEEEECCCCChHHHHHHHHHHhcCCCCcccee--cCCcccccCCHHHHhcCCeEEecceEEeeCCEEEEEEeCCC
Confidence            567899999999999999999998865432  12222  111110  11 1233334444332         22332222


Q ss_pred             HHHHHHHHHHHhhcCCccEEEEcCccc
Q 024705          183 AENLLSVVDTLTKSGSIDVIVVDSVAA  209 (264)
Q Consensus       183 ~ee~~~~i~~~~~~~~~~~vvIDsl~~  209 (264)
                      .+++...+.......+..++++|....
T Consensus        84 ~~~f~~~~~~~l~~ad~~ilVvD~~~g  110 (665)
T 2dy1_A           84 YGDFVGEIRGALEAADAALVAVSAEAG  110 (665)
T ss_dssp             SGGGHHHHHHHHHHCSEEEEEEETTTC
T ss_pred             ccchHHHHHHHHhhcCcEEEEEcCCcc
Confidence            334444455555556788899995443

>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=96.74  E-value=0.0011  Score=55.55  Aligned_cols=41  Identities=15%  Similarity=0.229  Sum_probs=30.7

Q ss_pred             CcEEEEEecCCCChHHHHHHHHHHHhh-----cCCeEEEEecCCCC
Q 024705          120 GRIVEIYGREASGKTTLALHVIKEAQK-----LGGYCAYLDVENAL  160 (264)
Q Consensus       120 G~~~~I~G~~GsGKTtl~~~l~~~~~~-----~g~~v~~~~~e~~~  160 (264)
                      .-++.|.|++||||||++..++..+..     .+..+.+++.+.-.
T Consensus        22 ~~iI~I~G~~GSGKST~a~~L~~~lg~~~~d~~~~~~~~i~~D~~~   67 (252)
T 1uj2_A           22 PFLIGVSGGTASGKSSVCAKIVQLLGQNEVDYRQKQVVILSQDSFY   67 (252)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHTTGGGSCGGGCSEEEEEGGGGB
T ss_pred             cEEEEEECCCCCCHHHHHHHHHHHhhhhcccccCCceEEEecCccc
Confidence            357999999999999999988875432     24457788876543

>2cdn_A Adenylate kinase; phosphoryl transfer, associative mechanism, ATP-binding, nucleotide biosynthesis, nucleotide-binding, transferase; HET: ADP; 1.9A {Mycobacterium tuberculosis} SCOP: c.37.1.1 PDB: 1p4s_A

Probab=96.73  E-value=0.0011  Score=53.37  Aligned_cols=27  Identities=22%  Similarity=0.246  Sum_probs=23.1

Q ss_pred             CCCcEEEEEecCCCChHHHHHHHHHHH
Q 024705          118 PKGRIVEIYGREASGKTTLALHVIKEA  144 (264)
Q Consensus       118 ~~G~~~~I~G~~GsGKTtl~~~l~~~~  144 (264)
                      ..+.+++|.|++||||||++..++...
T Consensus        18 ~~~~~I~l~G~~GsGKST~a~~La~~l   44 (201)
T 2cdn_A           18 GSHMRVLLLGPPGAGKGTQAVKLAEKL   44 (201)
T ss_dssp             CSCCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            345689999999999999999988754

>2bwj_A Adenylate kinase 5; phosphoryl transfer reaction, transferase; HET: AMP; 2.3A {Homo sapiens}

Probab=96.73  E-value=0.0011  Score=52.99  Aligned_cols=27  Identities=30%  Similarity=0.375  Sum_probs=23.3

Q ss_pred             CCCcEEEEEecCCCChHHHHHHHHHHH
Q 024705          118 PKGRIVEIYGREASGKTTLALHVIKEA  144 (264)
Q Consensus       118 ~~G~~~~I~G~~GsGKTtl~~~l~~~~  144 (264)
                      .++.+++|.|++||||||++..++...
T Consensus        10 ~~~~~I~l~G~~GsGKsT~a~~L~~~l   36 (199)
T 2bwj_A           10 RKCKIIFIIGGPGSGKGTQCEKLVEKY   36 (199)
T ss_dssp             HHSCEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHHHh
Confidence            346789999999999999999988754

>3v9p_A DTMP kinase, thymidylate kinase; ssgcid, STRU genomics, seattle structural genomics center for infectious transferase; 1.90A {Burkholderia thailandensis}

Probab=96.72  E-value=0.0014  Score=54.43  Aligned_cols=41  Identities=22%  Similarity=0.354  Sum_probs=29.7

Q ss_pred             CCCCCCcEEEEEecCCCChHHHHHHHHHHHhhc----CCeEEEEe
Q 024705          115 GGLPKGRIVEIYGREASGKTTLALHVIKEAQKL----GGYCAYLD  155 (264)
Q Consensus       115 gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~----g~~v~~~~  155 (264)
                      |-+.+|.++.|.|++||||||.+..++..+...    |..+.+..
T Consensus        20 ~~m~~g~~I~~eG~~GsGKsT~~~~l~~~l~~~~~~~g~~v~~~r   64 (227)
T 3v9p_A           20 GSMARGKFITFEGIDGAGKTTHLQWFCDRLQERLGPAGRHVVVTR   64 (227)
T ss_dssp             ---CCCCEEEEECCC---CHHHHHHHHHHHHHHHGGGTCCEEEEE
T ss_pred             ccccCCeEEEEECCCCCCHHHHHHHHHHHHHhhccccceeeeeec
Confidence            456789999999999999999999999888766    77776554

>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=96.72  E-value=0.0015  Score=55.00  Aligned_cols=41  Identities=20%  Similarity=0.234  Sum_probs=34.6

Q ss_pred             CCcEEEE-EecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCC
Q 024705          119 KGRIVEI-YGREASGKTTLALHVIKEAQKLGGYCAYLDVENAL  160 (264)
Q Consensus       119 ~G~~~~I-~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~  160 (264)
                      ++.++.| .+..|+||||++.+++..++ .|.+|+++|.+...
T Consensus        26 ~~~vI~v~s~kGGvGKTT~a~~LA~~la-~g~~VlliD~D~~~   67 (267)
T 3k9g_A           26 KPKIITIASIKGGVGKSTSAIILATLLS-KNNKVLLIDMDTQA   67 (267)
T ss_dssp             CCEEEEECCSSSSSCHHHHHHHHHHHHT-TTSCEEEEEECTTC
T ss_pred             CCeEEEEEeCCCCchHHHHHHHHHHHHH-CCCCEEEEECCCCC
Confidence            3556666 46699999999999999999 89999999998754

>1via_A Shikimate kinase; structural genomics, transferase; HET: MSE; 1.57A {Campylobacter jejuni} SCOP: c.37.1.2

Probab=96.71  E-value=0.0009  Score=52.70  Aligned_cols=31  Identities=32%  Similarity=0.430  Sum_probs=24.4

Q ss_pred             EEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecC
Q 024705          122 IVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVE  157 (264)
Q Consensus       122 ~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e  157 (264)
                      .+.|.|+|||||||++..++...   +  ..|++.+
T Consensus         6 ~i~i~G~~GsGKsTla~~La~~l---~--~~~~d~d   36 (175)
T 1via_A            6 NIVFIGFMGSGKSTLARALAKDL---D--LVFLDSD   36 (175)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHHH---T--CEEEEHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHc---C--CCEEccc
Confidence            58899999999999999998754   2  3466643

>2vli_A Antibiotic resistance protein; transferase, tunicamycin, phosphotransferase; 1.95A {Deinococcus radiodurans}

Probab=96.71  E-value=0.00078  Score=53.19  Aligned_cols=25  Identities=28%  Similarity=0.282  Sum_probs=17.5

Q ss_pred             CCcEEEEEecCCCChHHHHHHHHHH
Q 024705          119 KGRIVEIYGREASGKTTLALHVIKE  143 (264)
Q Consensus       119 ~G~~~~I~G~~GsGKTtl~~~l~~~  143 (264)
                      ++.++.|.|++||||||++..++..
T Consensus         4 ~~~~I~l~G~~GsGKST~a~~La~~   28 (183)
T 2vli_A            4 RSPIIWINGPFGVGKTHTAHTLHER   28 (183)
T ss_dssp             -CCEEEEECCC----CHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHh
Confidence            5678999999999999999988764

>1nij_A Hypothetical protein YJIA; structural genomics, P-loop protein, GTP binding, structure function project, S2F, unknown function; 2.00A {Escherichia coli} SCOP: c.37.1.10 d.237.1.1

Probab=96.70  E-value=0.00099  Score=58.15  Aligned_cols=35  Identities=29%  Similarity=0.305  Sum_probs=25.9

Q ss_pred             CcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEec
Q 024705          120 GRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDV  156 (264)
Q Consensus       120 G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~  156 (264)
                      =.+++|+|++||||||++..++...  .+.+++.+..
T Consensus         4 i~v~~i~G~~GaGKTTll~~l~~~~--~~~~~aVi~~   38 (318)
T 1nij_A            4 IAVTLLTGFLGAGKTTLLRHILNEQ--HGYKIAVIEN   38 (318)
T ss_dssp             EEEEEEEESSSSSCHHHHHHHHHSC--CCCCEEEECS
T ss_pred             ccEEEEEecCCCCHHHHHHHHHhhc--CCCcEEEEEe
Confidence            3589999999999999998887653  3445555443

>2oze_A ORF delta'; para, walker type atpases, DNA segregation, PSM19035, plasmid, DNA binding protein; HET: AGS EPE; 1.83A {Streptococcus pyogenes}

Probab=96.69  E-value=0.0017  Score=55.63  Aligned_cols=42  Identities=17%  Similarity=0.165  Sum_probs=36.2

Q ss_pred             CcEEEEEe---cCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCC
Q 024705          120 GRIVEIYG---REASGKTTLALHVIKEAQKLGGYCAYLDVENALD  161 (264)
Q Consensus       120 G~~~~I~G---~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~  161 (264)
                      +.++.|++   ..|+||||++.+++..++..|.+|+++|.+....
T Consensus        34 ~~~i~v~~~s~KGGvGKTT~a~nLA~~la~~G~rVlliD~D~q~~   78 (298)
T 2oze_A           34 NEAIVILNNYFKGGVGKSKLSTMFAYLTDKLNLKVLMIDKDLQAT   78 (298)
T ss_dssp             CSCEEEEECCSSSSSSHHHHHHHHHHHHHHTTCCEEEEEECTTCH
T ss_pred             CcEEEEEeccCCCCchHHHHHHHHHHHHHhCCCeEEEEeCCCCCC
Confidence            55667775   8999999999999999999999999999987643

>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=96.69  E-value=0.00091  Score=54.08  Aligned_cols=21  Identities=43%  Similarity=0.449  Sum_probs=18.9

Q ss_pred             EEEEEecCCCChHHHHHHHHH
Q 024705          122 IVEIYGREASGKTTLALHVIK  142 (264)
Q Consensus       122 ~~~I~G~~GsGKTtl~~~l~~  142 (264)
                      ++.|.|++||||||++..++.
T Consensus         4 ~i~l~G~~GsGKST~~~~La~   24 (206)
T 1jjv_A            4 IVGLTGGIGSGKTTIANLFTD   24 (206)
T ss_dssp             EEEEECSTTSCHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            688999999999999988865

>2xau_A PRE-mRNA-splicing factor ATP-dependent RNA helica; hydrolase, ribosome biogenesis, ATPase, ATP-binding, OB-fold; HET: ADP; 1.90A {Saccharomyces cerevisiae} PDB: 3kx2_B*

Probab=96.68  E-value=0.01  Score=58.05  Aligned_cols=93  Identities=16%  Similarity=0.113  Sum_probs=49.9

Q ss_pred             CCCCcEEEEEecCCCChHHHHHHHHHHHhh-c--CCeEEEEecCCCCCH----HHHHHcCCCcccee--------EeC--
Q 024705          117 LPKGRIVEIYGREASGKTTLALHVIKEAQK-L--GGYCAYLDVENALDP----SLAEAMGIDAENLL--------IAQ--  179 (264)
Q Consensus       117 l~~G~~~~I~G~~GsGKTtl~~~l~~~~~~-~--g~~v~~~~~e~~~~~----~~~~~~g~~~~~l~--------~~~--  179 (264)
                      +..|+.+++.||+||||||++-.++..... .  +..++++.-......    ..++.+|.......        ...  
T Consensus       106 l~~~~~vii~gpTGSGKTtllp~ll~~~~~~~~~g~~ilvl~P~r~La~q~~~~l~~~~~~~v~~~vG~~i~~~~~~~~~  185 (773)
T 2xau_A          106 YQNNQIMVFVGETGSGKTTQIPQFVLFDEMPHLENTQVACTQPRRVAAMSVAQRVAEEMDVKLGEEVGYSIRFENKTSNK  185 (773)
T ss_dssp             HHHCSEEEEECCTTSSHHHHHHHHHHHHHCGGGGTCEEEEEESCHHHHHHHHHHHHHHTTCCBTTTEEEEETTEEECCTT
T ss_pred             HhCCCeEEEECCCCCCHHHHHHHHHHHhccccCCCceEEecCchHHHHHHHHHHHHHHhCCchhheecceeccccccCCC
Confidence            445789999999999999976666554332 2  445666542111000    12233343221110        000  


Q ss_pred             ----CCCHHHHHHHHHHHhhcCCccEEEEcCccc
Q 024705          180 ----PDSAENLLSVVDTLTKSGSIDVIVVDSVAA  209 (264)
Q Consensus       180 ----~~~~ee~~~~i~~~~~~~~~~~vvIDsl~~  209 (264)
                          ..+...+...+.....-.+++++|+|....
T Consensus       186 ~~I~v~T~G~l~r~l~~~~~l~~~~~lIlDEah~  219 (773)
T 2xau_A          186 TILKYMTDGMLLREAMEDHDLSRYSCIILDEAHE  219 (773)
T ss_dssp             CSEEEEEHHHHHHHHHHSTTCTTEEEEEECSGGG
T ss_pred             CCEEEECHHHHHHHHhhCccccCCCEEEecCccc
Confidence                113455554443333346789999999885

>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=96.67  E-value=0.001  Score=53.62  Aligned_cols=21  Identities=24%  Similarity=0.313  Sum_probs=19.2

Q ss_pred             EEEEEecCCCChHHHHHHHHH
Q 024705          122 IVEIYGREASGKTTLALHVIK  142 (264)
Q Consensus       122 ~~~I~G~~GsGKTtl~~~l~~  142 (264)
                      ++.|.|++||||||++..++.
T Consensus         3 ~i~i~G~~GsGKSTl~~~L~~   23 (204)
T 2if2_A            3 RIGLTGNIGCGKSTVAQMFRE   23 (204)
T ss_dssp             EEEEEECTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHH
Confidence            588999999999999988876

>1u0l_A Probable GTPase ENGC; permutation, OB-fold, zinc-finger, structural genomics, BSGC structure funded by NIH, protein structure initiative, PSI; HET: GDP; 2.80A {Thermotoga maritima} SCOP: b.40.4.5 c.37.1.8

Probab=96.67  E-value=0.00038  Score=60.31  Aligned_cols=37  Identities=19%  Similarity=0.155  Sum_probs=25.1

Q ss_pred             CCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEE
Q 024705          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAY  153 (264)
Q Consensus       117 l~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~  153 (264)
                      +..|+++.|.||||+|||||+..++....+..+.+.+
T Consensus       166 ~l~geiv~l~G~sG~GKSTll~~l~g~~~~~~G~i~~  202 (301)
T 1u0l_A          166 YLKGKISTMAGLSGVGKSSLLNAINPGLKLRVSEVSE  202 (301)
T ss_dssp             HHSSSEEEEECSTTSSHHHHHHHHSTTCCCC------
T ss_pred             HhcCCeEEEECCCCCcHHHHHHHhcccccccccceec
Confidence            3458899999999999999988887655444444443

>1bif_A 6-phosphofructo-2-kinase/ fructose-2,6-bisphospha; transferase (phospho), phosphatase, hydrolase (phosp glycolysis, bifunctional enzyme; HET: AGS; 2.00A {Rattus norvegicus} SCOP: c.37.1.7 c.60.1.4 PDB: 3bif_A* 2bif_A* 1k6m_A* 1c80_A* 1c7z_A* 1c81_A* 1tip_A* 1fbt_A

Probab=96.66  E-value=0.015  Score=53.42  Aligned_cols=38  Identities=18%  Similarity=0.211  Sum_probs=29.2

Q ss_pred             CCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEec
Q 024705          119 KGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDV  156 (264)
Q Consensus       119 ~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~  156 (264)
                      ...++++.|.|||||||++..++......+.....++.
T Consensus        38 ~~~~IvlvGlpGsGKSTia~~La~~l~~~~~~t~~~~~   75 (469)
T 1bif_A           38 CPTLIVMVGLPARGKTYISKKLTRYLNFIGVPTREFNV   75 (469)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEEH
T ss_pred             CcEEEEEECCCCCCHHHHHHHHHHHHhccCCCceEEec
Confidence            34689999999999999999999876655555555543

>1lw7_A Transcriptional regulator NADR; NMN, NMN adenylyl transferase, ribosylnicotinamide KINA transferase; HET: NAD; 2.90A {Haemophilus influenzae} SCOP: c.26.1.3 c.37.1.1

Probab=96.65  E-value=0.00073  Score=60.06  Aligned_cols=34  Identities=24%  Similarity=0.268  Sum_probs=28.1

Q ss_pred             CCCCC--CcEEEEEecCCCChHHHHHHHHHHHhhcC
Q 024705          115 GGLPK--GRIVEIYGREASGKTTLALHVIKEAQKLG  148 (264)
Q Consensus       115 gGl~~--G~~~~I~G~~GsGKTtl~~~l~~~~~~~g  148 (264)
                      --+++  |+.+.|.||||||||||+..++.......
T Consensus       163 ~~v~~~lg~k~~IvG~nGsGKSTLlk~L~gl~~~~~  198 (365)
T 1lw7_A          163 KEARPFFAKTVAILGGESSGKSVLVNKLAAVFNTTS  198 (365)
T ss_dssp             TTTGGGTCEEEEEECCTTSHHHHHHHHHHHHTTCEE
T ss_pred             HHHHHhhhCeEEEECCCCCCHHHHHHHHHHHhCCCc
Confidence            45667  99999999999999999999888765433

>2rcn_A Probable GTPase ENGC; YJEQ, circularly permuted, GTP-binding, hydrolase, nucleotide-binding; HET: GDP; 2.25A {Salmonella typhimurium} PDB: 2ykr_W 4a2i_V

Probab=96.65  E-value=0.0013  Score=58.35  Aligned_cols=44  Identities=27%  Similarity=0.326  Sum_probs=30.7

Q ss_pred             cCcHHHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHHh-hcCCeEE
Q 024705          103 TGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQ-KLGGYCA  152 (264)
Q Consensus       103 tG~~~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~-~~g~~v~  152 (264)
                      .|+..|...+      +|+++.|.||||+|||||+..++.... ...+.+.
T Consensus       204 ~gl~~L~~~~------~G~~~~lvG~sG~GKSTLln~L~g~~~~~~~G~I~  248 (358)
T 2rcn_A          204 DGLKPLEEAL------TGRISIFAGQSGVGKSSLLNALLGLQNEILTNDVS  248 (358)
T ss_dssp             BTHHHHHHHH------TTSEEEEECCTTSSHHHHHHHHHCCSSCCCCC---
T ss_pred             cCHHHHHHhc------CCCEEEEECCCCccHHHHHHHHhccccccccCCcc
Confidence            3666666654      478999999999999999988876554 3334443

>2ph1_A Nucleotide-binding protein; alpha-beta protein, structural genomics, PSI-2, protein STRU initiative; 2.70A {Archaeoglobus fulgidus dsm 4304} PDB: 3kb1_A*

Probab=96.64  E-value=0.002  Score=54.32  Aligned_cols=42  Identities=17%  Similarity=0.203  Sum_probs=35.3

Q ss_pred             CcEEEE-EecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCC
Q 024705          120 GRIVEI-YGREASGKTTLALHVIKEAQKLGGYCAYLDVENALD  161 (264)
Q Consensus       120 G~~~~I-~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~  161 (264)
                      +.++.+ .+..|+||||++.+++..++..|.+|+++|.+....
T Consensus        18 ~~vI~v~s~kGGvGKTT~a~nLA~~la~~G~~VlliD~D~~~~   60 (262)
T 2ph1_A           18 KSRIAVMSGKGGVGKSTVTALLAVHYARQGKKVGILDADFLGP   60 (262)
T ss_dssp             SCEEEEECSSSCTTHHHHHHHHHHHHHHTTCCEEEEECCSSCC
T ss_pred             CeEEEEEcCCCCCCHHHHHHHHHHHHHHCCCeEEEEeCCCCCC
Confidence            445555 567899999999999999999999999999987654

>1zak_A Adenylate kinase; ATP:AMP-phosphotransferase, transferase; HET: AP5; 3.50A {Zea mays} SCOP: c.37.1.1 g.41.2.1

Probab=96.64  E-value=0.0013  Score=53.95  Aligned_cols=26  Identities=31%  Similarity=0.178  Sum_probs=22.6

Q ss_pred             CCcEEEEEecCCCChHHHHHHHHHHH
Q 024705          119 KGRIVEIYGREASGKTTLALHVIKEA  144 (264)
Q Consensus       119 ~G~~~~I~G~~GsGKTtl~~~l~~~~  144 (264)
                      ++.+++|.|++||||||++..++...
T Consensus         4 ~~~~I~l~G~~GsGKsT~~~~La~~l   29 (222)
T 1zak_A            4 DPLKVMISGAPASGKGTQCELIKTKY   29 (222)
T ss_dssp             CSCCEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            45679999999999999999988754

>3nwj_A ATSK2; P loop, shikimate, nucleoside monophosphate kinase, shikimat ATP binding, chloroplast, transferase; 2.35A {Arabidopsis thaliana}

Probab=96.63  E-value=0.0012  Score=55.72  Aligned_cols=29  Identities=28%  Similarity=0.355  Sum_probs=25.2

Q ss_pred             CCCC---CcEEEEEecCCCChHHHHHHHHHHH
Q 024705          116 GLPK---GRIVEIYGREASGKTTLALHVIKEA  144 (264)
Q Consensus       116 Gl~~---G~~~~I~G~~GsGKTtl~~~l~~~~  144 (264)
                      -+.+   |..+.|.|++||||||++..++..+
T Consensus        41 ~i~~~l~g~~i~l~G~~GsGKSTl~~~La~~l   72 (250)
T 3nwj_A           41 EVKPYLNGRSMYLVGMMGSGKTTVGKIMARSL   72 (250)
T ss_dssp             TTHHHHTTCCEEEECSTTSCHHHHHHHHHHHH
T ss_pred             hhhhhcCCCEEEEECCCCCCHHHHHHHHHHhc
Confidence            3556   9999999999999999999888755

>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=96.62  E-value=0.0021  Score=52.92  Aligned_cols=39  Identities=26%  Similarity=0.342  Sum_probs=33.2

Q ss_pred             cEEEE-EecCCCChHHHHHHHHHHHhhcCCeEEEEecCCC
Q 024705          121 RIVEI-YGREASGKTTLALHVIKEAQKLGGYCAYLDVENA  159 (264)
Q Consensus       121 ~~~~I-~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~  159 (264)
                      .++.| .+..|+||||++.+++..++..|.+|++++.+..
T Consensus         3 ~~i~v~s~kgGvGKTt~a~~LA~~la~~g~~VlliD~D~~   42 (237)
T 1g3q_A            3 RIISIVSGKGGTGKTTVTANLSVALGDRGRKVLAVDGDLT   42 (237)
T ss_dssp             EEEEEECSSTTSSHHHHHHHHHHHHHHTTCCEEEEECCTT
T ss_pred             eEEEEecCCCCCCHHHHHHHHHHHHHhcCCeEEEEeCCCC
Confidence            34555 4568999999999999999999999999999864

>2jaq_A Deoxyguanosine kinase; transferase, deoxyribonucleoside kinase; HET: DCP; 2.3A {Mycoplasma mycoides subsp} PDB: 2jat_A* 2jas_A*

Probab=96.62  E-value=0.0013  Score=52.62  Aligned_cols=23  Identities=26%  Similarity=0.546  Sum_probs=20.7

Q ss_pred             EEEEEecCCCChHHHHHHHHHHH
Q 024705          122 IVEIYGREASGKTTLALHVIKEA  144 (264)
Q Consensus       122 ~~~I~G~~GsGKTtl~~~l~~~~  144 (264)
                      +++|.|++||||||++..++..+
T Consensus         2 ~I~i~G~~GsGKsT~~~~L~~~l   24 (205)
T 2jaq_A            2 KIAIFGTVGAGKSTISAEISKKL   24 (205)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHH
T ss_pred             EEEEECCCccCHHHHHHHHHHhc
Confidence            58899999999999999998765

>2iyv_A Shikimate kinase, SK; transferase, aromatic amino acid biosynthesis, P-loop kinase, metal- binding, shikimate pathway; HET: ADP; 1.35A {Mycobacterium tuberculosis} SCOP: c.37.1.2 PDB: 2iyr_A* 2iyq_A* 2iyt_A 2iyu_A* 2iys_A* 2iyw_A* 2iyx_A* 2iyy_A* 2iyz_A* 2g1k_A* 1l4y_A* 1u8a_A* 1we2_A* 1zyu_A* 2dfn_A* 2dft_A* 2g1j_A 1l4u_A* 3baf_A*

Probab=96.61  E-value=0.0012  Score=52.36  Aligned_cols=24  Identities=25%  Similarity=0.307  Sum_probs=20.9

Q ss_pred             cEEEEEecCCCChHHHHHHHHHHH
Q 024705          121 RIVEIYGREASGKTTLALHVIKEA  144 (264)
Q Consensus       121 ~~~~I~G~~GsGKTtl~~~l~~~~  144 (264)
                      .++.|.|+|||||||++..++...
T Consensus         3 ~~I~l~G~~GsGKsT~a~~La~~l   26 (184)
T 2iyv_A            3 PKAVLVGLPGSGKSTIGRRLAKAL   26 (184)
T ss_dssp             CSEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHc
Confidence            468999999999999999988754

>2r62_A Cell division protease FTSH homolog; ATPase domain, ATP-binding, cell CELL division, hydrolase, membrane, metal-binding; 3.30A {Helicobacter pylori} PDB: 2r65_A*

Probab=96.60  E-value=0.00068  Score=57.17  Aligned_cols=23  Identities=43%  Similarity=0.393  Sum_probs=20.6

Q ss_pred             EEEEEecCCCChHHHHHHHHHHH
Q 024705          122 IVEIYGREASGKTTLALHVIKEA  144 (264)
Q Consensus       122 ~~~I~G~~GsGKTtl~~~l~~~~  144 (264)
                      -++|+||||+|||+++..++..+
T Consensus        46 ~vll~G~~GtGKT~la~~la~~~   68 (268)
T 2r62_A           46 GVLLVGPPGTGKTLLAKAVAGEA   68 (268)
T ss_dssp             CCCCBCSSCSSHHHHHHHHHHHH
T ss_pred             eEEEECCCCCcHHHHHHHHHHHh
Confidence            38899999999999999998865

>3cwq_A Para family chromosome partitioning protein; alpha-beta protein, structural genomics, PSI-2, protein STRU initiative; HET: ADP; 2.47A {Synechocystis SP}

Probab=96.60  E-value=0.0022  Score=52.25  Aligned_cols=38  Identities=21%  Similarity=0.119  Sum_probs=32.7

Q ss_pred             EEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCC
Q 024705          123 VEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALD  161 (264)
Q Consensus       123 ~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~  161 (264)
                      .+..+..|+||||++.+++..++..| +|+++|.+....
T Consensus         4 ~v~s~KGGvGKTT~a~~LA~~la~~g-~VlliD~D~q~~   41 (209)
T 3cwq_A            4 TVASFKGGVGKTTTAVHLSAYLALQG-ETLLIDGDPNRS   41 (209)
T ss_dssp             EEEESSTTSSHHHHHHHHHHHHHTTS-CEEEEEECTTCH
T ss_pred             EEEcCCCCCcHHHHHHHHHHHHHhcC-CEEEEECCCCCC
Confidence            44467799999999999999999889 999999987643

>3upu_A ATP-dependent DNA helicase DDA; RECA-like domain, SH3 domain, PIN-tower interface, coupling hydrolysis to DNA unwinding, ssDNA; 3.30A {Enterobacteria phage T4}

Probab=96.59  E-value=0.0014  Score=60.10  Aligned_cols=36  Identities=25%  Similarity=0.238  Sum_probs=30.6

Q ss_pred             EEEEEecCCCChHHHHHHHHHHHhhcCC-eEEEEecC
Q 024705          122 IVEIYGREASGKTTLALHVIKEAQKLGG-YCAYLDVE  157 (264)
Q Consensus       122 ~~~I~G~~GsGKTtl~~~l~~~~~~~g~-~v~~~~~e  157 (264)
                      .++|.|++|+|||+++..++..+...+. .++.+...
T Consensus        47 ~~li~G~aGTGKT~ll~~~~~~l~~~~~~~il~~a~T   83 (459)
T 3upu_A           47 HVTINGPAGTGATTLTKFIIEALISTGETGIILAAPT   83 (459)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHHHTTCCCEEEEESS
T ss_pred             EEEEEeCCCCCHHHHHHHHHHHHHhcCCceEEEecCc
Confidence            8999999999999999999998887776 56666543

>3lv8_A DTMP kinase, thymidylate kinase; structural genomics, in diseases, center for structural genomics of infectious DISE ATP-binding; HET: ADP TMP TYD; 1.80A {Vibrio cholerae o1 biovar eltor} PDB: 3n2i_A*

Probab=96.59  E-value=0.0028  Score=53.02  Aligned_cols=41  Identities=22%  Similarity=0.209  Sum_probs=31.5

Q ss_pred             CCCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCe-EEEEe
Q 024705          115 GGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGY-CAYLD  155 (264)
Q Consensus       115 gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~-v~~~~  155 (264)
                      +.-.+|.++.|.|++||||||++..++..+...|.. +.+..
T Consensus        22 ~~~~~~~~i~~eG~~GsGKsT~~~~l~~~l~~~~~~~~~~~r   63 (236)
T 3lv8_A           22 SNAMNAKFIVIEGLEGAGKSTAIQVVVETLQQNGIDHITRTR   63 (236)
T ss_dssp             ----CCCEEEEEESTTSCHHHHHHHHHHHHHHTTCCCEEEEE
T ss_pred             cCCCCCeEEEEECCCCCCHHHHHHHHHHHHHhcCCCeeeeec
Confidence            444568899999999999999999999888777777 54443

>3gqb_A V-type ATP synthase alpha chain; A3B3, V-ATPase, ATP synthesis, ATP-binding, hydrogen ION TRA hydrolase, ION transport; 2.80A {Thermus thermophilus HB8} PDB: 3a5c_A* 3a5d_A 3j0j_A* 1um2_C

Probab=96.57  E-value=0.0023  Score=59.61  Aligned_cols=59  Identities=20%  Similarity=0.197  Sum_probs=47.8

Q ss_pred             CCCCccccCcHHHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCC
Q 024705           96 RRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENA  159 (264)
Q Consensus        96 ~~~~~i~tG~~~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~  159 (264)
                      ...+.+.||+..+|.++.   +-+|+-..|.|++|+|||+++.+++.+.  ...-++|....+.
T Consensus       200 ~~~epl~TGirvID~l~P---igrGqr~~Ifg~~g~GKT~l~~~ia~~~--~~~v~V~~~iGER  258 (578)
T 3gqb_A          200 DPNTPFLTGMRILDVLFP---VAMGGTAAIPGPFGSGKSVTQQSLAKWS--NADVVVYVGSGER  258 (578)
T ss_dssp             CSCSEECCSCHHHHTTSC---EETTCEEEECCCTTSCHHHHHHHHHHHS--SCSEEEEEEEEEC
T ss_pred             cCCCcccccchhhhhccc---ccCCCEEeeeCCCCccHHHHHHHHHhcc--CCCEEEEEEeccc
Confidence            457899999999999886   7899999999999999999999887753  3445666654443

>1qf9_A UMP/CMP kinase, protein (uridylmonophosphate/cytidylmonophosphate kinase); nucleoside monophosphate kinase, NMP kinase; HET: ADP C5P; 1.70A {Dictyostelium discoideum} SCOP: c.37.1.1 PDB: 1uke_A* 2ukd_A* 3ukd_A* 4ukd_A* 5ukd_A*

Probab=96.55  E-value=0.0017  Score=51.49  Aligned_cols=25  Identities=24%  Similarity=0.422  Sum_probs=21.7

Q ss_pred             CcEEEEEecCCCChHHHHHHHHHHH
Q 024705          120 GRIVEIYGREASGKTTLALHVIKEA  144 (264)
Q Consensus       120 G~~~~I~G~~GsGKTtl~~~l~~~~  144 (264)
                      +.+++|.|++||||||++..++...
T Consensus         6 ~~~I~l~G~~GsGKsT~~~~L~~~l   30 (194)
T 1qf9_A            6 PNVVFVLGGPGSGKGTQCANIVRDF   30 (194)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHh
Confidence            4689999999999999999887754

>3be4_A Adenylate kinase; malaria, cryptosporidium parvum nonprotein inhibitors, nucleotide-binding, transferase; HET: AP5; 1.60A {Cryptosporidium parvum iowa II}

Probab=96.55  E-value=0.0016  Score=53.27  Aligned_cols=27  Identities=30%  Similarity=0.279  Sum_probs=23.1

Q ss_pred             CCCcEEEEEecCCCChHHHHHHHHHHH
Q 024705          118 PKGRIVEIYGREASGKTTLALHVIKEA  144 (264)
Q Consensus       118 ~~G~~~~I~G~~GsGKTtl~~~l~~~~  144 (264)
                      .+|-.++|.|++||||||++..++...
T Consensus         3 ~~~~~I~l~G~~GsGKsT~a~~La~~l   29 (217)
T 3be4_A            3 SKKHNLILIGAPGSGKGTQCEFIKKEY   29 (217)
T ss_dssp             GGCCEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHHHh
Confidence            345689999999999999999988765

>3qf7_A RAD50; ABC-ATPase, ATPase, hydrolase; HET: ANP; 1.90A {Thermotoga maritima} PDB: 3qg5_A 3tho_A*

Probab=96.55  E-value=0.0015  Score=58.10  Aligned_cols=28  Identities=21%  Similarity=0.291  Sum_probs=22.7

Q ss_pred             CCCCcEEEEEecCCCChHHHHHHHHHHHh
Q 024705          117 LPKGRIVEIYGREASGKTTLALHVIKEAQ  145 (264)
Q Consensus       117 l~~G~~~~I~G~~GsGKTtl~~~l~~~~~  145 (264)
                      +++| +++|+|||||||||++-.++..+-
T Consensus        21 ~~~g-~~~i~G~NGaGKTTll~ai~~al~   48 (365)
T 3qf7_A           21 FQSG-ITVVEGPNGAGKSSLFEAISFALF   48 (365)
T ss_dssp             CCSE-EEEEECCTTSSHHHHHHHHHHHHH
T ss_pred             cCCC-eEEEECCCCCCHHHHHHHHHHHhc
Confidence            3456 899999999999999887776543

>3sr0_A Adenylate kinase; phosphoryl transfer analogue, ALF4, transferase (phosphotran phosphoryl transfer, nucleotide-binding; HET: ADP AMP; 1.56A {Aquifex aeolicus} PDB: 2rh5_A 2rgx_A*

Probab=96.54  E-value=0.0016  Score=53.33  Aligned_cols=30  Identities=27%  Similarity=0.290  Sum_probs=23.8

Q ss_pred             EEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEec
Q 024705          122 IVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDV  156 (264)
Q Consensus       122 ~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~  156 (264)
                      +++|.|||||||+|.+..++...     .+.++++
T Consensus         2 ~Iil~GpPGsGKgTqa~~La~~~-----g~~~ist   31 (206)
T 3sr0_A            2 ILVFLGPPGAGKGTQAKRLAKEK-----GFVHIST   31 (206)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH-----CCEEEEH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH-----CCeEEcH
Confidence            47899999999999999998754     2456664

>1f2t_A RAD50 ABC-ATPase; DNA double-strand break repair, replication; 1.60A {Pyrococcus furiosus} SCOP: c.37.1.12 PDB: 1f2u_A* 1us8_A*

Probab=96.53  E-value=0.0019  Score=49.98  Aligned_cols=24  Identities=29%  Similarity=0.362  Sum_probs=20.8

Q ss_pred             cEEEEEecCCCChHHHHHHHHHHH
Q 024705          121 RIVEIYGREASGKTTLALHVIKEA  144 (264)
Q Consensus       121 ~~~~I~G~~GsGKTtl~~~l~~~~  144 (264)
                      .+++|+||||+||||++..+...+
T Consensus        24 g~~~I~G~NGsGKStil~Ai~~~l   47 (149)
T 1f2t_A           24 GINLIIGQNGSGKSSLLDAILVGL   47 (149)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHH
Confidence            489999999999999988887654

>1u0j_A DNA replication protein; AAA+ protein, P-loop atpases, helicase; HET: DNA ADP; 2.10A {Adeno-associated virus - 2} SCOP: c.37.1.20 PDB: 1s9h_A

Probab=96.53  E-value=0.0025  Score=54.26  Aligned_cols=36  Identities=17%  Similarity=0.184  Sum_probs=29.7

Q ss_pred             HHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHH
Q 024705          108 LDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEA  144 (264)
Q Consensus       108 LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~  144 (264)
                      |...+. |..++...++|+||||+|||+|+..++...
T Consensus        93 l~~~l~-~~~~~~n~~~l~GppgtGKt~~a~ala~~~  128 (267)
T 1u0j_A           93 FLGWAT-KKFGKRNTIWLFGPATTGKTNIAEAIAHTV  128 (267)
T ss_dssp             HHHHHT-TCSTTCCEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             HHHHHh-CCCCCCcEEEEECCCCCCHHHHHHHHHhhh
Confidence            677777 544767789999999999999999888753

>1ex7_A Guanylate kinase; substrate-induced FIT, domain movement, GMP, ATP, substrate specificity, X-RAY diffraction, transferase; HET: 5GP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1ex6_A* 1gky_A* 3sqk_A 4f4j_A

Probab=96.52  E-value=0.0014  Score=52.89  Aligned_cols=22  Identities=32%  Similarity=0.451  Sum_probs=19.5

Q ss_pred             EEEEEecCCCChHHHHHHHHHH
Q 024705          122 IVEIYGREASGKTTLALHVIKE  143 (264)
Q Consensus       122 ~~~I~G~~GsGKTtl~~~l~~~  143 (264)
                      .++|+||+|+||||++..+...
T Consensus         3 pIVi~GPSG~GK~Tl~~~L~~~   24 (186)
T 1ex7_A            3 PIVISGPSGTGKSTLLKKLFAE   24 (186)
T ss_dssp             CEEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHh
Confidence            5889999999999999888765

>3tlx_A Adenylate kinase 2; structural genomics, structural genomics consortium, SGC, RO fold, transferase, ATP binding, phosphorylation; HET: ADP ATP AMP; 2.75A {Plasmodium falciparum}

Probab=96.52  E-value=0.0018  Score=54.17  Aligned_cols=27  Identities=26%  Similarity=0.238  Sum_probs=23.4

Q ss_pred             CCCcEEEEEecCCCChHHHHHHHHHHH
Q 024705          118 PKGRIVEIYGREASGKTTLALHVIKEA  144 (264)
Q Consensus       118 ~~G~~~~I~G~~GsGKTtl~~~l~~~~  144 (264)
                      .++-.++|.|+|||||||++..++...
T Consensus        27 ~~~~~I~l~G~~GsGKsT~a~~L~~~~   53 (243)
T 3tlx_A           27 KPDGRYIFLGAPGSGKGTQSLNLKKSH   53 (243)
T ss_dssp             SCCEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHHh
Confidence            466789999999999999999998654

>3fb4_A Adenylate kinase; psychrophIle, phosphotransferase, ATP-binding, nucleotide-binding, transferase; HET: AP5; 2.00A {Marinibacillus marinus}

Probab=96.52  E-value=0.0016  Score=52.94  Aligned_cols=23  Identities=26%  Similarity=0.352  Sum_probs=19.9

Q ss_pred             EEEEEecCCCChHHHHHHHHHHH
Q 024705          122 IVEIYGREASGKTTLALHVIKEA  144 (264)
Q Consensus       122 ~~~I~G~~GsGKTtl~~~l~~~~  144 (264)
                      .++|.|++||||||++..++...
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~~   24 (216)
T 3fb4_A            2 NIVLMGLPGAGKGTQAEQIIEKY   24 (216)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            47899999999999999987754

>1tq4_A IIGP1, interferon-inducible GTPase; interferon gamma, dimer, immunology, signaling protein; HET: GDP; 1.95A {Mus musculus} SCOP: c.37.1.8 PDB: 1tqd_A* 1tq6_A* 1tpz_A* 1tq2_A*

Probab=96.52  E-value=0.00045  Score=62.59  Aligned_cols=25  Identities=20%  Similarity=0.171  Sum_probs=21.2

Q ss_pred             CcEEEEEecCCCChHHHHHHHHHHH
Q 024705          120 GRIVEIYGREASGKTTLALHVIKEA  144 (264)
Q Consensus       120 G~~~~I~G~~GsGKTtl~~~l~~~~  144 (264)
                      +.++.|.||||+|||||+..++...
T Consensus        69 ~~~valvG~nGaGKSTLln~L~Gl~   93 (413)
T 1tq4_A           69 VLNVAVTGETGSGKSSFINTLRGIG   93 (413)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHTCC
T ss_pred             CeEEEEECCCCCcHHHHHHHHhCCC
Confidence            3399999999999999988887643

>4tmk_A Protein (thymidylate kinase); ATP:DTMP phosphotransferase, transferase; HET: T5A; 1.98A {Escherichia coli} SCOP: c.37.1.1 PDB: 5tmp_A*

Probab=96.51  E-value=0.0035  Score=51.54  Aligned_cols=36  Identities=28%  Similarity=0.382  Sum_probs=30.0

Q ss_pred             CCcEEEEEecCCCChHHHHHHHHHHHhhcCC-eEEEE
Q 024705          119 KGRIVEIYGREASGKTTLALHVIKEAQKLGG-YCAYL  154 (264)
Q Consensus       119 ~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~-~v~~~  154 (264)
                      +|.++.|.|++||||||.+..++..+...|. .+.+.
T Consensus         2 ~g~~i~~eG~~gsGKsT~~~~l~~~l~~~~~~~v~~~   38 (213)
T 4tmk_A            2 RSKYIVIEGLEGAGKTTARNVVVETLEQLGIRDMVFT   38 (213)
T ss_dssp             CCCEEEEEECTTSCHHHHHHHHHHHHHHTTCCCEEEE
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHcCCCcceee
Confidence            4789999999999999999999988877776 45443

>1zuh_A Shikimate kinase; alpha-beta protein, transferase; 1.80A {Helicobacter pylori} PDB: 1zui_A* 3hr7_A 3muf_A* 3mrs_A 3n2e_A*

Probab=96.50  E-value=0.0018  Score=50.51  Aligned_cols=24  Identities=25%  Similarity=0.243  Sum_probs=21.3

Q ss_pred             cEEEEEecCCCChHHHHHHHHHHH
Q 024705          121 RIVEIYGREASGKTTLALHVIKEA  144 (264)
Q Consensus       121 ~~~~I~G~~GsGKTtl~~~l~~~~  144 (264)
                      +++.|.|++||||||++..++..+
T Consensus         8 ~~i~l~G~~GsGKSTva~~La~~l   31 (168)
T 1zuh_A            8 QHLVLIGFMGSGKSSLAQELGLAL   31 (168)
T ss_dssp             CEEEEESCTTSSHHHHHHHHHHHH
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHh
Confidence            578999999999999999888754

>1ukz_A Uridylate kinase; transferase; HET: ADP AMP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1uky_A*

Probab=96.47  E-value=0.002  Score=51.91  Aligned_cols=25  Identities=20%  Similarity=0.385  Sum_probs=21.4

Q ss_pred             CCcEEEEEecCCCChHHHHHHHHHH
Q 024705          119 KGRIVEIYGREASGKTTLALHVIKE  143 (264)
Q Consensus       119 ~G~~~~I~G~~GsGKTtl~~~l~~~  143 (264)
                      +..+++|.|++||||||++..++..
T Consensus        14 ~~~~I~l~G~~GsGKsT~~~~L~~~   38 (203)
T 1ukz_A           14 QVSVIFVLGGPGAGKGTQCEKLVKD   38 (203)
T ss_dssp             TCEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHH
Confidence            3468999999999999999888764

>1t9h_A YLOQ, probable GTPase ENGC; N-terminal beta-barrel domain with oligonucleotide binding fold, central GTP binding domain; 1.60A {Bacillus subtilis} SCOP: b.40.4.5 c.37.1.8

Probab=96.46  E-value=0.00037  Score=60.72  Aligned_cols=36  Identities=14%  Similarity=0.085  Sum_probs=23.5

Q ss_pred             CCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEE
Q 024705          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCA  152 (264)
Q Consensus       117 l~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~  152 (264)
                      +.+|+++.|.||||+|||||+..++.......+.+.
T Consensus       170 ~~~G~~~~lvG~sG~GKSTLln~L~g~~~~~~G~I~  205 (307)
T 1t9h_A          170 HFQDKTTVFAGQSGVGKSSLLNAISPELGLRTNEIS  205 (307)
T ss_dssp             GGTTSEEEEEESHHHHHHHHHHHHCC----------
T ss_pred             hcCCCEEEEECCCCCCHHHHHHHhccccccccccee
Confidence            557899999999999999999888766544444443

>1e6c_A Shikimate kinase; phosphoryl transfer, ADP, shikimate pathway, P-loop protein, transferase; 1.8A {Erwinia chrysanthemi} SCOP: c.37.1.2 PDB: 1shk_A 2shk_A*

Probab=96.45  E-value=0.0016  Score=50.76  Aligned_cols=24  Identities=17%  Similarity=0.260  Sum_probs=20.9

Q ss_pred             cEEEEEecCCCChHHHHHHHHHHH
Q 024705          121 RIVEIYGREASGKTTLALHVIKEA  144 (264)
Q Consensus       121 ~~~~I~G~~GsGKTtl~~~l~~~~  144 (264)
                      .++.|.|++||||||++..++..+
T Consensus         3 ~~I~l~G~~GsGKsT~a~~La~~l   26 (173)
T 1e6c_A            3 EPIFMVGARGCGMTTVGRELARAL   26 (173)
T ss_dssp             CCEEEESCTTSSHHHHHHHHHHHH
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHh
Confidence            368999999999999999988754

>3m6a_A ATP-dependent protease LA 1; alpha, beta, ATP-binding, hydrolase, nucleotide-binding, Pro serine protease, stress response; HET: ADP; 3.40A {Bacillus subtilis} PDB: 1x37_A

Probab=96.45  E-value=0.0016  Score=61.17  Aligned_cols=26  Identities=38%  Similarity=0.506  Sum_probs=24.2

Q ss_pred             CCcEEEEEecCCCChHHHHHHHHHHH
Q 024705          119 KGRIVEIYGREASGKTTLALHVIKEA  144 (264)
Q Consensus       119 ~G~~~~I~G~~GsGKTtl~~~l~~~~  144 (264)
                      +|..++|+||||+||||++..++...
T Consensus       107 ~g~~vll~Gp~GtGKTtlar~ia~~l  132 (543)
T 3m6a_A          107 KGPILCLAGPPGVGKTSLAKSIAKSL  132 (543)
T ss_dssp             CSCEEEEESSSSSSHHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHhc
Confidence            79999999999999999999998876

>3pxg_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 3.65A {Bacillus subtilis}

Probab=96.45  E-value=0.0034  Score=57.73  Aligned_cols=29  Identities=17%  Similarity=0.188  Sum_probs=24.3

Q ss_pred             CCCcEEEEEecCCCChHHHHHHHHHHHhh
Q 024705          118 PKGRIVEIYGREASGKTTLALHVIKEAQK  146 (264)
Q Consensus       118 ~~G~~~~I~G~~GsGKTtl~~~l~~~~~~  146 (264)
                      .....++|+||||+|||+++..++..+..
T Consensus       199 ~~~~~~LL~G~pG~GKT~la~~la~~l~~  227 (468)
T 3pxg_A          199 RTKNNPVLIGEPGVGKTAIAEGLAQQIIN  227 (468)
T ss_dssp             SSSCEEEEESCTTTTTHHHHHHHHHHHHS
T ss_pred             cCCCCeEEECCCCCCHHHHHHHHHHHHHh
Confidence            34556899999999999999999988753

>1pui_A ENGB, probable GTP-binding protein ENGB; structural genomics, nysgxrc T16, GTPase, PSI, protein structure initiative; 2.00A {Escherichia coli} SCOP: c.37.1.8

Probab=96.45  E-value=0.001  Score=53.59  Aligned_cols=27  Identities=22%  Similarity=0.299  Sum_probs=23.8

Q ss_pred             CCCCcEEEEEecCCCChHHHHHHHHHH
Q 024705          117 LPKGRIVEIYGREASGKTTLALHVIKE  143 (264)
Q Consensus       117 l~~G~~~~I~G~~GsGKTtl~~~l~~~  143 (264)
                      +++|..++|.|+||+|||||+..++..
T Consensus        23 ~~~~~~v~lvG~~g~GKSTLl~~l~g~   49 (210)
T 1pui_A           23 SDTGIEVAFAGRSNAGKSSALNTLTNQ   49 (210)
T ss_dssp             CSCSEEEEEEECTTSSHHHHHTTTCCC
T ss_pred             CCCCcEEEEECCCCCCHHHHHHHHhCC
Confidence            678999999999999999998887643

>1ofu_X SULA, hypothetical protein PA3008; bacterial cell division inhibitor, SULA protein; HET: GDP; 2.1A {Pseudomonas aeruginosa} SCOP: c.37.1.22

Probab=96.44  E-value=0.098  Score=38.72  Aligned_cols=86  Identities=14%  Similarity=0.169  Sum_probs=70.5

Q ss_pred             CcEEEEE-ecCCCChHHHHHHHHHHHhh--cCCeEEEEecCCCCCHHHHHHcCCCccceeEeCCCCHHHHHHHHHHHhhc
Q 024705          120 GRIVEIY-GREASGKTTLALHVIKEAQK--LGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTKS  196 (264)
Q Consensus       120 G~~~~I~-G~~GsGKTtl~~~l~~~~~~--~g~~v~~~~~e~~~~~~~~~~~g~~~~~l~~~~~~~~ee~~~~i~~~~~~  196 (264)
                      +.++++. -.+|.|-..++.-+......  .++.++|+..............|++++++.+.++.+..+.++.+++.++.
T Consensus         2 ~~l~Ell~~~~g~~e~~lLlp~L~~l~~~~~~r~ilwi~pp~~~~~~~L~~~Gl~~~rll~v~~~~~~d~lwa~EqaLrs   81 (119)
T 1ofu_X            2 AAFSELSLSGLPGHCLTLLAPILRELSEEQDARWLTLIAPPASLTHEWLRRAGLNRERILLLQAKDNAAALALSCEALRL   81 (119)
T ss_dssp             CEEEEEEEESCHHHHHHHHHHHHHHHTTCSSSSEEEEESCCTTSCHHHHHHTTCCTTSEEEECCSSHHHHHHHHHHHHHH
T ss_pred             CceEEEeecCCCccHHHHHHHHHHHhcccccCccEEEECCCCCCCHHHHHHcCCChHHEEEEECCCcHHHHHHHHHHHhc
Confidence            3456654 45788877777777777765  78899999877666666777899999999999999999999999999999


Q ss_pred             CCccEEEEc
Q 024705          197 GSIDVIVVD  205 (264)
Q Consensus       197 ~~~~~vvID  205 (264)
                      +.+..|+..
T Consensus        82 g~~~aVl~w   90 (119)
T 1ofu_X           82 GRSHTVVSW   90 (119)
T ss_dssp             TCEEEEEEC
T ss_pred             CCccEEEEC
Confidence            999988875

>1q3t_A Cytidylate kinase; nucleotide monophosphate kinase, CMP kinase, transferase; NMR {Streptococcus pneumoniae} SCOP: c.37.1.1

Probab=96.43  E-value=0.0023  Score=53.04  Aligned_cols=28  Identities=32%  Similarity=0.313  Sum_probs=23.7

Q ss_pred             CCCCcEEEEEecCCCChHHHHHHHHHHH
Q 024705          117 LPKGRIVEIYGREASGKTTLALHVIKEA  144 (264)
Q Consensus       117 l~~G~~~~I~G~~GsGKTtl~~~l~~~~  144 (264)
                      ..+|.++.|.|++||||||++..++..+
T Consensus        13 ~~~~~~i~i~G~~gsGKst~~~~l~~~l   40 (236)
T 1q3t_A           13 KMKTIQIAIDGPASSGKSTVAKIIAKDF   40 (236)
T ss_dssp             -CCCCEEEEECSSCSSHHHHHHHHHHHH
T ss_pred             ccCCcEEEEECCCCCCHHHHHHHHHHHc
Confidence            4678899999999999999998887644

>2qmh_A HPR kinase/phosphorylase; V267F mutation, ATP-binding, carbohydrate metabolism, magnesium, metal-binding, multifunctional enzyme; 2.60A {Lactobacillus casei} PDB: 1jb1_A 1kkl_A 1kkm_A*

Probab=96.43  E-value=0.0018  Score=52.72  Aligned_cols=25  Identities=32%  Similarity=0.401  Sum_probs=21.6

Q ss_pred             CCcEEEEEecCCCChHHHHHHHHHH
Q 024705          119 KGRIVEIYGREASGKTTLALHVIKE  143 (264)
Q Consensus       119 ~G~~~~I~G~~GsGKTtl~~~l~~~  143 (264)
                      .|..++|.||+|+||||++..++..
T Consensus        33 ~g~~ilI~GpsGsGKStLA~~La~~   57 (205)
T 2qmh_A           33 YGLGVLITGDSGVGKSETALELVQR   57 (205)
T ss_dssp             TTEEEEEECCCTTTTHHHHHHHHTT
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHh
Confidence            3677999999999999999988763

>2wsm_A Hydrogenase expression/formation protein (HYPB); metal binding protein; 2.30A {Archaeoglobus fulgidus}

Probab=96.42  E-value=0.0038  Score=50.72  Aligned_cols=38  Identities=24%  Similarity=0.116  Sum_probs=30.6

Q ss_pred             cEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCC
Q 024705          121 RIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENA  159 (264)
Q Consensus       121 ~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~  159 (264)
                      -.+.|+|++|+|||||+..++...... .++..++.+..
T Consensus        31 ~~i~i~G~~g~GKTTl~~~l~~~~~~~-~~~~~i~~d~~   68 (221)
T 2wsm_A           31 VAVNIMGAIGSGKTLLIERTIERIGNE-VKIGAMLGDVV   68 (221)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHHHHTTT-SCEEEEECSCC
T ss_pred             eEEEEEcCCCCCHHHHHHHHHHHhccC-CeEEEEecCCC
Confidence            468899999999999999999876544 67777776654

>3d3q_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2; 2.70A {Staphylococcus epidermidis atcc 12228}

Probab=96.42  E-value=0.0026  Score=56.01  Aligned_cols=33  Identities=30%  Similarity=0.409  Sum_probs=26.4

Q ss_pred             cEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCC
Q 024705          121 RIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVEN  158 (264)
Q Consensus       121 ~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~  158 (264)
                      .+++|+||+||||||++..++...   +  +.+++.|.
T Consensus         8 ~lI~I~GptgSGKTtla~~La~~l---~--~~iis~Ds   40 (340)
T 3d3q_A            8 FLIVIVGPTASGKTELSIEVAKKF---N--GEIISGDS   40 (340)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHT---T--EEEEECCS
T ss_pred             ceEEEECCCcCcHHHHHHHHHHHc---C--Cceecccc
Confidence            479999999999999999998754   2  45666654

>3ld9_A DTMP kinase, thymidylate kinase; ssgcid, NIH, niaid, SBRI, UW, emerald biostructures, ehrlich chaffeensis; 2.15A {Ehrlichia chaffeensis}

Probab=96.40  E-value=0.0031  Score=52.26  Aligned_cols=40  Identities=25%  Similarity=0.268  Sum_probs=33.2

Q ss_pred             CCCcEEEEEecCCCChHHHHHHHHHHHhh-cCCeEEEEecC
Q 024705          118 PKGRIVEIYGREASGKTTLALHVIKEAQK-LGGYCAYLDVE  157 (264)
Q Consensus       118 ~~G~~~~I~G~~GsGKTtl~~~l~~~~~~-~g~~v~~~~~e  157 (264)
                      .+|.++.|.|++||||||++..++..+.. .|..+.++..|
T Consensus        19 ~~~~~i~~~G~~g~GKst~~~~l~~~l~~~~g~~v~~~tre   59 (223)
T 3ld9_A           19 PGSMFITFEGIDGSGKTTQSHLLAEYLSEIYGVNNVVLTRE   59 (223)
T ss_dssp             CCCEEEEEECSTTSSHHHHHHHHHHHHHHHHCGGGEEEEES
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHhhccCceeeEeeeC
Confidence            46889999999999999999999988877 77777763433

>3dl0_A Adenylate kinase; phosphotransferase, zinc coordination, ATP-binding, binding, nucleotide biosynthesis, nucleotide-binding, trans; HET: AP5; 1.58A {Bacillus subtilis} PDB: 1p3j_A* 2ori_A* 2eu8_A* 2oo7_A* 2p3s_A* 2qaj_A* 2osb_A* 3dkv_A* 1zin_A* 1zio_A* 1zip_A* 1s3g_A*

Probab=96.38  E-value=0.0021  Score=52.34  Aligned_cols=22  Identities=18%  Similarity=0.330  Sum_probs=19.2

Q ss_pred             EEEEEecCCCChHHHHHHHHHH
Q 024705          122 IVEIYGREASGKTTLALHVIKE  143 (264)
Q Consensus       122 ~~~I~G~~GsGKTtl~~~l~~~  143 (264)
                      .++|.|+|||||||++..++..
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~   23 (216)
T 3dl0_A            2 NLVLMGLPGAGKGTQGERIVEK   23 (216)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            4789999999999999988764

>3r20_A Cytidylate kinase; structural genomics, seattle structural genomics center for infectious disease, ssgcid, ADP, DCMP, D transferase; 2.00A {Mycobacterium smegmatis} SCOP: c.37.1.0 PDB: 3r8c_A 4die_A*

Probab=96.38  E-value=0.0022  Score=53.55  Aligned_cols=25  Identities=16%  Similarity=0.365  Sum_probs=21.9

Q ss_pred             CcEEEEEecCCCChHHHHHHHHHHH
Q 024705          120 GRIVEIYGREASGKTTLALHVIKEA  144 (264)
Q Consensus       120 G~~~~I~G~~GsGKTtl~~~l~~~~  144 (264)
                      .-++.|.||+||||||++..++..+
T Consensus         9 ~~~i~i~G~~GsGKsTla~~la~~l   33 (233)
T 3r20_A            9 SLVVAVDGPAGTGKSSVSRGLARAL   33 (233)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHh
Confidence            4589999999999999999988755

>1vht_A Dephospho-COA kinase; structural genomics, transferase; HET: BA3; 1.59A {Escherichia coli} SCOP: c.37.1.1 PDB: 1vhl_A* 1viy_A 1t3h_A 1n3b_A

Probab=96.38  E-value=0.0022  Score=52.26  Aligned_cols=24  Identities=33%  Similarity=0.321  Sum_probs=20.8

Q ss_pred             CCcEEEEEecCCCChHHHHHHHHH
Q 024705          119 KGRIVEIYGREASGKTTLALHVIK  142 (264)
Q Consensus       119 ~G~~~~I~G~~GsGKTtl~~~l~~  142 (264)
                      ++-++.|.|++||||||++..++.
T Consensus         3 ~~~~I~i~G~~GSGKST~~~~L~~   26 (218)
T 1vht_A            3 LRYIVALTGGIGSGKSTVANAFAD   26 (218)
T ss_dssp             CCEEEEEECCTTSCHHHHHHHHHH
T ss_pred             CceEEEEECCCCCCHHHHHHHHHH
Confidence            456899999999999999988865

>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=96.38  E-value=0.0024  Score=51.16  Aligned_cols=32  Identities=34%  Similarity=0.417  Sum_probs=25.1

Q ss_pred             CcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecC
Q 024705          120 GRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVE  157 (264)
Q Consensus       120 G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e  157 (264)
                      ..++.|.|++||||||++..++..    |  +.+++.+
T Consensus         8 ~~~I~i~G~~GsGKST~~~~La~~----g--~~~id~d   39 (203)
T 1uf9_A            8 PIIIGITGNIGSGKSTVAALLRSW----G--YPVLDLD   39 (203)
T ss_dssp             CEEEEEEECTTSCHHHHHHHHHHT----T--CCEEEHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHC----C--CEEEccc
Confidence            468999999999999999888763    3  4466654

>2pt5_A Shikimate kinase, SK; aromatic amino acid biosynthesis, P-loop kinase, SHI kinase, shikimate pathway; 2.10A {Aquifex aeolicus}

Probab=96.34  E-value=0.0026  Score=49.45  Aligned_cols=23  Identities=22%  Similarity=0.263  Sum_probs=20.2

Q ss_pred             EEEEEecCCCChHHHHHHHHHHH
Q 024705          122 IVEIYGREASGKTTLALHVIKEA  144 (264)
Q Consensus       122 ~~~I~G~~GsGKTtl~~~l~~~~  144 (264)
                      .+.|.|++||||||++..++...
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~l   24 (168)
T 2pt5_A            2 RIYLIGFMCSGKSTVGSLLSRSL   24 (168)
T ss_dssp             EEEEESCTTSCHHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHHh
Confidence            57899999999999999888754

>3k1j_A LON protease, ATP-dependent protease LON; ATP-binding, nucleotide-binding, Pro hydrolase; HET: ADP PE8; 2.00A {Thermococcus onnurineus}

Probab=96.34  E-value=0.0017  Score=61.70  Aligned_cols=39  Identities=15%  Similarity=0.045  Sum_probs=29.5

Q ss_pred             CCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEe
Q 024705          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLD  155 (264)
Q Consensus       117 l~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~  155 (264)
                      +..|..++|+||||+||||++..++..........+++.
T Consensus        57 i~~g~~vll~Gp~GtGKTtlar~ia~~l~~~~~~~~~~~   95 (604)
T 3k1j_A           57 ANQKRHVLLIGEPGTGKSMLGQAMAELLPTETLEDILVF   95 (604)
T ss_dssp             HHTTCCEEEECCTTSSHHHHHHHHHHTSCCSSCEEEEEE
T ss_pred             ccCCCEEEEEeCCCCCHHHHHHHHhccCCcccCCeEEEe
Confidence            446689999999999999999999886654443444443

>1ak2_A Adenylate kinase isoenzyme-2; nucleoside monophosphate kinase, phosphotransferase; 1.92A {Bos taurus} SCOP: c.37.1.1 g.41.2.1 PDB: 2ak2_A 2c9y_A*

Probab=96.33  E-value=0.0029  Score=52.33  Aligned_cols=26  Identities=31%  Similarity=0.339  Sum_probs=22.8

Q ss_pred             CCcEEEEEecCCCChHHHHHHHHHHH
Q 024705          119 KGRIVEIYGREASGKTTLALHVIKEA  144 (264)
Q Consensus       119 ~G~~~~I~G~~GsGKTtl~~~l~~~~  144 (264)
                      ++..++|.|++||||||++..++...
T Consensus        15 ~~~~I~l~G~~GsGKsT~a~~La~~l   40 (233)
T 1ak2_A           15 KGVRAVLLGPPGAGKGTQAPKLAKNF   40 (233)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            45689999999999999999998765

>3hws_A ATP-dependent CLP protease ATP-binding subunit CL; CLPXP, AAA+ molecular machine, hexamer, asymmetric,, ATP-BIN chaperone, metal-binding; HET: ADP; 3.25A {Escherichia coli} PDB: 3hte_A

Probab=96.29  E-value=0.0032  Score=55.62  Aligned_cols=34  Identities=24%  Similarity=0.162  Sum_probs=26.7

Q ss_pred             CCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEe
Q 024705          119 KGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLD  155 (264)
Q Consensus       119 ~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~  155 (264)
                      ++..++|+||||+|||+++..++..+   +.+.+.++
T Consensus        50 ~~~~vll~GppGtGKT~la~~ia~~~---~~~~~~~~   83 (363)
T 3hws_A           50 GKSNILLIGPTGSGKTLLAETLARLL---DVPFTMAD   83 (363)
T ss_dssp             CCCCEEEECCTTSSHHHHHHHHHHHT---TCCEEEEE
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHHc---CCCEEEec
Confidence            45678999999999999999998765   45555554

>2o5v_A DNA replication and repair protein RECF; ABC ATPase, walker A motif, P-loop, signature motif, replication/recombination complex; HET: DNA; 1.61A {Deinococcus radiodurans}

Probab=96.26  E-value=0.0027  Score=56.47  Aligned_cols=25  Identities=36%  Similarity=0.671  Sum_probs=22.1

Q ss_pred             CCCCcEEEEEecCCCChHHHHHHHHH
Q 024705          117 LPKGRIVEIYGREASGKTTLALHVIK  142 (264)
Q Consensus       117 l~~G~~~~I~G~~GsGKTtl~~~l~~  142 (264)
                      +.+| +++|+||||+||||++..+..
T Consensus        24 ~~~g-~~~i~G~nG~GKttll~ai~~   48 (359)
T 2o5v_A           24 FPEG-VTGIYGENGAGKTNLLEAAYL   48 (359)
T ss_dssp             CCSE-EEEEECCTTSSHHHHHHHHHH
T ss_pred             EcCC-eEEEECCCCCChhHHHHHHHH
Confidence            5577 999999999999999888875

>1w1w_A Structural maintenance of chromosome 1; cohesin, chromosome segregation, cell adhesion, kleisin, MIT cell cycle; HET: ATG; 2.90A {Saccharomyces cerevisiae} SCOP: c.37.1.12

Probab=96.24  E-value=0.0028  Score=57.50  Aligned_cols=28  Identities=18%  Similarity=0.241  Sum_probs=23.8

Q ss_pred             CCCCcEEEEEecCCCChHHHHHHHHHHH
Q 024705          117 LPKGRIVEIYGREASGKTTLALHVIKEA  144 (264)
Q Consensus       117 l~~G~~~~I~G~~GsGKTtl~~~l~~~~  144 (264)
                      +.+|.+++|.||||+||||++..+...+
T Consensus        23 ~~~~~~~~i~G~nG~GKstll~ai~~~~   50 (430)
T 1w1w_A           23 FGESNFTSIIGPNGSGKSNMMDAISFVL   50 (430)
T ss_dssp             CTTCSEEEEECSTTSSHHHHHHHHHHHT
T ss_pred             ecCCCEEEEECCCCCCHHHHHHHHHhhh
Confidence            4568999999999999999988887643

>2xb4_A Adenylate kinase; ATP-binding, nucleotide-binding, transferase; HET: SRT; 1.80A {Desulfovibrio gigas} PDB: 3l0s_A* 3l0p_A*

Probab=96.23  E-value=0.003  Score=51.91  Aligned_cols=23  Identities=30%  Similarity=0.319  Sum_probs=20.4

Q ss_pred             EEEEEecCCCChHHHHHHHHHHH
Q 024705          122 IVEIYGREASGKTTLALHVIKEA  144 (264)
Q Consensus       122 ~~~I~G~~GsGKTtl~~~l~~~~  144 (264)
                      +++|.|++||||||++..++...
T Consensus         2 ~I~l~G~~GsGKsT~a~~La~~l   24 (223)
T 2xb4_A            2 NILIFGPNGSGKGTQGNLVKDKY   24 (223)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            57899999999999999988755

>2v6i_A RNA helicase; membrane, hydrolase, transmembrane, RNA replication, viral replication, nucleotide-binding; 2.10A {Kokobera virus} PDB: 2v6j_A

Probab=96.22  E-value=0.016  Score=52.46  Aligned_cols=37  Identities=22%  Similarity=0.167  Sum_probs=29.1

Q ss_pred             CCcEEEEEecCCCChHHHH-HHHHHHHhhcCCeEEEEe
Q 024705          119 KGRIVEIYGREASGKTTLA-LHVIKEAQKLGGYCAYLD  155 (264)
Q Consensus       119 ~G~~~~I~G~~GsGKTtl~-~~l~~~~~~~g~~v~~~~  155 (264)
                      +|+.+++.||+|+|||..+ ..++..+...|.+++|+.
T Consensus         1 kg~~~lv~a~TGsGKT~~~l~~~l~~~~~~g~~~lvl~   38 (431)
T 2v6i_A            1 KRELTVLDLHPGAGKTRRVLPQLVREAVKKRLRTVILA   38 (431)
T ss_dssp             -CCEEEEECCTTSCTTTTHHHHHHHHHHHTTCCEEEEE
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHHHHHHHhCCCCEEEEC
Confidence            4788999999999999975 445546667777888886

>2xj4_A MIPZ; replication, cell division, ATPase, WACA; 1.60A {Caulobacter vibrioides} PDB: 2xj9_A* 2xit_A

Probab=96.21  E-value=0.0041  Score=53.16  Aligned_cols=37  Identities=22%  Similarity=0.397  Sum_probs=32.8

Q ss_pred             EEEEE-ecCCCChHHHHHHHHHHHhhcCCeEEEEecCC
Q 024705          122 IVEIY-GREASGKTTLALHVIKEAQKLGGYCAYLDVEN  158 (264)
Q Consensus       122 ~~~I~-G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~  158 (264)
                      ++.|+ +..|+||||++.+++..++..|.+|+++|.+.
T Consensus         6 vI~v~s~KGGvGKTT~a~nLA~~La~~G~~VlliD~D~   43 (286)
T 2xj4_A            6 VIVVGNEKGGAGKSTIAVHLVTALLYGGAKVAVIDLDL   43 (286)
T ss_dssp             EEEECCSSSCTTHHHHHHHHHHHHHHTTCCEEEEECCT
T ss_pred             EEEEEcCCCCCCHHHHHHHHHHHHHHCCCcEEEEECCC
Confidence            45554 67999999999999999999999999999987

>2va8_A SSO2462, SKI2-type helicase; hydrolase, DNA repair, ATP-bindin nucleotide-binding; 2.30A {Sulfolobus solfataricus}

Probab=96.20  E-value=0.029  Score=54.03  Aligned_cols=96  Identities=23%  Similarity=0.215  Sum_probs=55.9

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHh-hcCCeEEEEecCCCCCHHHHHH------cCCCcccee---------EeC
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQ-KLGGYCAYLDVENALDPSLAEA------MGIDAENLL---------IAQ  179 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~-~~g~~v~~~~~e~~~~~~~~~~------~g~~~~~l~---------~~~  179 (264)
                      ++..|..+++.||+|||||+.+...+.... ..+++++|+.--........+.      +|+......         ...
T Consensus        42 ~~~~~~~~lv~apTGsGKT~~~~l~il~~~~~~~~~il~i~P~r~La~q~~~~~~~~~~~g~~v~~~~G~~~~~~~~~~~  121 (715)
T 2va8_A           42 GLLEGNRLLLTSPTGSGKTLIAEMGIISFLLKNGGKAIYVTPLRALTNEKYLTFKDWELIGFKVAMTSGDYDTDDAWLKN  121 (715)
T ss_dssp             TTTTTCCEEEECCTTSCHHHHHHHHHHHHHHHSCSEEEEECSCHHHHHHHHHHHGGGGGGTCCEEECCSCSSSCCGGGGG
T ss_pred             HhcCCCcEEEEcCCCCcHHHHHHHHHHHHHHHCCCeEEEEeCcHHHHHHHHHHHHHhhcCCCEEEEEeCCCCCchhhcCC
Confidence            466788999999999999998866665544 3688898886322111111111      232211000         000


Q ss_pred             ----CCCHHHHHHHHHHHhh-cCCccEEEEcCccccc
Q 024705          180 ----PDSAENLLSVVDTLTK-SGSIDVIVVDSVAALI  211 (264)
Q Consensus       180 ----~~~~ee~~~~i~~~~~-~~~~~~vvIDsl~~~~  211 (264)
                          ..+.+.+...+..... -.++++||||.+..+.
T Consensus       122 ~~Iiv~Tpe~l~~~~~~~~~~l~~~~~vIiDE~H~l~  158 (715)
T 2va8_A          122 YDIIITTYEKLDSLWRHRPEWLNEVNYFVLDELHYLN  158 (715)
T ss_dssp             CSEEEECHHHHHHHHHHCCGGGGGEEEEEECSGGGGG
T ss_pred             CCEEEEcHHHHHHHHhCChhHhhccCEEEEechhhcC
Confidence                1245655555544211 2467899999998764

>1e4v_A Adenylate kinase; transferase(phosphotransferase); HET: AP5; 1.85A {Escherichia coli} SCOP: c.37.1.1 g.41.2.1 PDB: 1e4y_A* 1ake_A* 1ank_A* 2eck_A* 3hpq_A* 4ake_A 3hpr_A*

Probab=96.15  E-value=0.0036  Score=50.95  Aligned_cols=23  Identities=22%  Similarity=0.343  Sum_probs=20.1

Q ss_pred             EEEEEecCCCChHHHHHHHHHHH
Q 024705          122 IVEIYGREASGKTTLALHVIKEA  144 (264)
Q Consensus       122 ~~~I~G~~GsGKTtl~~~l~~~~  144 (264)
                      .++|.|++||||||++..++...
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~~   24 (214)
T 1e4v_A            2 RIILLGAPVAGKGTQAQFIMEKY   24 (214)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            37899999999999999988754

>1qhl_A Protein (cell division protein MUKB); SMC, chromosome partitioning; 2.20A {Escherichia coli} SCOP: c.37.1.12

Probab=96.14  E-value=0.00029  Score=58.67  Aligned_cols=33  Identities=12%  Similarity=0.128  Sum_probs=24.6

Q ss_pred             cEEEEEecCCCChHHHHHHHHHHHhhcCCeEEE
Q 024705          121 RIVEIYGREASGKTTLALHVIKEAQKLGGYCAY  153 (264)
Q Consensus       121 ~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~  153 (264)
                      +++.|.|||||||||++..++....+..+.+.+
T Consensus        28 ~~~~i~GpnGsGKSTll~~i~g~~~~~~G~i~~   60 (227)
T 1qhl_A           28 LVTTLSGGNGAGKSTTMAAFVTALIPDLTLLHF   60 (227)
T ss_dssp             HHHHHHSCCSHHHHHHHHHHHHHHSCCTTTC--
T ss_pred             cEEEEECCCCCCHHHHHHHHhcccccCCCeEEE
Confidence            456799999999999999988877655444433

>3a8t_A Adenylate isopentenyltransferase; rossmann fold protein; HET: ATP; 2.37A {Humulus lupulus}

Probab=96.13  E-value=0.0032  Score=55.41  Aligned_cols=37  Identities=14%  Similarity=0.345  Sum_probs=28.1

Q ss_pred             CCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCC
Q 024705          118 PKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENA  159 (264)
Q Consensus       118 ~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~  159 (264)
                      .++.+++|+||+|||||||+..++..+   +  .-+++.|..
T Consensus        38 ~~~~lIvI~GPTgsGKTtLa~~LA~~l---~--~eiIs~Ds~   74 (339)
T 3a8t_A           38 RKEKLLVLMGATGTGKSRLSIDLAAHF---P--LEVINSDKM   74 (339)
T ss_dssp             CCCEEEEEECSTTSSHHHHHHHHHTTS---C--EEEEECCSS
T ss_pred             cCCceEEEECCCCCCHHHHHHHHHHHC---C--CcEEccccc
Confidence            456799999999999999999988643   3  345665543

>3ake_A Cytidylate kinase; CMP kinase, CMP complex, open conformation, nucleotide metab transferase; HET: C5P; 1.50A {Thermus thermophilus} PDB: 3akc_A* 3akd_A*

Probab=96.12  E-value=0.0037  Score=50.20  Aligned_cols=23  Identities=43%  Similarity=0.514  Sum_probs=20.7

Q ss_pred             EEEEEecCCCChHHHHHHHHHHH
Q 024705          122 IVEIYGREASGKTTLALHVIKEA  144 (264)
Q Consensus       122 ~~~I~G~~GsGKTtl~~~l~~~~  144 (264)
                      ++.|.|++||||||++..++..+
T Consensus         4 ~i~i~G~~GsGKst~~~~la~~l   26 (208)
T 3ake_A            4 IVTIDGPSASGKSSVARRVAAAL   26 (208)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHhc
Confidence            78999999999999999987754

>1x6v_B Bifunctional 3'-phosphoadenosine 5'- phosphosulfate synthethase 1; transferase, ATP sulfurylase, APS kinase, PAPS; HET: ADP; 1.75A {Homo sapiens} SCOP: b.122.1.3 c.26.1.5 c.37.1.4 PDB: 1xjq_B* 1xnj_B* 2qjf_A* 2ofx_A* 2ofw_A*

Probab=96.09  E-value=0.0046  Score=58.85  Aligned_cols=39  Identities=28%  Similarity=0.263  Sum_probs=32.8

Q ss_pred             CCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEec
Q 024705          118 PKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDV  156 (264)
Q Consensus       118 ~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~  156 (264)
                      .+|.++.|.|.+||||||++..++..+...|..+++++.
T Consensus        50 ~~g~lIvLtGlsGSGKSTlAr~La~~L~~~G~~~v~lDg   88 (630)
T 1x6v_B           50 FRGCTVWLTGLSGAGKTTVSMALEEYLVCHGIPCYTLDG   88 (630)
T ss_dssp             CCCEEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEESH
T ss_pred             CCCCEEEEEeCCCCCHHHHHHHHHHHHHhcCCeEEEech
Confidence            368899999999999999999999887666777777753

>1e9r_A Conjugal transfer protein TRWB; coupling protein, bacterial conjugation, F1-ATPase-like quaternary structure, ring helicases; 2.4A {Escherichia coli} SCOP: c.37.1.11 PDB: 1e9s_A 1gki_A* 1gl7_A* 1gl6_A*

Probab=96.09  E-value=0.0063  Score=55.13  Aligned_cols=38  Identities=18%  Similarity=0.232  Sum_probs=33.2

Q ss_pred             cEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCC
Q 024705          121 RIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVEN  158 (264)
Q Consensus       121 ~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~  158 (264)
                      ..++|.|++|+|||+++..++.++...|..++++|...
T Consensus        54 ~h~~i~G~tGsGKs~~~~~li~~~~~~g~~viv~Dpkg   91 (437)
T 1e9r_A           54 RHLLVNGATGTGKSVLLRELAYTGLLRGDRMVIVDPNG   91 (437)
T ss_dssp             GCEEEEECTTSSHHHHHHHHHHHHHHTTCEEEEEEETT
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEeCCC
Confidence            46899999999999999889988888899999988643

>1oix_A RAS-related protein RAB-11A; small G protein, intracellular trafficking, GTP-binding, lipoprotein, prenylation, protein transport; HET: GDP; 1.7A {Homo sapiens} SCOP: c.37.1.8 PDB: 1oiw_A* 1oiv_A* 3rwo_B* 3rwm_B*

Probab=96.07  E-value=0.0038  Score=49.78  Aligned_cols=23  Identities=22%  Similarity=0.345  Sum_probs=20.2

Q ss_pred             EEEEEecCCCChHHHHHHHHHHH
Q 024705          122 IVEIYGREASGKTTLALHVIKEA  144 (264)
Q Consensus       122 ~~~I~G~~GsGKTtl~~~l~~~~  144 (264)
                      .++|.|++|+|||||+..++...
T Consensus        31 kv~lvG~~g~GKSTLl~~l~~~~   53 (191)
T 1oix_A           31 KVVLIGDSGVGKSNLLSRFTRNE   53 (191)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHSC
T ss_pred             EEEEECcCCCCHHHHHHHHhcCC
Confidence            58999999999999999887753

>1byi_A Dethiobiotin synthase; biotin synthesis, cyclo-ligase, ligase; 0.97A {Escherichia coli} SCOP: c.37.1.10 PDB: 1bs1_A* 1a82_A 1dad_A* 1dae_A* 1daf_A* 1dag_A* 1dah_A* 1dai_A* 1dak_A* 1dam_A* 1dbs_A 1dts_A

Probab=96.06  E-value=0.0069  Score=49.34  Aligned_cols=34  Identities=21%  Similarity=0.164  Sum_probs=29.4

Q ss_pred             EEEEEe-cCCCChHHHHHHHHHHHhhcCCeEEEEe
Q 024705          122 IVEIYG-REASGKTTLALHVIKEAQKLGGYCAYLD  155 (264)
Q Consensus       122 ~~~I~G-~~GsGKTtl~~~l~~~~~~~g~~v~~~~  155 (264)
                      .+.|++ .+|+||||++.+++..++..|.+|++++
T Consensus         3 ~I~v~s~kgGvGKTt~a~nLa~~la~~G~rVll~d   37 (224)
T 1byi_A            3 RYFVTGTDTEVGKTVASCALLQAAKAAGYRTAGYK   37 (224)
T ss_dssp             EEEEEESSTTSCHHHHHHHHHHHHHHTTCCEEEEC
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHHCCCCEEEEc
Confidence            355555 5899999999999999999999999986

>3qks_A DNA double-strand break repair RAD50 ATPase; RECA-like fold, coiled-coils, ATPase, exonuclease, endonucle binding, DNA binding; HET: DNA; 2.10A {Pyrococcus furiosus} PDB: 3qkr_A*

Probab=96.05  E-value=0.0046  Score=50.24  Aligned_cols=25  Identities=28%  Similarity=0.325  Sum_probs=21.1

Q ss_pred             cEEEEEecCCCChHHHHHHHHHHHh
Q 024705          121 RIVEIYGREASGKTTLALHVIKEAQ  145 (264)
Q Consensus       121 ~~~~I~G~~GsGKTtl~~~l~~~~~  145 (264)
                      .+++|+||||+||||++-.+...+-
T Consensus        24 ~~~~I~G~NgsGKStil~ai~~~l~   48 (203)
T 3qks_A           24 GINLIIGQNGSGKSSLLDAILVGLY   48 (203)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHHH
T ss_pred             CeEEEEcCCCCCHHHHHHHHHHHhc
Confidence            5899999999999999888765543

>2hf9_A Probable hydrogenase nickel incorporation protein HYPB; alpha and beta protein; HET: GSP; 1.90A {Methanocaldococcus jannaschii} PDB: 2hf8_A*

Probab=96.01  E-value=0.0068  Score=49.33  Aligned_cols=37  Identities=22%  Similarity=0.174  Sum_probs=28.7

Q ss_pred             cEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCC
Q 024705          121 RIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVEN  158 (264)
Q Consensus       121 ~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~  158 (264)
                      -.++|.|++|+|||||+..++...... .++..+..+.
T Consensus        39 ~~i~ivG~~gvGKTtl~~~l~~~~~~~-~~~~~i~~d~   75 (226)
T 2hf9_A           39 VAFDFMGAIGSGKTLLIEKLIDNLKDK-YKIACIAGDV   75 (226)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHHHTTT-CCEEEEEEET
T ss_pred             eEEEEEcCCCCCHHHHHHHHHHHhccC-CeEEEEECCC
Confidence            458889999999999999999876544 5566666544

>1m8p_A Sulfate adenylyltransferase; rossmann fold, phosphosulfate binding, T-state; HET: PPS; 2.60A {Penicillium chrysogenum} SCOP: b.122.1.3 c.26.1.5 c.37.1.15 PDB: 1i2d_A*

Probab=96.00  E-value=0.0056  Score=57.75  Aligned_cols=39  Identities=21%  Similarity=0.202  Sum_probs=32.4

Q ss_pred             CCcEEEEEecCCCChHHHHHHHHHHHhhcC-CeEEEEecC
Q 024705          119 KGRIVEIYGREASGKTTLALHVIKEAQKLG-GYCAYLDVE  157 (264)
Q Consensus       119 ~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g-~~v~~~~~e  157 (264)
                      +|.++.|.|.+||||||++..++..+...| ..+.+++.+
T Consensus       395 ~~~~I~l~GlsGSGKSTiA~~La~~L~~~G~~~~~~lD~D  434 (573)
T 1m8p_A          395 QGFTIFLTGYMNSGKDAIARALQVTLNQQGGRSVSLLLGD  434 (573)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHHHHHCSSCEEEEEHH
T ss_pred             cceEEEeecCCCCCHHHHHHHHHHHhcccCCceEEEECcH
Confidence            467899999999999999999998876666 667777754

>2f9l_A RAB11B, member RAS oncogene family; RAB11B GTPase, vesicle transport, hydrolase; HET: GDP; 1.55A {Homo sapiens} SCOP: c.37.1.8 PDB: 2f9m_A* 1yzk_A* 2hv8_A* 2gzd_A* 2gzh_A* 2d7c_A* 3bfk_A*

Probab=95.98  E-value=0.0038  Score=49.96  Aligned_cols=22  Identities=23%  Similarity=0.360  Sum_probs=19.5

Q ss_pred             EEEEEecCCCChHHHHHHHHHH
Q 024705          122 IVEIYGREASGKTTLALHVIKE  143 (264)
Q Consensus       122 ~~~I~G~~GsGKTtl~~~l~~~  143 (264)
                      .++|.|++|+|||||+..++..
T Consensus         7 kv~lvG~~g~GKSTLl~~l~~~   28 (199)
T 2f9l_A            7 KVVLIGDSGVGKSNLLSRFTRN   28 (199)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHS
T ss_pred             EEEEECcCCCCHHHHHHHHhcC
Confidence            4789999999999999998874

>3tqf_A HPR(Ser) kinase; transferase, hydrolase; 2.80A {Coxiella burnetii}

Probab=95.97  E-value=0.0047  Score=49.15  Aligned_cols=24  Identities=33%  Similarity=0.371  Sum_probs=21.1

Q ss_pred             CCcEEEEEecCCCChHHHHHHHHH
Q 024705          119 KGRIVEIYGREASGKTTLALHVIK  142 (264)
Q Consensus       119 ~G~~~~I~G~~GsGKTtl~~~l~~  142 (264)
                      .|.-++|.|++|+||||++..++.
T Consensus        15 ~G~gvli~G~SGaGKStlal~L~~   38 (181)
T 3tqf_A           15 DKMGVLITGEANIGKSELSLALID   38 (181)
T ss_dssp             TTEEEEEEESSSSSHHHHHHHHHH
T ss_pred             CCEEEEEEcCCCCCHHHHHHHHHH
Confidence            356799999999999999998876

>3pg5_A Uncharacterized protein; structural genomics, PSI-biology, protein structure initiati northeast structural genomics consortium, NESG; 3.30A {Corynebacterium diphtheriae}

Probab=95.96  E-value=0.0037  Score=55.43  Aligned_cols=39  Identities=23%  Similarity=0.256  Sum_probs=33.7

Q ss_pred             EEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCC
Q 024705          123 VEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALD  161 (264)
Q Consensus       123 ~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~  161 (264)
                      .+..+..|+||||++.+++..++..|.+|+++|.|....
T Consensus         5 av~s~KGGvGKTT~a~nLA~~LA~~G~rVLlID~D~q~~   43 (361)
T 3pg5_A            5 SFFNNKGGVGKTTLSTNVAHYFALQGKRVLYVDCDPQCN   43 (361)
T ss_dssp             EBCCSSCCHHHHHHHHHHHHHHHHTTCCEEEEECCTTCT
T ss_pred             EEEcCCCCCcHHHHHHHHHHHHHhCCCcEEEEEcCCCCC
Confidence            344478999999999999999999999999999987643

>4dcu_A GTP-binding protein ENGA; GTPase, GDP, protein binding, hydrolase; HET: GDP; 2.00A {Bacillus subtilis} PDB: 4dct_A* 4dcs_A* 4dcv_A* 2hjg_A*

Probab=95.96  E-value=0.011  Score=54.15  Aligned_cols=21  Identities=33%  Similarity=0.509  Sum_probs=18.5

Q ss_pred             EEEEEecCCCChHHHHHHHHH
Q 024705          122 IVEIYGREASGKTTLALHVIK  142 (264)
Q Consensus       122 ~~~I~G~~GsGKTtl~~~l~~  142 (264)
                      .++|+|+||+|||||...+..
T Consensus        25 ~V~lvG~~nvGKSTL~n~l~~   45 (456)
T 4dcu_A           25 VVAIVGRPNVGKSTIFNRIAG   45 (456)
T ss_dssp             EEEEECSSSSSHHHHHHHHEE
T ss_pred             EEEEECCCCCcHHHHHHHHhC
Confidence            689999999999999888753

>2ga8_A Hypothetical 39.9 kDa protein; YFR007W, YFH7, unknown function; HET: CME; 1.77A {Saccharomyces cerevisiae} PDB: 2gaa_A*

Probab=95.96  E-value=0.0047  Score=54.72  Aligned_cols=29  Identities=24%  Similarity=0.300  Sum_probs=23.4

Q ss_pred             CCCCcE--EEEEecCCCChHHHHHHHHHHHh
Q 024705          117 LPKGRI--VEIYGREASGKTTLALHVIKEAQ  145 (264)
Q Consensus       117 l~~G~~--~~I~G~~GsGKTtl~~~l~~~~~  145 (264)
                      +++|+.  +.|+|++|+||||++..++..+.
T Consensus        19 i~~g~~~~i~l~G~~G~GKTTl~~~la~~l~   49 (359)
T 2ga8_A           19 IEDNYRVCVILVGSPGSGKSTIAEELCQIIN   49 (359)
T ss_dssp             TTTCSCEEEEEECCTTSSHHHHHHHHHHHHH
T ss_pred             hccCCeeEEEEECCCCCcHHHHHHHHHHHhC
Confidence            345555  99999999999999998887653

>2jlq_A Serine protease subunit NS3; ribonucleoprotein, nucleotide-binding, viral nucleoprotein, endoplasmic reticulum, helicase, hydrolase; 1.67A {Dengue virus 4} PDB: 2jly_A* 2jls_A* 2jlu_A 2jlv_A* 2jlw_A 2jlx_A* 2jlz_A* 2jlr_A* 2bmf_A 2bhr_A

Probab=95.95  E-value=0.022  Score=51.96  Aligned_cols=92  Identities=17%  Similarity=0.186  Sum_probs=52.1

Q ss_pred             CCcEEEEEecCCCChHH-HHHHHHHHHhhcCCeEEEEecCCCCCHHHHHHc-CCCc----ccee-------EeCCCCHHH
Q 024705          119 KGRIVEIYGREASGKTT-LALHVIKEAQKLGGYCAYLDVENALDPSLAEAM-GIDA----ENLL-------IAQPDSAEN  185 (264)
Q Consensus       119 ~G~~~~I~G~~GsGKTt-l~~~l~~~~~~~g~~v~~~~~e~~~~~~~~~~~-g~~~----~~l~-------~~~~~~~ee  185 (264)
                      .++++++.||+|||||+ ++..++..+...+.+++|+.--........+.+ |+..    ....       .....+...
T Consensus        18 ~~~~~lv~a~TGsGKT~~~~~~~l~~~~~~~~~~lvl~Ptr~La~Q~~~~l~g~~v~~~~~~~~~~~~~~~~i~~~t~~~   97 (451)
T 2jlq_A           18 KKRLTIMDLHPGAGKTKRILPSIVREALLRRLRTLILAPTRVVAAEMEEALRGLPIRYQTPAVKSDHTGREIVDLMCHAT   97 (451)
T ss_dssp             TTCEEEECCCTTSSCCTTHHHHHHHHHHHTTCCEEEEESSHHHHHHHHHHTTTSCEEECCTTCSCCCCSSCCEEEEEHHH
T ss_pred             cCCeEEEECCCCCCHhhHHHHHHHHHHHhcCCcEEEECCCHHHHHHHHHHhcCceeeeeeccccccCCCCceEEEEChHH
Confidence            46788999999999999 577777666677778888873221111222333 2221    0000       000012333


Q ss_pred             HHHHHHHHhhcCCccEEEEcCcccc
Q 024705          186 LLSVVDTLTKSGSIDVIVVDSVAAL  210 (264)
Q Consensus       186 ~~~~i~~~~~~~~~~~vvIDsl~~~  210 (264)
                      +...+.....-.+++++|||....+
T Consensus        98 l~~~l~~~~~l~~~~~iViDEah~~  122 (451)
T 2jlq_A           98 FTTRLLSSTRVPNYNLIVMDEAHFT  122 (451)
T ss_dssp             HHHHHHHCSCCCCCSEEEEETTTCC
T ss_pred             HHHHhhCcccccCCCEEEEeCCccC
Confidence            4433333222357899999998855

>2gks_A Bifunctional SAT/APS kinase; transferase, sulfurylase; HET: ADP; 2.31A {Aquifex aeolicus}

Probab=95.94  E-value=0.006  Score=57.21  Aligned_cols=38  Identities=29%  Similarity=0.282  Sum_probs=33.1

Q ss_pred             CcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecC
Q 024705          120 GRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVE  157 (264)
Q Consensus       120 G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e  157 (264)
                      |.++.+.|++||||||++..++..+...|..+.+++.|
T Consensus       372 ~~~I~l~G~~GsGKSTia~~La~~L~~~G~~~~~ld~D  409 (546)
T 2gks_A          372 GFCVWLTGLPCAGKSTIAEILATMLQARGRKVTLLDGD  409 (546)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEECHH
T ss_pred             ceEEEccCCCCCCHHHHHHHHHHHhhhcCCeEEEECch
Confidence            78899999999999999999998877778778888755

>1ltq_A Polynucleotide kinase; phosphatase, alpha/beta, P-loop, transferase; HET: ADP; 2.33A {Enterobacteria phage T4} SCOP: c.108.1.9 c.37.1.1 PDB: 1rc8_A* 1rpz_A* 1rrc_A* 2ia5_A

Probab=95.92  E-value=0.0043  Score=53.15  Aligned_cols=22  Identities=36%  Similarity=0.451  Sum_probs=20.0

Q ss_pred             cEEEEEecCCCChHHHHHHHHH
Q 024705          121 RIVEIYGREASGKTTLALHVIK  142 (264)
Q Consensus       121 ~~~~I~G~~GsGKTtl~~~l~~  142 (264)
                      .+++|.|+|||||||++..++.
T Consensus         3 ~~I~l~G~~GsGKST~a~~L~~   24 (301)
T 1ltq_A            3 KIILTIGCPGSGKSTWAREFIA   24 (301)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            5789999999999999998876

>3exa_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2, protein structure initiative; 2.30A {Bacillus halodurans} PDB: 2qgn_A

Probab=95.91  E-value=0.0048  Score=53.74  Aligned_cols=25  Identities=32%  Similarity=0.456  Sum_probs=21.7

Q ss_pred             CcEEEEEecCCCChHHHHHHHHHHH
Q 024705          120 GRIVEIYGREASGKTTLALHVIKEA  144 (264)
Q Consensus       120 G~~~~I~G~~GsGKTtl~~~l~~~~  144 (264)
                      +.+++|+||+||||||++..++...
T Consensus         3 ~~~i~i~GptgsGKt~la~~La~~~   27 (322)
T 3exa_A            3 EKLVAIVGPTAVGKTKTSVMLAKRL   27 (322)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHHTT
T ss_pred             CcEEEEECCCcCCHHHHHHHHHHhC
Confidence            4688999999999999999998743

>2gj8_A MNME, tRNA modification GTPase TRME; G-domain dimer, alpha-beta-sandwich, hydrolase; HET: GDP; 1.70A {Escherichia coli BL21} SCOP: c.37.1.8 PDB: 2gj9_A* 2gja_A* 1rfl_A

Probab=95.87  E-value=0.0051  Score=48.11  Aligned_cols=24  Identities=33%  Similarity=0.418  Sum_probs=20.6

Q ss_pred             CCcEEEEEecCCCChHHHHHHHHH
Q 024705          119 KGRIVEIYGREASGKTTLALHVIK  142 (264)
Q Consensus       119 ~G~~~~I~G~~GsGKTtl~~~l~~  142 (264)
                      +|..++|.|++|+|||||+..++.
T Consensus         3 ~~~ki~ivG~~g~GKStLl~~l~~   26 (172)
T 2gj8_A            3 HGMKVVIAGRPNAGKSSLLNALAG   26 (172)
T ss_dssp             -CEEEEEEESTTSSHHHHHHHHHT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhC
Confidence            567799999999999999988865

>2grj_A Dephospho-COA kinase; TM1387, EC 2.7.1.24, dephosphocoenzyme kinase, structural genomics, joint center for structural GE JCSG; HET: ADP COD; 2.60A {Thermotoga maritima}

Probab=95.87  E-value=0.0054  Score=49.51  Aligned_cols=35  Identities=17%  Similarity=0.372  Sum_probs=26.8

Q ss_pred             CCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCC
Q 024705          119 KGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVEN  158 (264)
Q Consensus       119 ~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~  158 (264)
                      ...++.|+|++||||||++..++...   |  +.+++.+.
T Consensus        11 ~~~iIgltG~~GSGKSTva~~L~~~l---g--~~vid~D~   45 (192)
T 2grj_A           11 HHMVIGVTGKIGTGKSTVCEILKNKY---G--AHVVNVDR   45 (192)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHHH---C--CEEEEHHH
T ss_pred             cceEEEEECCCCCCHHHHHHHHHHhc---C--CEEEECcH
Confidence            45689999999999999998887642   3  45666554

>3crm_A TRNA delta(2)-isopentenylpyrophosphate transferase; ATP-binding, nucleotide-binding, nucleotidyltransferase, tRNA processing; 1.90A {Pseudomonas aeruginosa} PDB: 3crq_A 3crr_A

Probab=95.85  E-value=0.0052  Score=53.77  Aligned_cols=32  Identities=28%  Similarity=0.516  Sum_probs=25.3

Q ss_pred             cEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecC
Q 024705          121 RIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVE  157 (264)
Q Consensus       121 ~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e  157 (264)
                      .+++|+||+||||||++..++...   +  ..+++.|
T Consensus         6 ~~i~i~GptGsGKTtla~~La~~l---~--~~iis~D   37 (323)
T 3crm_A            6 PAIFLMGPTAAGKTDLAMALADAL---P--CELISVD   37 (323)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHHS---C--EEEEEEC
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHc---C--CcEEecc
Confidence            579999999999999999998743   3  4556654

>3foz_A TRNA delta(2)-isopentenylpyrophosphate transferas; nucleoside modification, isopentenyl-tRNA transferase, transferase-RNA complex; 2.50A {Escherichia coli k-12} PDB: 2zxu_A* 2zm5_A

Probab=95.84  E-value=0.006  Score=53.05  Aligned_cols=25  Identities=36%  Similarity=0.436  Sum_probs=22.0

Q ss_pred             CCcEEEEEecCCCChHHHHHHHHHH
Q 024705          119 KGRIVEIYGREASGKTTLALHVIKE  143 (264)
Q Consensus       119 ~G~~~~I~G~~GsGKTtl~~~l~~~  143 (264)
                      ...+++|+||+|||||||+..++..
T Consensus         9 ~~~~i~i~GptgsGKt~la~~La~~   33 (316)
T 3foz_A            9 LPKAIFLMGPTASGKTALAIELRKI   33 (316)
T ss_dssp             CCEEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CCcEEEEECCCccCHHHHHHHHHHh
Confidence            3568999999999999999999875

>2f6r_A COA synthase, bifunctional coenzyme A synthase; 18044849, bifunctional coenzyme A synthase (COA synthase), S genomics; HET: ACO UNL; 1.70A {Mus musculus}

Probab=95.83  E-value=0.0055  Score=52.37  Aligned_cols=22  Identities=23%  Similarity=0.329  Sum_probs=20.0

Q ss_pred             CcEEEEEecCCCChHHHHHHHH
Q 024705          120 GRIVEIYGREASGKTTLALHVI  141 (264)
Q Consensus       120 G~~~~I~G~~GsGKTtl~~~l~  141 (264)
                      ..+++|.|++||||||++..++
T Consensus        75 ~~iI~I~G~~GSGKSTva~~La   96 (281)
T 2f6r_A           75 LYVLGLTGISGSGKSSVAQRLK   96 (281)
T ss_dssp             CEEEEEEECTTSCHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHH
Confidence            4589999999999999999887

>2gk6_A Regulator of nonsense transcripts 1; UPF1, helicase, NMD, hydrolase; HET: ADP; 2.40A {Homo sapiens} PDB: 2gjk_A* 2gk7_A 2xzo_A* 2xzp_A

Probab=95.82  E-value=0.0092  Score=56.83  Aligned_cols=39  Identities=18%  Similarity=0.178  Sum_probs=31.7

Q ss_pred             CcEEEEEecCCCChHHHHHHHHHHHhh-cCCeEEEEecCC
Q 024705          120 GRIVEIYGREASGKTTLALHVIKEAQK-LGGYCAYLDVEN  158 (264)
Q Consensus       120 G~~~~I~G~~GsGKTtl~~~l~~~~~~-~g~~v~~~~~e~  158 (264)
                      +.+++|.||||+|||+++..++..+.. .+.++++...-.
T Consensus       195 ~~~~li~GppGTGKT~~~~~~i~~l~~~~~~~ilv~a~tn  234 (624)
T 2gk6_A          195 RPLSLIQGPPGTGKTVTSATIVYHLARQGNGPVLVCAPSN  234 (624)
T ss_dssp             CSEEEEECCTTSCHHHHHHHHHHHHHTSSSCCEEEEESSH
T ss_pred             CCCeEEECCCCCCHHHHHHHHHHHHHHcCCCeEEEEeCcH
Confidence            458899999999999999999888776 567787776543

>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=95.82  E-value=0.0071  Score=51.74  Aligned_cols=23  Identities=22%  Similarity=0.348  Sum_probs=21.2

Q ss_pred             EEEEecCCCChHHHHHHHHHHHh
Q 024705          123 VEIYGREASGKTTLALHVIKEAQ  145 (264)
Q Consensus       123 ~~I~G~~GsGKTtl~~~l~~~~~  145 (264)
                      ++|+||+|+|||+++..++..+.
T Consensus        41 ~ll~G~~G~GKt~la~~l~~~l~   63 (319)
T 2chq_A           41 LLFSGPPGTGKTATAIALARDLF   63 (319)
T ss_dssp             EEEESSSSSSHHHHHHHHHHHHH
T ss_pred             EEEECcCCcCHHHHHHHHHHHhc
Confidence            89999999999999999988764

>3qkt_A DNA double-strand break repair RAD50 ATPase; RECA-like fold, coiled-coils, ATP binding, DNA bindi MRE11, replication; HET: DNA ANP; 1.90A {Pyrococcus furiosus} PDB: 3qku_A* 1ii8_A 3qks_B* 3qkr_B* 1ii8_B

Probab=95.76  E-value=0.0066  Score=53.27  Aligned_cols=25  Identities=28%  Similarity=0.325  Sum_probs=20.9

Q ss_pred             cEEEEEecCCCChHHHHHHHHHHHh
Q 024705          121 RIVEIYGREASGKTTLALHVIKEAQ  145 (264)
Q Consensus       121 ~~~~I~G~~GsGKTtl~~~l~~~~~  145 (264)
                      .+++|+||||+||||++-.+...+.
T Consensus        24 ~~~~i~G~NGsGKS~lleAi~~~l~   48 (339)
T 3qkt_A           24 GINLIIGQNGSGKSSLLDAILVGLY   48 (339)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHhc
Confidence            5889999999999999888765443

>3tmk_A Thymidylate kinase; phosphotransferase; HET: T5A; 2.00A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 2tmk_A* 1tmk_A*

Probab=95.75  E-value=0.0084  Score=49.35  Aligned_cols=29  Identities=31%  Similarity=0.434  Sum_probs=25.3

Q ss_pred             CCCcEEEEEecCCCChHHHHHHHHHHHhh
Q 024705          118 PKGRIVEIYGREASGKTTLALHVIKEAQK  146 (264)
Q Consensus       118 ~~G~~~~I~G~~GsGKTtl~~~l~~~~~~  146 (264)
                      .+|.++.+.|++||||||.+..++..+..
T Consensus         3 ~~g~~i~~eG~~g~GKst~~~~l~~~l~~   31 (216)
T 3tmk_A            3 GRGKLILIEGLDRTGKTTQCNILYKKLQP   31 (216)
T ss_dssp             CCCCEEEEEECSSSSHHHHHHHHHHHHCS
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHhcc
Confidence            46899999999999999999998887643

>4hlc_A DTMP kinase, thymidylate kinase; TMK, MRSA, pipiridine, transfera transferase inhibitor complex; HET: T05; 1.55A {Staphylococcus aureus subsp} PDB: 2cck_A 4gfd_A* 4gsy_A* 4hdc_A* 4hej_A* 2ccj_A* 4hld_A* 2ccg_A*

Probab=95.74  E-value=0.011  Score=48.15  Aligned_cols=35  Identities=23%  Similarity=0.163  Sum_probs=28.4

Q ss_pred             CcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEe
Q 024705          120 GRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLD  155 (264)
Q Consensus       120 G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~  155 (264)
                      |.++.|-|+.||||||.+..++..+. .|.++++..
T Consensus         2 ~kFI~~EG~dGsGKsTq~~~L~~~L~-~~~~v~~~~   36 (205)
T 4hlc_A            2 SAFITFEGPEGSGKTTVINEVYHRLV-KDYDVIMTR   36 (205)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHHHHT-TTSCEEEEE
T ss_pred             CCEEEEECCCCCcHHHHHHHHHHHHH-CCCCEEEee
Confidence            56899999999999999988887774 466776554

>1ni3_A YCHF GTPase, YCHF GTP-binding protein; structural genomics, GTP1OBG, PSI, protein structure initiative; 2.80A {Schizosaccharomyces pombe} SCOP: c.37.1.8 d.15.10.2

Probab=95.73  E-value=0.0077  Score=54.11  Aligned_cols=28  Identities=25%  Similarity=0.240  Sum_probs=25.7

Q ss_pred             CCCCCCcEEEEEecCCCChHHHHHHHHH
Q 024705          115 GGLPKGRIVEIYGREASGKTTLALHVIK  142 (264)
Q Consensus       115 gGl~~G~~~~I~G~~GsGKTtl~~~l~~  142 (264)
                      |-+.+|..+.|.|+||+|||||...+..
T Consensus        15 g~v~~g~~vgiVG~pnaGKSTL~n~Ltg   42 (392)
T 1ni3_A           15 GRPGNNLKTGIVGMPNVGKSTFFRAITK   42 (392)
T ss_dssp             SSSSSCCEEEEEECSSSSHHHHHHHHHH
T ss_pred             ccccCCCEEEEECCCCCCHHHHHHHHHC
Confidence            5788899999999999999999998887

>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=95.68  E-value=0.037  Score=56.04  Aligned_cols=101  Identities=16%  Similarity=0.184  Sum_probs=59.7

Q ss_pred             HHHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHHhh----cCCeEEEEecCCCCCH-------HHHHHcCCCccc
Q 024705          106 LKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQK----LGGYCAYLDVENALDP-------SLAEAMGIDAEN  174 (264)
Q Consensus       106 ~~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~----~g~~v~~~~~e~~~~~-------~~~~~~g~~~~~  174 (264)
                      ..|...|. .+-....++.|+|+.|+||||||.+++.....    -...+.|++.......       .....++.....
T Consensus       134 ~~l~~~l~-~~~~~~~~v~i~G~gG~GKTtLa~~~~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~l~~~~~~  212 (1249)
T 3sfz_A          134 HAIQQKLW-KLNGEPGWVTIYGMAGCGKSVLAAEAVRDHSLLEGCFSGGVHWVSIGKQDKSGLLMKLQNLCMRLDQEESF  212 (1249)
T ss_dssp             HHHHHHHH-TTTTSCEEEEEECSTTSSHHHHHHHHTCCHHHHTTTSTTCEEEEECCSCCHHHHHHHHHHHHHHHTTTCTT
T ss_pred             HHHHHHHh-hccCCCCEEEEEeCCCCCHHHHHHHHhcChhHHHhhCCCeEEEEEECCcCchHHHHHHHHHHHHhhhhccc
Confidence            34555553 22234578999999999999999988765321    2356778886554322       122223322111


Q ss_pred             eeEeCCCCHHHHHHHHHHHhhcC-CccEEEEcCcc
Q 024705          175 LLIAQPDSAENLLSVVDTLTKSG-SIDVIVVDSVA  208 (264)
Q Consensus       175 l~~~~~~~~ee~~~~i~~~~~~~-~~~~vvIDsl~  208 (264)
                       .-..+.+.+++...++...... +.-++|+|.+.
T Consensus       213 -~~~~~~~~~~~~~~l~~~l~~~~~~~LlvlDd~~  246 (1249)
T 3sfz_A          213 -SQRLPLNIEEAKDRLRVLMLRKHPRSLLILDDVW  246 (1249)
T ss_dssp             -CSSCCSSHHHHHHHHHHHTSSSSCSCEEEEESCC
T ss_pred             -ccCCCCCHHHHHHHHHHHHhccCCCEEEEEecCC
Confidence             0112445677777777665432 35689999875

>3hjn_A DTMP kinase, thymidylate kinase; ATP-binding, nucleotide biosynth nucleotide-binding, transferase, structural genomics; HET: ADP TYD; 2.10A {Thermotoga maritima}

Probab=95.67  E-value=0.015  Score=47.05  Aligned_cols=35  Identities=20%  Similarity=0.187  Sum_probs=30.1

Q ss_pred             EEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEec
Q 024705          122 IVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDV  156 (264)
Q Consensus       122 ~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~  156 (264)
                      ++.|-|..||||||.+..++..+...|.++++...
T Consensus         2 fI~~EG~DGsGKsTq~~~L~~~L~~~g~~v~~tre   36 (197)
T 3hjn_A            2 FITFEGIDGSGKSTQIQLLAQYLEKRGKKVILKRE   36 (197)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEES
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEEC
Confidence            57889999999999999999888888888877653

>2ocp_A DGK, deoxyguanosine kinase; protein-nucleotide complex, transferase; HET: DTP; 2.80A {Homo sapiens} SCOP: c.37.1.1

Probab=95.64  E-value=0.008  Score=49.82  Aligned_cols=26  Identities=31%  Similarity=0.290  Sum_probs=22.7

Q ss_pred             CCcEEEEEecCCCChHHHHHHHHHHH
Q 024705          119 KGRIVEIYGREASGKTTLALHVIKEA  144 (264)
Q Consensus       119 ~G~~~~I~G~~GsGKTtl~~~l~~~~  144 (264)
                      +|.++.|.|++||||||++..++..+
T Consensus         1 ~~~~i~~~G~~g~GKtt~~~~l~~~l   26 (241)
T 2ocp_A            1 GPRRLSIEGNIAVGKSTFVKLLTKTY   26 (241)
T ss_dssp             CCEEEEEEECTTSSHHHHHHHHHHHC
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHHc
Confidence            46789999999999999999888764

>2r44_A Uncharacterized protein; putative ATPase, structural genomics, joint center for struc genomics, JCSG; HET: MSE PG4; 2.00A {Cytophaga hutchinsonii atcc 33406}

Probab=95.59  E-value=0.0036  Score=54.39  Aligned_cols=25  Identities=20%  Similarity=0.126  Sum_probs=21.7

Q ss_pred             CcEEEEEecCCCChHHHHHHHHHHH
Q 024705          120 GRIVEIYGREASGKTTLALHVIKEA  144 (264)
Q Consensus       120 G~~~~I~G~~GsGKTtl~~~l~~~~  144 (264)
                      |..++|+||||+|||+++..++..+
T Consensus        46 ~~~vll~G~pGtGKT~la~~la~~~   70 (331)
T 2r44_A           46 GGHILLEGVPGLAKTLSVNTLAKTM   70 (331)
T ss_dssp             TCCEEEESCCCHHHHHHHHHHHHHT
T ss_pred             CCeEEEECCCCCcHHHHHHHHHHHh
Confidence            4569999999999999999988754

>2wji_A Ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GNP; 1.90A {Methanocaldococcus jannaschii} PDB: 2wjj_A* 2wjh_A*

Probab=95.58  E-value=0.0067  Score=46.91  Aligned_cols=21  Identities=19%  Similarity=0.290  Sum_probs=18.9

Q ss_pred             EEEEEecCCCChHHHHHHHHH
Q 024705          122 IVEIYGREASGKTTLALHVIK  142 (264)
Q Consensus       122 ~~~I~G~~GsGKTtl~~~l~~  142 (264)
                      .++|.|++|+|||||+..++.
T Consensus         5 ~v~lvG~~gvGKStL~~~l~~   25 (165)
T 2wji_A            5 EIALIGNPNVGKSTIFNALTG   25 (165)
T ss_dssp             EEEEECSTTSSHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHhC
Confidence            578999999999999998875

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A*

Probab=95.58  E-value=0.029  Score=56.41  Aligned_cols=44  Identities=32%  Similarity=0.296  Sum_probs=32.5

Q ss_pred             CCcEEEEEecCCCChHHHHHHHHHH--Hhh-cCCeEEEEecCCCCCH
Q 024705          119 KGRIVEIYGREASGKTTLALHVIKE--AQK-LGGYCAYLDVENALDP  162 (264)
Q Consensus       119 ~G~~~~I~G~~GsGKTtl~~~l~~~--~~~-~g~~v~~~~~e~~~~~  162 (264)
                      ...++.|+|+.|+||||||..++..  ... -...++|++.......
T Consensus       149 ~~RVV~IvGmGGIGKTTLAk~Vy~d~rV~~~Fd~gV~WVsVs~~~d~  195 (1221)
T 1vt4_I          149 PAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSP  195 (1221)
T ss_dssp             SSCEEEECCSTTSSHHHHHHHHHHHCHHHHHHSSCEEEEECCCSSSH
T ss_pred             CCeEEEEEcCCCccHHHHHHHHHHhhHHHHhCCCcEEEEEeCCCCCH
Confidence            4679999999999999999998753  222 2345889887665443

>3eph_A TRNA isopentenyltransferase; transferase, alternative initiation, ATP-binding, cytoplasm, mitochondrion, nucleotide-binding, nucleus; 2.95A {Saccharomyces cerevisiae} PDB: 3epj_A 3epk_A* 3epl_A*

Probab=95.52  E-value=0.0091  Score=53.76  Aligned_cols=25  Identities=20%  Similarity=0.472  Sum_probs=22.0

Q ss_pred             CcEEEEEecCCCChHHHHHHHHHHH
Q 024705          120 GRIVEIYGREASGKTTLALHVIKEA  144 (264)
Q Consensus       120 G~~~~I~G~~GsGKTtl~~~l~~~~  144 (264)
                      ..+++|.||+||||||++..++...
T Consensus         2 ~~~i~i~GptgsGKttla~~La~~~   26 (409)
T 3eph_A            2 KKVIVIAGTTGVGKSQLSIQLAQKF   26 (409)
T ss_dssp             CEEEEEEECSSSSHHHHHHHHHHHH
T ss_pred             CcEEEEECcchhhHHHHHHHHHHHC
Confidence            3578999999999999999998765

>3ez2_A Plasmid partition protein A; type IA, DNA binding, winged-HTH, DNA bindin; HET: ADP EPE; 2.05A {Escherichia coli} PDB: 3ez6_A* 3ez7_A

Probab=95.50  E-value=0.011  Score=53.03  Aligned_cols=41  Identities=10%  Similarity=0.060  Sum_probs=33.7

Q ss_pred             CCcEEEEE-ecCCCChHHHHHHHHHHHh------hcCCeEEEEecCCC
Q 024705          119 KGRIVEIY-GREASGKTTLALHVIKEAQ------KLGGYCAYLDVENA  159 (264)
Q Consensus       119 ~G~~~~I~-G~~GsGKTtl~~~l~~~~~------~~g~~v~~~~~e~~  159 (264)
                      ++.++.++ |..|+||||++.+++..++      ..|.+|+++|.|..
T Consensus       107 ~~~vIav~s~KGGvGKTT~a~nLA~~La~~~~~~~~g~rVlliD~D~q  154 (398)
T 3ez2_A          107 EAYVIFISNLKGGVSKTVSTVSLAHAMRAHPHLLMEDLRILVIDLDPQ  154 (398)
T ss_dssp             SCEEEEECCSSSSSSHHHHHHHHHHHHHHCTTTGGGCCCEEEEEECTT
T ss_pred             CCeEEEEEeCCCCccHHHHHHHHHHHHHhcchhhcCCCeEEEEeCCCC
Confidence            34555555 7799999999999999988      46899999999864

>2zej_A Dardarin, leucine-rich repeat kinase 2; parkinson'S disease, LRRK2, ROC, GTPase, ROCO, ATP-B disease mutation, GTP-binding, GTPase activation; HET: GDP; 2.00A {Homo sapiens} PDB: 3d6t_B*

Probab=95.37  E-value=0.0069  Score=47.75  Aligned_cols=21  Identities=43%  Similarity=0.553  Sum_probs=18.7

Q ss_pred             EEEEEecCCCChHHHHHHHHH
Q 024705          122 IVEIYGREASGKTTLALHVIK  142 (264)
Q Consensus       122 ~~~I~G~~GsGKTtl~~~l~~  142 (264)
                      -++|.|++|+|||||+..++.
T Consensus         4 kv~ivG~~gvGKStLl~~l~~   24 (184)
T 2zej_A            4 KLMIVGNTGSGKTTLLQQLMK   24 (184)
T ss_dssp             EEEEESCTTSSHHHHHHHHTC
T ss_pred             EEEEECCCCCCHHHHHHHHhc
Confidence            378999999999999988875

>3t1o_A Gliding protein MGLA; G domain containing protein, bacterial GTPase, bacterial POL motility, POLE localisation, alpha/beta protein; HET: GDP; 1.90A {Thermus thermophilus} PDB: 3t12_A* 3t1q_A* 3t1t_A* 3t1v_A*

Probab=95.36  E-value=0.067  Score=41.79  Aligned_cols=20  Identities=35%  Similarity=0.371  Sum_probs=16.5

Q ss_pred             EEEEEecCCCChHHHHHHHH
Q 024705          122 IVEIYGREASGKTTLALHVI  141 (264)
Q Consensus       122 ~~~I~G~~GsGKTtl~~~l~  141 (264)
                      -++|.|++|+|||||+..+.
T Consensus        16 ki~vvG~~~~GKssL~~~l~   35 (198)
T 3t1o_A           16 KIVYYGPGLSGKTTNLKWIY   35 (198)
T ss_dssp             EEEEECSTTSSHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHH
Confidence            37899999999999984443

>1g8p_A Magnesium-chelatase 38 kDa subunit; parallel beta sheet, P-loop, rossman fold, AAA+, photosynthesis, metal transport; 2.10A {Rhodobacter capsulatus} SCOP: c.37.1.20 PDB: 2x31_G

Probab=95.35  E-value=0.006  Score=53.12  Aligned_cols=22  Identities=23%  Similarity=0.362  Sum_probs=20.2

Q ss_pred             EEEEecCCCChHHHHHHHHHHH
Q 024705          123 VEIYGREASGKTTLALHVIKEA  144 (264)
Q Consensus       123 ~~I~G~~GsGKTtl~~~l~~~~  144 (264)
                      ++|+||||+|||+++..++..+
T Consensus        48 vLl~G~~GtGKT~la~~la~~~   69 (350)
T 1g8p_A           48 VLVFGDRGTGKSTAVRALAALL   69 (350)
T ss_dssp             EEEECCGGGCTTHHHHHHHHHS
T ss_pred             EEEECCCCccHHHHHHHHHHhC
Confidence            9999999999999999988755

>2xzl_A ATP-dependent helicase NAM7; hydrolase-RNA complex, NMD, RNA degradation, allosteric REGU; HET: ADP 1PE; 2.40A {Saccharomyces cerevisiae}

Probab=95.25  E-value=0.011  Score=57.91  Aligned_cols=40  Identities=18%  Similarity=0.138  Sum_probs=32.3

Q ss_pred             CcEEEEEecCCCChHHHHHHHHHHHhh-cCCeEEEEecCCC
Q 024705          120 GRIVEIYGREASGKTTLALHVIKEAQK-LGGYCAYLDVENA  159 (264)
Q Consensus       120 G~~~~I~G~~GsGKTtl~~~l~~~~~~-~g~~v~~~~~e~~  159 (264)
                      +.+++|.||||+|||+++..++..+.. .+.++++......
T Consensus       375 ~~~~lI~GppGTGKT~~i~~~i~~l~~~~~~~ILv~a~tn~  415 (802)
T 2xzl_A          375 RPLSLIQGPPGTGKTVTSATIVYHLSKIHKDRILVCAPSNV  415 (802)
T ss_dssp             CSEEEEECSTTSSHHHHHHHHHHHHHHHHCCCEEEEESSHH
T ss_pred             CCCEEEECCCCCCHHHHHHHHHHHHHhCCCCeEEEEcCcHH
Confidence            558899999999999999888887765 5778888775443

>3ch4_B Pmkase, phosphomevalonate kinase; parallel beta-sheet with the strand order 23145, walker A motif, cholesterol biosynthesis, lipid synthesis; 1.76A {Homo sapiens}

Probab=95.24  E-value=0.046  Score=44.39  Aligned_cols=56  Identities=20%  Similarity=0.298  Sum_probs=34.9

Q ss_pred             CCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCHHHHHHcCCCccce
Q 024705          118 PKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENL  175 (264)
Q Consensus       118 ~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~~~~~~~g~~~~~l  175 (264)
                      .|--+++|+|.+||||++++..+.......  .+..++.-.......++..|.+.+.+
T Consensus         9 ~~~~II~itGk~~SGKd~va~~l~~~~g~~--~~~vv~msD~iK~~~a~~~gl~~~~~   64 (202)
T 3ch4_B            9 APRLVLLFSGKRKSGKDFVTEALQSRLGAD--VCAVLRLSGPLKEQYAQEHGLNFQRL   64 (202)
T ss_dssp             CCSEEEEEEECTTSSHHHHHHHHHHHHCTT--TEEEECTHHHHHHHHHHTTTCCCC--
T ss_pred             CCCEEEEEECCCCCChHHHHHHHHHHcCCC--CceEEEccHHHHHHHHHHcCCCchhh
Confidence            356799999999999999887765544211  24445443332234566778776654

>1g8f_A Sulfate adenylyltransferase; alpha-beta protein, beta-barrel, rossmann-fold, kinase fold; 1.95A {Saccharomyces cerevisiae} SCOP: b.122.1.3 c.26.1.5 c.37.1.15 PDB: 1g8g_A* 1g8h_A* 1j70_A 1jec_A 1jed_A* 1jee_A*

Probab=95.23  E-value=0.014  Score=54.18  Aligned_cols=40  Identities=13%  Similarity=0.228  Sum_probs=32.6

Q ss_pred             CCcEEEEEecCCCChHHHHHHHHHHHhh-cC-CeEEEEecCC
Q 024705          119 KGRIVEIYGREASGKTTLALHVIKEAQK-LG-GYCAYLDVEN  158 (264)
Q Consensus       119 ~G~~~~I~G~~GsGKTtl~~~l~~~~~~-~g-~~v~~~~~e~  158 (264)
                      .|..+.|.|.+||||||++..++..+.. .| ..+.|++.|.
T Consensus       394 ~~~~I~l~GlsGsGKSTIa~~La~~L~~~~g~r~~~~lDgD~  435 (511)
T 1g8f_A          394 QGFSIVLGNSLTVSREQLSIALLSTFLQFGGGRYYKIFEHNN  435 (511)
T ss_dssp             CCEEEEECTTCCSCHHHHHHHHHHHHTTSCSCCCEEECCCTT
T ss_pred             cceEEEecccCCCCHHHHHHHHHHHHHHhhcCcceEEecCCC
Confidence            5678999999999999999999998865 44 4556777665

>2wjy_A Regulator of nonsense transcripts 1; nonsense mediated decay, zinc-finger, ATP-binding, metal-BIN UPF2, UPF1, helicase, hydrolase; 2.50A {Homo sapiens} PDB: 2wjv_A 2iyk_A

Probab=95.23  E-value=0.02  Score=56.17  Aligned_cols=39  Identities=18%  Similarity=0.178  Sum_probs=31.5

Q ss_pred             CcEEEEEecCCCChHHHHHHHHHHHhh-cCCeEEEEecCC
Q 024705          120 GRIVEIYGREASGKTTLALHVIKEAQK-LGGYCAYLDVEN  158 (264)
Q Consensus       120 G~~~~I~G~~GsGKTtl~~~l~~~~~~-~g~~v~~~~~e~  158 (264)
                      +.+++|.||||+|||+++..++..+.. .+.++++...-.
T Consensus       371 ~~~~lI~GppGTGKT~ti~~~i~~l~~~~~~~ilv~a~tn  410 (800)
T 2wjy_A          371 RPLSLIQGPPGTGKTVTSATIVYHLARQGNGPVLVCAPSN  410 (800)
T ss_dssp             SSEEEEECCTTSCHHHHHHHHHHHHHTTCSSCEEEEESSH
T ss_pred             CCeEEEEcCCCCCHHHHHHHHHHHHHHcCCCcEEEEcCcH
Confidence            458899999999999999999888776 567777776443

>2wjg_A FEOB, ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GDP; 2.20A {Methanocaldococcus jannaschii}

Probab=95.19  E-value=0.011  Score=46.44  Aligned_cols=22  Identities=18%  Similarity=0.250  Sum_probs=19.6

Q ss_pred             cEEEEEecCCCChHHHHHHHHH
Q 024705          121 RIVEIYGREASGKTTLALHVIK  142 (264)
Q Consensus       121 ~~~~I~G~~GsGKTtl~~~l~~  142 (264)
                      -.+++.|++|+|||||+..++.
T Consensus         8 ~~i~lvG~~gvGKStL~~~l~~   29 (188)
T 2wjg_A            8 YEIALIGNPNVGKSTIFNALTG   29 (188)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHT
T ss_pred             CEEEEECCCCCCHHHHHHHHhC
Confidence            4588999999999999999875

>1g41_A Heat shock protein HSLU; AAA-ATPase, CLPY, ATP-dependent proteolysis, chaperone; HET: ADP; 2.30A {Haemophilus influenzae} SCOP: c.37.1.20 PDB: 1g3i_A* 1im2_A* 1kyi_A* 1g4a_E* 1g4b_E 1yyf_A* 1do0_A* 1do2_A* 1e94_E* 1hqy_E* 1ht1_E* 1ht2_E*

Probab=95.16  E-value=0.01  Score=54.15  Aligned_cols=23  Identities=30%  Similarity=0.349  Sum_probs=20.5

Q ss_pred             EEEEEecCCCChHHHHHHHHHHH
Q 024705          122 IVEIYGREASGKTTLALHVIKEA  144 (264)
Q Consensus       122 ~~~I~G~~GsGKTtl~~~l~~~~  144 (264)
                      .++++||||+|||+++..++..+
T Consensus        52 ~iLl~GppGtGKT~lar~lA~~l   74 (444)
T 1g41_A           52 NILMIGPTGVGKTEIARRLAKLA   74 (444)
T ss_dssp             CEEEECCTTSSHHHHHHHHHHHT
T ss_pred             eEEEEcCCCCCHHHHHHHHHHHc
Confidence            48899999999999999998765

>2zj8_A DNA helicase, putative SKI2-type helicase; RECA fold, ATP-binding, hydrolase, nucleotide- binding; 2.00A {Pyrococcus furiosus} PDB: 2zj5_A* 2zj2_A 2zja_A*

Probab=95.14  E-value=0.045  Score=52.79  Aligned_cols=96  Identities=21%  Similarity=0.240  Sum_probs=55.2

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHH-HHhhcCCeEEEEecCCCCCHHHHHH------cCCCcccee----E-----eC
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIK-EAQKLGGYCAYLDVENALDPSLAEA------MGIDAENLL----I-----AQ  179 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~-~~~~~g~~v~~~~~e~~~~~~~~~~------~g~~~~~l~----~-----~~  179 (264)
                      ++..|..+++.||+|+|||+.+...+. .+...+.+++|+.--........++      +|+....+.    .     ..
T Consensus        35 ~~~~~~~~lv~apTGsGKT~~~~l~il~~~~~~~~~~l~i~P~raLa~q~~~~~~~l~~~g~~v~~~~G~~~~~~~~~~~  114 (720)
T 2zj8_A           35 GILEGKNALISIPTASGKTLIAEIAMVHRILTQGGKAVYIVPLKALAEEKFQEFQDWEKIGLRVAMATGDYDSKDEWLGK  114 (720)
T ss_dssp             TGGGTCEEEEECCGGGCHHHHHHHHHHHHHHHHCSEEEEECSSGGGHHHHHHHTGGGGGGTCCEEEECSCSSCCCGGGGG
T ss_pred             HhcCCCcEEEEcCCccHHHHHHHHHHHHHHHhCCCEEEEEcCcHHHHHHHHHHHHHHHhcCCEEEEecCCCCccccccCC
Confidence            455688999999999999998754444 3344688899987433332222222      232211000    0     00


Q ss_pred             ----CCCHHHHHHHHHHHhh-cCCccEEEEcCccccc
Q 024705          180 ----PDSAENLLSVVDTLTK-SGSIDVIVVDSVAALI  211 (264)
Q Consensus       180 ----~~~~ee~~~~i~~~~~-~~~~~~vvIDsl~~~~  211 (264)
                          ..+++.+...++.... -.++++||||.+..+.
T Consensus       115 ~~Iiv~Tpe~l~~~~~~~~~~l~~~~~vIiDE~H~l~  151 (720)
T 2zj8_A          115 YDIIIATAEKFDSLLRHGSSWIKDVKILVADEIHLIG  151 (720)
T ss_dssp             CSEEEECHHHHHHHHHHTCTTGGGEEEEEEETGGGGG
T ss_pred             CCEEEECHHHHHHHHHcChhhhhcCCEEEEECCcccC
Confidence                1245555555444211 1367899999999775

>3ez9_A Para; DNA binding, winged-HTH, partition, biosynthetic protein; 2.80A {Salmonella enterica subsp} PDB: 3ezf_A

Probab=95.13  E-value=0.0093  Score=53.51  Aligned_cols=41  Identities=7%  Similarity=0.069  Sum_probs=26.1

Q ss_pred             CCcEEEEE-ecCCCChHHHHHHHHHHHh------hcCCeEEEEecCCC
Q 024705          119 KGRIVEIY-GREASGKTTLALHVIKEAQ------KLGGYCAYLDVENA  159 (264)
Q Consensus       119 ~G~~~~I~-G~~GsGKTtl~~~l~~~~~------~~g~~v~~~~~e~~  159 (264)
                      .+.++.|+ |..|+||||++.+++..++      ..|.+|+++|.|..
T Consensus       110 ~~~vIav~s~KGGvGKTT~a~nLA~~LA~~g~~~~~g~rVlliD~D~~  157 (403)
T 3ez9_A          110 SPYVIFVVNLKGGVSKTVSTVTLAHALRVHQDLLRHDLRILVIDLDPQ  157 (403)
T ss_dssp             SCEEEEECCC--------CHHHHHHHHHSCGGGGGGCCCEEEEEESSS
T ss_pred             CceEEEEEcCCCCchHHHHHHHHHHHHHhcchhhcCCCeEEEEeCCCC
Confidence            34555555 7899999999999999988      57999999999864

>1w36_D RECD, exodeoxyribonuclease V alpha chain; recombination, helicase, hydrolase, DNA repair; HET: DNA; 3.1A {Escherichia coli} SCOP: c.37.1.19 c.37.1.19 PDB: 3k70_D*

Probab=95.12  E-value=0.021  Score=54.19  Aligned_cols=37  Identities=22%  Similarity=0.172  Sum_probs=28.6

Q ss_pred             CCcEEEEEecCCCChHHHHHHHHHHHhh----cCCeEEEEe
Q 024705          119 KGRIVEIYGREASGKTTLALHVIKEAQK----LGGYCAYLD  155 (264)
Q Consensus       119 ~G~~~~I~G~~GsGKTtl~~~l~~~~~~----~g~~v~~~~  155 (264)
                      .+.+++|.|+||+||||++..++..+..    .+.+++...
T Consensus       163 ~~~~~vi~G~pGTGKTt~l~~ll~~l~~~~~~~~~~vll~A  203 (608)
T 1w36_D          163 TRRISVISGGPGTGKTTTVAKLLAALIQMADGERCRIRLAA  203 (608)
T ss_dssp             TBSEEEEECCTTSTHHHHHHHHHHHHHHTCSSCCCCEEEEB
T ss_pred             cCCCEEEEeCCCCCHHHHHHHHHHHHHHhhhcCCCeEEEEe
Confidence            3678999999999999999888877763    344565554

>2h92_A Cytidylate kinase; rossmann fold, transferase; HET: C5P PG4; 2.30A {Staphylococcus aureus}

Probab=95.11  E-value=0.013  Score=47.59  Aligned_cols=24  Identities=33%  Similarity=0.437  Sum_probs=20.6

Q ss_pred             CcEEEEEecCCCChHHHHHHHHHH
Q 024705          120 GRIVEIYGREASGKTTLALHVIKE  143 (264)
Q Consensus       120 G~~~~I~G~~GsGKTtl~~~l~~~  143 (264)
                      +.++.|.|++||||||++..++..
T Consensus         3 ~~~i~i~G~~gsGkst~~~~l~~~   26 (219)
T 2h92_A            3 AINIALDGPAAAGKSTIAKRVASE   26 (219)
T ss_dssp             CCCEEEECCTTSSHHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHh
Confidence            357899999999999999888764

>2qnr_A Septin-2, protein NEDD5; structural genomics consortium, SGC, mitosis, GDP, C cycle, cell division, GTP-binding, nucleotide-binding; HET: GDP; 2.60A {Homo sapiens} PDB: 2qa5_A* 3ftq_A*

Probab=95.05  E-value=0.011  Score=51.05  Aligned_cols=21  Identities=24%  Similarity=0.347  Sum_probs=17.9

Q ss_pred             EEEEecCCCChHHHHHHHHHH
Q 024705          123 VEIYGREASGKTTLALHVIKE  143 (264)
Q Consensus       123 ~~I~G~~GsGKTtl~~~l~~~  143 (264)
                      ++|.||||+|||||+..+...
T Consensus        21 I~lvG~nG~GKSTLl~~L~g~   41 (301)
T 2qnr_A           21 LMVVGESGLGKSTLINSLFLT   41 (301)
T ss_dssp             EEEEEETTSSHHHHHHHHHC-
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            589999999999999987654

>2ce2_X GTPase HRAS; signaling protein, guanine nucleotide binding protein, fluor membrane, lipoprotein, palmitate, prenylation; HET: GDP XY2; 1.0A {Homo sapiens} PDB: 2cl0_X* 2cl6_X* 2cl7_X* 2clc_X* 2evw_X* 2cld_X* 1aa9_A* 1ioz_A* 1q21_A* 6q21_A* 3k9l_A* 3k9n_A* 1ctq_A* 1bkd_R 1crp_A* 1crq_A* 1crr_A* 121p_A* 1gnp_A* 1gnq_A* ...

Probab=95.03  E-value=0.014  Score=44.17  Aligned_cols=22  Identities=23%  Similarity=0.504  Sum_probs=19.3

Q ss_pred             EEEEEecCCCChHHHHHHHHHH
Q 024705          122 IVEIYGREASGKTTLALHVIKE  143 (264)
Q Consensus       122 ~~~I~G~~GsGKTtl~~~l~~~  143 (264)
                      -+++.|++|+|||||+..+...
T Consensus         5 ~i~v~G~~~~GKssl~~~l~~~   26 (166)
T 2ce2_X            5 KLVVVGAGGVGKSALTIQLIQN   26 (166)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            3789999999999999988764

>3nbx_X ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structure, rossman fold, hydro; HET: ADP; 2.91A {Escherichia coli}

Probab=95.03  E-value=0.0055  Score=56.87  Aligned_cols=27  Identities=19%  Similarity=0.135  Sum_probs=22.7

Q ss_pred             CCCcEEEEEecCCCChHHHHHHHHHHH
Q 024705          118 PKGRIVEIYGREASGKTTLALHVIKEA  144 (264)
Q Consensus       118 ~~G~~~~I~G~~GsGKTtl~~~l~~~~  144 (264)
                      ..|.-++|+||||+|||+++..++..+
T Consensus        39 ~~~~~VLL~GpPGtGKT~LAraLa~~l   65 (500)
T 3nbx_X           39 LSGESVFLLGPPGIAKSLIARRLKFAF   65 (500)
T ss_dssp             HHTCEEEEECCSSSSHHHHHHHGGGGB
T ss_pred             hcCCeeEeecCchHHHHHHHHHHHHHH
Confidence            345679999999999999999988755

>1kao_A RAP2A; GTP-binding protein, small G protein, GDP, RAS; HET: GDP; 1.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2rap_A* 3rap_R*

Probab=95.02  E-value=0.014  Score=44.38  Aligned_cols=22  Identities=23%  Similarity=0.449  Sum_probs=19.2

Q ss_pred             EEEEEecCCCChHHHHHHHHHH
Q 024705          122 IVEIYGREASGKTTLALHVIKE  143 (264)
Q Consensus       122 ~~~I~G~~GsGKTtl~~~l~~~  143 (264)
                      -+++.|++|+|||||+..+...
T Consensus         5 ~i~v~G~~~~GKSsli~~l~~~   26 (167)
T 1kao_A            5 KVVVLGSGGVGKSALTVQFVTG   26 (167)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHcC
Confidence            4789999999999999888764

>1z2a_A RAS-related protein RAB-23; RAB GTPase, vesicular trafficking, protein transport; HET: GDP; 1.90A {Mus musculus} SCOP: c.37.1.8 PDB: 1z22_A*

Probab=95.02  E-value=0.014  Score=44.57  Aligned_cols=22  Identities=23%  Similarity=0.321  Sum_probs=19.3

Q ss_pred             EEEEEecCCCChHHHHHHHHHH
Q 024705          122 IVEIYGREASGKTTLALHVIKE  143 (264)
Q Consensus       122 ~~~I~G~~GsGKTtl~~~l~~~  143 (264)
                      -+++.|++|+|||||+..+...
T Consensus         7 ~i~v~G~~~~GKssl~~~l~~~   28 (168)
T 1z2a_A            7 KMVVVGNGAVGKSSMIQRYCKG   28 (168)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHC
T ss_pred             EEEEECcCCCCHHHHHHHHHcC
Confidence            4789999999999999998764

>2dyk_A GTP-binding protein; GTPase, ribosome-binding protein, structural genomics; HET: GDP; 1.96A {Thermus thermophilus}

Probab=95.00  E-value=0.014  Score=44.23  Aligned_cols=21  Identities=38%  Similarity=0.504  Sum_probs=18.6

Q ss_pred             EEEEEecCCCChHHHHHHHHH
Q 024705          122 IVEIYGREASGKTTLALHVIK  142 (264)
Q Consensus       122 ~~~I~G~~GsGKTtl~~~l~~  142 (264)
                      -+++.|++|+|||||+..+..
T Consensus         3 ki~v~G~~~~GKSsli~~l~~   23 (161)
T 2dyk_A            3 KVVIVGRPNVGKSSLFNRLLK   23 (161)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhC
Confidence            378999999999999998875

>1p5z_B DCK, deoxycytidine kinase; nucleoside kinase, P-loop, ARAC, cytarabine, transferase; HET: AR3 ADP; 1.60A {Homo sapiens} SCOP: c.37.1.1 PDB: 1p60_A* 1p61_B* 1p62_B* 2a7q_A* 2qrn_A* 2qro_A* 3exk_A* 3hp1_A* 2no7_A* 2no1_A* 2no6_A* 2no0_A* 2no9_A* 2noa_A* 2zi5_A* 2zi4_A* 2zi6_A* 2zi7_B* 2zia_A* 3kfx_A* ...

Probab=94.96  E-value=0.0072  Score=50.85  Aligned_cols=27  Identities=22%  Similarity=0.258  Sum_probs=22.7

Q ss_pred             CCCcEEEEEecCCCChHHHHHHHHHHH
Q 024705          118 PKGRIVEIYGREASGKTTLALHVIKEA  144 (264)
Q Consensus       118 ~~G~~~~I~G~~GsGKTtl~~~l~~~~  144 (264)
                      .++.++.|.|++||||||++..++..+
T Consensus        22 ~~~~~I~ieG~~GsGKST~~~~L~~~l   48 (263)
T 1p5z_B           22 TRIKKISIEGNIAAGKSTFVNILKQLC   48 (263)
T ss_dssp             -CCEEEEEECSTTSSHHHHHTTTGGGC
T ss_pred             cCceEEEEECCCCCCHHHHHHHHHHhc
Confidence            477899999999999999998877643

>2ged_A SR-beta, signal recognition particle receptor beta subunit; protein transport, G protein, proline isomerization, circular permutation; 2.20A {Saccharomyces cerevisiae}

Probab=94.84  E-value=0.016  Score=45.64  Aligned_cols=24  Identities=29%  Similarity=0.351  Sum_probs=20.4

Q ss_pred             CcEEEEEecCCCChHHHHHHHHHH
Q 024705          120 GRIVEIYGREASGKTTLALHVIKE  143 (264)
Q Consensus       120 G~~~~I~G~~GsGKTtl~~~l~~~  143 (264)
                      .-.+++.|++|+|||||+..+...
T Consensus        48 ~~~i~vvG~~g~GKSsll~~l~~~   71 (193)
T 2ged_A           48 QPSIIIAGPQNSGKTSLLTLLTTD   71 (193)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcC
Confidence            346899999999999999888763

>1u8z_A RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNHP, GDP, GTPase, signaling protein; HET: GDP; 1.50A {Saguinus oedipus} SCOP: c.37.1.8 PDB: 1u8y_A* 1u90_A* 1uad_A* 1zc3_A* 1zc4_A* 2kwi_A* 2ke5_A*

Probab=94.84  E-value=0.017  Score=43.97  Aligned_cols=22  Identities=27%  Similarity=0.456  Sum_probs=19.1

Q ss_pred             EEEEEecCCCChHHHHHHHHHH
Q 024705          122 IVEIYGREASGKTTLALHVIKE  143 (264)
Q Consensus       122 ~~~I~G~~GsGKTtl~~~l~~~  143 (264)
                      -+++.|++|+|||||+..+...
T Consensus         6 ~i~v~G~~~~GKssl~~~l~~~   27 (168)
T 1u8z_A            6 KVIMVGSGGVGKSALTLQFMYD   27 (168)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            4789999999999999888754

>1g16_A RAS-related protein SEC4; G protein RAB, signaling protein, endocytosis/exocytosis complex; HET: GDP; 1.80A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1g17_A* 2ocy_C 2eqb_A

Probab=94.84  E-value=0.017  Score=44.11  Aligned_cols=20  Identities=20%  Similarity=0.481  Sum_probs=18.2

Q ss_pred             EEEEecCCCChHHHHHHHHH
Q 024705          123 VEIYGREASGKTTLALHVIK  142 (264)
Q Consensus       123 ~~I~G~~GsGKTtl~~~l~~  142 (264)
                      +++.|++|+|||||+..+..
T Consensus         6 i~v~G~~~~GKssli~~l~~   25 (170)
T 1g16_A            6 ILLIGDSGVGKSCLLVRFVE   25 (170)
T ss_dssp             EEEEESTTSSHHHHHHHHHH
T ss_pred             EEEECcCCCCHHHHHHHHHh
Confidence            78999999999999998875

>2nzj_A GTP-binding protein REM 1; GDP/GTP binding, GTP hydrolysis, RAD and GEM like GTP protein 1, structural genomics; HET: GDP; 2.50A {Homo sapiens}

Probab=94.83  E-value=0.015  Score=44.68  Aligned_cols=22  Identities=32%  Similarity=0.347  Sum_probs=18.9

Q ss_pred             EEEEEecCCCChHHHHHHHHHH
Q 024705          122 IVEIYGREASGKTTLALHVIKE  143 (264)
Q Consensus       122 ~~~I~G~~GsGKTtl~~~l~~~  143 (264)
                      -++|.|++|+|||||+..+...
T Consensus         6 ki~i~G~~~vGKSsl~~~l~~~   27 (175)
T 2nzj_A            6 RVVLLGDPGVGKTSLASLFAGK   27 (175)
T ss_dssp             EEEEECCTTSSHHHHHHHHHCC
T ss_pred             EEEEECCCCccHHHHHHHHhcC
Confidence            3789999999999999888653

>3auy_A DNA double-strand break repair RAD50 ATPase; DNA repair, ABC transporter ATPase domain-like; HET: DNA ADP; 2.70A {Methanocaldococcus jannaschii} PDB: 3aux_A* 3av0_B*

Probab=94.81  E-value=0.021  Score=50.63  Aligned_cols=24  Identities=33%  Similarity=0.416  Sum_probs=20.6

Q ss_pred             cEEEEEecCCCChHHHHHHHHHHH
Q 024705          121 RIVEIYGREASGKTTLALHVIKEA  144 (264)
Q Consensus       121 ~~~~I~G~~GsGKTtl~~~l~~~~  144 (264)
                      .+++|+||||+|||+++-.+...+
T Consensus        26 gl~vi~G~NGaGKT~ileAI~~~l   49 (371)
T 3auy_A           26 GIVAIIGENGSGKSSIFEAVFFAL   49 (371)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHH
Confidence            589999999999999988877643

>1ek0_A Protein (GTP-binding protein YPT51); vesicular traffic, GTP hydrolysis, YPT/RAB protein, endocytosis, hydrolase; HET: MHO GNP GDP; 1.48A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=94.79  E-value=0.017  Score=44.02  Aligned_cols=22  Identities=23%  Similarity=0.508  Sum_probs=19.1

Q ss_pred             EEEEEecCCCChHHHHHHHHHH
Q 024705          122 IVEIYGREASGKTTLALHVIKE  143 (264)
Q Consensus       122 ~~~I~G~~GsGKTtl~~~l~~~  143 (264)
                      -+++.|++|+|||||+..+...
T Consensus         5 ~i~v~G~~~~GKssli~~l~~~   26 (170)
T 1ek0_A            5 KLVLLGEAAVGKSSIVLRFVSN   26 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            3789999999999999888764

>2hjg_A GTP-binding protein ENGA; GTPase ENGA KH-domain, hydrolase; HET: GDP; 2.50A {Bacillus subtilis}

Probab=94.77  E-value=0.041  Score=49.87  Aligned_cols=21  Identities=33%  Similarity=0.509  Sum_probs=18.3

Q ss_pred             EEEEEecCCCChHHHHHHHHH
Q 024705          122 IVEIYGREASGKTTLALHVIK  142 (264)
Q Consensus       122 ~~~I~G~~GsGKTtl~~~l~~  142 (264)
                      .++|.|+||+|||||...++.
T Consensus         5 ~V~ivG~~nvGKStL~n~l~~   25 (436)
T 2hjg_A            5 VVAIVGRPNVGKSTIFNRIAG   25 (436)
T ss_dssp             EEEEECSTTSSHHHHHHHHEE
T ss_pred             EEEEECCCCCCHHHHHHHHhC
Confidence            588999999999999888753

>2c78_A Elongation factor TU-A; hydrolase, GTPase, translation elongation factor, protein synthesis, antibiotic, GTP-binding, nucleotide-binding; HET: GNP PUL; 1.4A {Thermus thermophilus} SCOP: b.43.3.1 b.44.1.1 c.37.1.8 PDB: 2y0u_Z* 2y0w_Z* 2y0y_Z* 2y10_Z* 2y12_Z* 2y14_Z* 2y16_Z* 2y18_Z* 2wrn_Z* 2wrq_Z* 2c77_A* 1aip_A 1exm_A* 1ha3_A* 2xqd_Z* 3fic_Z* 4abr_Z* 1b23_P* 1ob5_A* 1ttt_A* ...

Probab=94.76  E-value=0.059  Score=48.31  Aligned_cols=28  Identities=29%  Similarity=0.184  Sum_probs=23.0

Q ss_pred             cEEEEEecCCCChHHHHHHHHHHHhhcC
Q 024705          121 RIVEIYGREASGKTTLALHVIKEAQKLG  148 (264)
Q Consensus       121 ~~~~I~G~~GsGKTtl~~~l~~~~~~~g  148 (264)
                      -.+.+.|.+++|||||+..+.......|
T Consensus        12 ~~I~iiG~~~~GKSTLi~~L~~~~~~~g   39 (405)
T 2c78_A           12 VNVGTIGHVDHGKTTLTAALTYVAAAEN   39 (405)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHHHHSC
T ss_pred             EEEEEEcCCCCCHHHHHHHHHhhhhhcC
Confidence            4588999999999999999987654443

>1z08_A RAS-related protein RAB-21; RAB GTPase, vesicular trafficking, protein transport; HET: GNP; 1.80A {Homo sapiens} SCOP: c.37.1.8 PDB: 2ot3_B 1yzu_A* 1z0i_A 1yzt_A*

Probab=94.76  E-value=0.018  Score=44.05  Aligned_cols=22  Identities=32%  Similarity=0.460  Sum_probs=19.3

Q ss_pred             EEEEEecCCCChHHHHHHHHHH
Q 024705          122 IVEIYGREASGKTTLALHVIKE  143 (264)
Q Consensus       122 ~~~I~G~~GsGKTtl~~~l~~~  143 (264)
                      -+++.|++|+|||||+..+...
T Consensus         8 ~i~v~G~~~~GKssli~~l~~~   29 (170)
T 1z08_A            8 KVVLLGEGCVGKTSLVLRYCEN   29 (170)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHC
T ss_pred             EEEEECcCCCCHHHHHHHHHcC
Confidence            4789999999999999888764

>1wms_A RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, protein transport; HET: GDP; 1.25A {Homo sapiens} SCOP: c.37.1.8 PDB: 1s8f_A* 1yzl_A* 2ocb_A*

Probab=94.74  E-value=0.018  Score=44.47  Aligned_cols=22  Identities=23%  Similarity=0.351  Sum_probs=19.2

Q ss_pred             EEEEEecCCCChHHHHHHHHHH
Q 024705          122 IVEIYGREASGKTTLALHVIKE  143 (264)
Q Consensus       122 ~~~I~G~~GsGKTtl~~~l~~~  143 (264)
                      -+++.|++|+|||||+..+...
T Consensus         9 ~i~v~G~~~~GKSsli~~l~~~   30 (177)
T 1wms_A            9 KVILLGDGGVGKSSLMNRYVTN   30 (177)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHcC
Confidence            4789999999999999988753

>1z0j_A RAB-22, RAS-related protein RAB-22A; RAB GTPase, RAB22 GTPase, rabenosyn, endosomal trafficking; HET: GTP; 1.32A {Mus musculus} SCOP: c.37.1.8 PDB: 1yvd_A*

Probab=94.73  E-value=0.018  Score=43.96  Aligned_cols=23  Identities=17%  Similarity=0.433  Sum_probs=19.8

Q ss_pred             EEEEEecCCCChHHHHHHHHHHH
Q 024705          122 IVEIYGREASGKTTLALHVIKEA  144 (264)
Q Consensus       122 ~~~I~G~~GsGKTtl~~~l~~~~  144 (264)
                      -+++.|++|+|||||+..+...-
T Consensus         8 ~i~v~G~~~~GKSsli~~l~~~~   30 (170)
T 1z0j_A            8 KVCLLGDTGVGKSSIMWRFVEDS   30 (170)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEEECcCCCCHHHHHHHHHcCC
Confidence            47899999999999999987643

>3q85_A GTP-binding protein REM 2; G-domain, CAV2 beta, signaling protein; HET: GNP; 1.76A {Mus musculus} SCOP: c.37.1.8 PDB: 4aii_A*

Probab=94.73  E-value=0.017  Score=44.22  Aligned_cols=19  Identities=37%  Similarity=0.368  Sum_probs=17.5

Q ss_pred             EEEEecCCCChHHHHHHHH
Q 024705          123 VEIYGREASGKTTLALHVI  141 (264)
Q Consensus       123 ~~I~G~~GsGKTtl~~~l~  141 (264)
                      +++.|++|+|||||+..+.
T Consensus         5 i~ivG~~~~GKSsli~~l~   23 (169)
T 3q85_A            5 VMLVGESGVGKSTLAGTFG   23 (169)
T ss_dssp             EEEECSTTSSHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHH
Confidence            7899999999999998885

>1r8s_A ADP-ribosylation factor 1; protein transport/exchange factor, protein transport-exchang complex; HET: GDP; 1.46A {Bos taurus} SCOP: c.37.1.8 PDB: 1re0_A* 1s9d_A* 1u81_A* 1r8q_A* 1rrf_A* 1rrg_A* 1hur_A* 1o3y_A* 1j2j_A* 2j59_A* 1mr3_F* 2k5u_A* 3lrp_A* 3tjz_A* 3rd1_A* 2ksq_A* 2a5d_A* 2a5f_A* 2j5x_A* 1e0s_A* ...

Probab=94.72  E-value=0.02  Score=43.61  Aligned_cols=21  Identities=29%  Similarity=0.415  Sum_probs=18.8

Q ss_pred             EEEEecCCCChHHHHHHHHHH
Q 024705          123 VEIYGREASGKTTLALHVIKE  143 (264)
Q Consensus       123 ~~I~G~~GsGKTtl~~~l~~~  143 (264)
                      +++.|++|+|||+|+..+...
T Consensus         3 i~~~G~~~~GKssl~~~l~~~   23 (164)
T 1r8s_A            3 ILMVGLDAAGKTTILYKLKLG   23 (164)
T ss_dssp             EEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHcC
Confidence            689999999999999998764

>2erx_A GTP-binding protein DI-RAS2; GTP hydrolysis, transport protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8

Probab=94.72  E-value=0.017  Score=44.14  Aligned_cols=21  Identities=33%  Similarity=0.664  Sum_probs=18.7

Q ss_pred             EEEEEecCCCChHHHHHHHHH
Q 024705          122 IVEIYGREASGKTTLALHVIK  142 (264)
Q Consensus       122 ~~~I~G~~GsGKTtl~~~l~~  142 (264)
                      -+++.|++|+|||||+..+..
T Consensus         5 ~i~v~G~~~~GKssli~~l~~   25 (172)
T 2erx_A            5 RVAVFGAGGVGKSSLVLRFVK   25 (172)
T ss_dssp             EEEEECCTTSSHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHc
Confidence            478999999999999988875

>1ega_A Protein (GTP-binding protein ERA); GTPase, RNA-binding, RAS-like, hydrolase; 2.40A {Escherichia coli} SCOP: c.37.1.8 d.52.3.1 PDB: 1x1l_X 3ieu_A* 1x18_X

Probab=94.71  E-value=0.013  Score=50.51  Aligned_cols=24  Identities=29%  Similarity=0.458  Sum_probs=20.8

Q ss_pred             CcEEEEEecCCCChHHHHHHHHHH
Q 024705          120 GRIVEIYGREASGKTTLALHVIKE  143 (264)
Q Consensus       120 G~~~~I~G~~GsGKTtl~~~l~~~  143 (264)
                      +..+.|.|+||+|||||+..+...
T Consensus         8 ~~~VaIvG~~nvGKSTLln~L~g~   31 (301)
T 1ega_A            8 CGFIAIVGRPNVGKSTLLNKLLGQ   31 (301)
T ss_dssp             EEEEEEECSSSSSHHHHHHHHHTC
T ss_pred             CCEEEEECCCCCCHHHHHHHHHCC
Confidence            347999999999999999998764

>1ky3_A GTP-binding protein YPT7P; vesicular traffic, GTP hydrolysis, YPT/RAB protein, endocytosis, hydrolase, endocytosis/exocytosis complex; HET: GDP; 1.35A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1ky2_A*

Probab=94.70  E-value=0.019  Score=44.46  Aligned_cols=22  Identities=32%  Similarity=0.454  Sum_probs=19.3

Q ss_pred             EEEEEecCCCChHHHHHHHHHH
Q 024705          122 IVEIYGREASGKTTLALHVIKE  143 (264)
Q Consensus       122 ~~~I~G~~GsGKTtl~~~l~~~  143 (264)
                      -+++.|++|+|||||+..+...
T Consensus        10 ~i~v~G~~~~GKSsli~~l~~~   31 (182)
T 1ky3_A           10 KVIILGDSGVGKTSLMHRYVND   31 (182)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            4789999999999999888764

>3q72_A GTP-binding protein RAD; G-domain, CAV2 beta, signaling protein; HET: GNP; 1.66A {Homo sapiens} SCOP: c.37.1.8 PDB: 3q7p_A* 3q7q_A* 2gjs_A* 2dpx_A*

Probab=94.68  E-value=0.017  Score=44.02  Aligned_cols=19  Identities=32%  Similarity=0.316  Sum_probs=17.3

Q ss_pred             EEEEecCCCChHHHHHHHH
Q 024705          123 VEIYGREASGKTTLALHVI  141 (264)
Q Consensus       123 ~~I~G~~GsGKTtl~~~l~  141 (264)
                      +++.|++|+|||||+..+.
T Consensus         5 i~~vG~~~~GKSsli~~l~   23 (166)
T 3q72_A            5 VLLLGAPGVGKSALARIFG   23 (166)
T ss_dssp             EEEEESTTSSHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHc
Confidence            7899999999999998875

---

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	264
d1xp8a1	268	c.37.1.11 (A:15-282) RecA protein, ATPase-domain {	5e-64
d1mo6a1	269	c.37.1.11 (A:1-269) RecA protein, ATPase-domain {M	4e-63
d1u94a1	263	c.37.1.11 (A:6-268) RecA protein, ATPase-domain {E	3e-61
d1v5wa_	258	c.37.1.11 (A:) Meiotic recombination protein DMC1/	1e-21
d1pzna2	254	c.37.1.11 (A:96-349) DNA repair protein Rad51, cat	1e-21
d1szpa2	251	c.37.1.11 (A:145-395) DNA repair protein Rad51, ca	2e-21
d2i1qa2	258	c.37.1.11 (A:65-322) DNA repair protein Rad51, cat	1e-18
d1n0wa_	242	c.37.1.11 (A:) DNA repair protein Rad51, catalytic	2e-16
d1tf7a2	242	c.37.1.11 (A:256-497) Circadian clock protein KaiC	4e-16
d1tf7a1	242	c.37.1.11 (A:14-255) Circadian clock protein KaiC	1e-13
d1nlfa_	274	c.37.1.11 (A:) Hexameric replicative helicase repA	7e-05
d1cr2a_	277	c.37.1.11 (A:) Gene 4 protein (g4p, DNA primase),	3e-04

>d1xp8a1 c.37.1.11 (A:15-282) RecA protein, ATPase-domain {Deinococcus radiodurans [TaxId: 1299]} Length = 268

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: RecA protein, ATPase-domain
species: Deinococcus radiodurans [TaxId: 1299]

 Score =  199 bits (507), Expect = 5e-64
 Identities = 95/195 (48%), Positives = 136/195 (69%), Gaps = 7/195 (3%)

Query: 65  QKDNALRLALSQLANDFGKESMLSLKRFFGSRRG---PVISTGSLKLDLALGIGGLPKGR 121
           ++  A+  A+SQ+   FGK S++ L    G+       V+STGSL LDLALG+GG+P+GR
Sbjct: 3   ERSKAIETAMSQIEKAFGKGSIMKL----GAESKLDVQVVSTGSLSLDLALGVGGIPRGR 58

Query: 122 IVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPD 181
           I EIYG E+ GKTTLAL ++ +AQK GG CA++D E+ALDP  A A+G++ + LL++QPD
Sbjct: 59  ITEIYGPESGGKTTLALAIVAQAQKAGGTCAFIDAEHALDPVYARALGVNTDELLVSQPD 118

Query: 182 SAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHY 241
           + E  L +++ L +SG+IDV+VVDSVAAL P+ EI   +       Q+R+M+QALRK+  
Sbjct: 119 NGEQALEIMELLVRSGAIDVVVVDSVAALTPRAEIEGDMGDSLPGLQARLMSQALRKLTA 178

Query: 242 SLCQSHTLIIFLNQV 256
            L ++ T  IF+NQV
Sbjct: 179 ILSKTGTAAIFINQV 193

>d1mo6a1 c.37.1.11 (A:1-269) RecA protein, ATPase-domain {Mycobacterium tuberculosis [TaxId: 1773]} Length = 269

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: RecA protein, ATPase-domain
species: Mycobacterium tuberculosis [TaxId: 1773]

 Score =  197 bits (501), Expect = 4e-63
 Identities = 90/199 (45%), Positives = 137/199 (68%), Gaps = 7/199 (3%)

Query: 61  AKIMQKDNALRLALSQLANDFGKESMLSLKRFFGSRRG---PVISTGSLKLDLALGIGGL 117
            +   ++ AL LA++Q+   +GK S++ L    G        VI TGS+ LD+ALGIGGL
Sbjct: 2   TQTPDREKALELAVAQIEKSYGKGSVMRL----GDEARQPISVIPTGSIALDVALGIGGL 57

Query: 118 PKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLI 177
           P+GR++EIYG E+SGKTT+ALH +  AQ  GG  A++D E+ALDP  A+ +G+D ++LL+
Sbjct: 58  PRGRVIEIYGPESSGKTTVALHAVANAQAAGGVAAFIDAEHALDPDYAKKLGVDTDSLLV 117

Query: 178 AQPDSAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALR 237
           +QPD+ E  L + D L +SG++D++V+DSVAAL+P+ E+   +   +   Q+R+M+QALR
Sbjct: 118 SQPDTGEQALEIADMLIRSGALDIVVIDSVAALVPRAELEGEMGDSHVGLQARLMSQALR 177

Query: 238 KIHYSLCQSHTLIIFLNQV 256
           K+  +L  S T  IF+NQ+
Sbjct: 178 KMTGALNNSGTTAIFINQL 196

>d1u94a1 c.37.1.11 (A:6-268) RecA protein, ATPase-domain {Escherichia coli [TaxId: 562]} Length = 263

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: RecA protein, ATPase-domain
species: Escherichia coli [TaxId: 562]

 Score =  192 bits (488), Expect = 3e-61
 Identities = 103/194 (53%), Positives = 132/194 (68%), Gaps = 7/194 (3%)

Query: 66  KDNALRLALSQLANDFGKESMLSLKRFFGSRRG---PVISTGSLKLDLALGIGGLPKGRI 122
           K  AL  AL Q+   FGK S++ L    G  R      ISTGSL LD+ALG GGLP GRI
Sbjct: 1   KQKALAAALGQIEKQFGKGSIMRL----GEDRSMDVETISTGSLSLDIALGAGGLPMGRI 56

Query: 123 VEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDS 182
           VEIYG E+SGKTTL L VI  AQ+ G  CA++D E+ALDP  A  +G+D +NLL +QPD+
Sbjct: 57  VEIYGPESSGKTTLTLQVIAAAQREGKTCAFIDAEHALDPIYARKLGVDIDNLLCSQPDT 116

Query: 183 AENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYS 242
            E  L + D L +SG++DVIVVDSVAAL PK EI   I   +    +R+M+QA+RK+  +
Sbjct: 117 GEQALEICDALARSGAVDVIVVDSVAALTPKAEIEGEIGDSHMGLAARMMSQAMRKLAGN 176

Query: 243 LCQSHTLIIFLNQV 256
           L QS+TL+IF+NQ+
Sbjct: 177 LKQSNTLLIFINQI 190

>d1v5wa_ c.37.1.11 (A:) Meiotic recombination protein DMC1/LIM15 homolog {Human (Homo sapiens) [TaxId: 9606]} Length = 258

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Meiotic recombination protein DMC1/LIM15 homolog
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 89.0 bits (219), Expect = 1e-21
 Identities = 39/180 (21%), Positives = 76/180 (42%), Gaps = 24/180 (13%)

Query: 96  RRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQK------LGG 149
           +    I+TGS + D  LG GG+    I E +G   +GKT L+  +   AQ        GG
Sbjct: 14  KMVFHITTGSQEFDKLLG-GGIESMAITEAFGEFRTGKTQLSHTLCVTAQLPGAGGYPGG 72

Query: 150 YCAYLDVENALDPSLAEAMGIDA--------ENLLIAQPDSAENLLSVVDTLT-----KS 196
              ++D EN   P     +            +N+L A+  ++E+ + ++D +      ++
Sbjct: 73  KIIFIDTENTFRPDRLRDIADRFNVDHDAVLDNVLYARAYTSEHQMELLDYVAAKFHEEA 132

Query: 197 GSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQV 256
           G   ++++DS+ AL      G          + + + Q L ++     + +  +   NQ+
Sbjct: 133 GIFKLLIIDSIMALFRVDFSGRG----ELAERQQKLAQMLSRLQKISEEYNVAVFVTNQM 188

>d1pzna2 c.37.1.11 (A:96-349) DNA repair protein Rad51, catalytic domain {Archaeon Pyrococcus furiosus [TaxId: 2261]} Length = 254

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

 Score = 88.6 bits (218), Expect = 1e-21
 Identities = 42/180 (23%), Positives = 69/180 (38%), Gaps = 27/180 (15%)

Query: 99  PVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVI------KEAQKLGGYCA 152
             ISTGS  LD  LG GG+    I E++G   SGKT LA  +        E   L G   
Sbjct: 16  GRISTGSKSLDKLLG-GGIETQAITEVFGEFGSGKTQLAHTLAVMVQLPPEEGGLNGSVI 74

Query: 153 YLDVENALDP----SLAEAMGIDAENLLIAQPDS------------AENLLSVVDTLTKS 196
           ++D EN   P     +A+  G+D + +L     +             +    + + L   
Sbjct: 75  WIDTENTFRPERIREIAQNRGLDPDEVLKHIYVARAFNSNHQMLLVQQAEDKIKELLNTD 134

Query: 197 GSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQV 256
             + +++VDS+ +      IG          + + + + L  +H         +   NQV
Sbjct: 135 RPVKLLIVDSLTSHFRSEYIGRGALAE----RQQKLAKHLADLHRLANLYDIAVFVTNQV 190

>d1szpa2 c.37.1.11 (A:145-395) DNA repair protein Rad51, catalytic domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 251

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 88.2 bits (217), Expect = 2e-21
 Identities = 47/183 (25%), Positives = 70/183 (38%), Gaps = 24/183 (13%)

Query: 93  FGSRRG--PVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEA------ 144
           F  RR     ++TGS  LD  LG GG+  G I E++G   +GK+ L   +          
Sbjct: 6   FHMRRSELICLTTGSKNLDTLLG-GGVETGSITELFGEFRTGKSQLCHTLAVTCQIPLDI 64

Query: 145 QKLGGYCAYLDVENALDPSL----AEAMGIDA----ENLLIAQPDS---AENLLSVVDTL 193
               G C Y+D E    P      A+  G+D      N+  A+  +      LL     +
Sbjct: 65  GGGEGKCLYIDTEGTFRPVRLVSIAQRFGLDPDDALNNVAYARAYNADHQLRLLDAAAQM 124

Query: 194 TKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFL 253
                  +IVVDSV AL      G         A+   + + +R +     Q    ++  
Sbjct: 125 MSESRFSLIVVDSVMALYRTDFSGR----GELSARQMHLAKFMRALQRLADQFGVAVVVT 180

Query: 254 NQV 256
           NQV
Sbjct: 181 NQV 183

>d2i1qa2 c.37.1.11 (A:65-322) DNA repair protein Rad51, catalytic domain {Archaeon Methanococcus voltae [TaxId: 2188]} Length = 258

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Archaeon Methanococcus voltae [TaxId: 2188]

 Score = 80.5 bits (197), Expect = 1e-18
 Identities = 29/180 (16%), Positives = 55/180 (30%), Gaps = 25/180 (13%)

Query: 101 ISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQK-------------- 146
           +ST S +LD  LG GGL    + E  G   SGKT +        Q               
Sbjct: 16  LSTSSSELDSVLG-GGLESQSVTEFAGVFGSGKTQIMHQSCVNLQNPEFLFYDEEAVSKG 74

Query: 147 --LGGYCAYLDVENALDPSLAEAMGIDAE--------NLLIAQPDSAENLLSVVDTLTKS 196
                   Y+D E    P     M   A         N  +A+  +++  +   + +   
Sbjct: 75  EVAQPKAVYIDTEGTFRPERIMQMAEHAGIDGQTVLDNTFVARAYNSDMQMLFAEKIEDL 134

Query: 197 GSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQV 256
                 +   V   +                + + + + +  ++      + +++  NQV
Sbjct: 135 IQEGNNIKLVVIDSLTSTFRNEYTGRGKLAERQQKLGRHMATLNKLADLFNCVVLVTNQV 194

>d1n0wa_ c.37.1.11 (A:) DNA repair protein Rad51, catalytic domain {Human (Homo sapiens) [TaxId: 9606]} Length = 242

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 74.4 bits (181), Expect = 2e-16
 Identities = 38/175 (21%), Positives = 59/175 (33%), Gaps = 22/175 (12%)

Query: 99  PVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQK------LGGYCA 152
             I+TGS +LD  L  GG+  G I E++G   +GKT +   +    Q         G   
Sbjct: 3   IQITTGSKELDKLLQ-GGIETGSITEMFGEFRTGKTQICHTLAVTCQLPIDRGGGEGKAM 61

Query: 153 YLDVENALDPSLAEAMGIDAEN-----------LLIAQPDSAENLLSVVDTLTKSGSIDV 201
           Y+D E    P    A+                       D    LL     +       +
Sbjct: 62  YIDTEGTFRPERLLAVAERYGLSGSDVLDNVAYARAFNTDHQTQLLYQASAMMVESRYAL 121

Query: 202 IVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQV 256
           ++VDS  AL      G         A+   + + LR +     +    ++  NQV
Sbjct: 122 LIVDSATALYRTDYSGRG----ELSARQMHLARFLRMLLRLADEFGVAVVITNQV 172

>d1tf7a2 c.37.1.11 (A:256-497) Circadian clock protein KaiC {Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]} Length = 242

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Circadian clock protein KaiC
species: Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]

 Score = 73.4 bits (179), Expect = 4e-16
 Identities = 28/166 (16%), Positives = 53/166 (31%), Gaps = 6/166 (3%)

Query: 101 ISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENAL 160
           +S+G ++LD   G GG  K  I+   G   +GKT L    ++ A            E + 
Sbjct: 8   VSSGVVRLDEMCG-GGFFKDSIILATGATGTGKTLLVSRFVENACANKERAILFAYEESR 66

Query: 161 DPSL--AEAMGIDAENLLIAQPDSAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGV 218
              L  A + G+D E +      +   ++              I+   +    P      
Sbjct: 67  AQLLRNAYSWGMDFEEMER---QNLLKIVCAYPESAGLEDHLQIIKSEINDFKPARIAID 123

Query: 219 PINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVKVLLLKHF 264
            ++ +     +    Q +  +     Q     +F N     +  H 
Sbjct: 124 SLSALARGVSNNAFRQFVIGVTGYAKQEEITGLFTNTSDQFMGAHS 169

>d1tf7a1 c.37.1.11 (A:14-255) Circadian clock protein KaiC {Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]} Length = 242

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Circadian clock protein KaiC
species: Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]

 Score = 66.2 bits (160), Expect = 1e-13
 Identities = 23/166 (13%), Positives = 48/166 (28%), Gaps = 7/166 (4%)

Query: 99  PVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGY-CAYLDVE 157
             + T     D     GGLP GR   + G   +GKT  ++  +            ++  E
Sbjct: 6   AKMRTMIEGFDDISH-GGLPIGRSTLVSGTSGTGKTLFSIQFLYNGIIEFDEPGVFVTFE 64

Query: 158 NALDPSL--AEAMGIDAENLLIAQPDSAENLLSVVDTLTKSGSIDVI-VVDSVAALIPKC 214
                 +  A + G D   L+        +     +     G  D+  +++ +   I K 
Sbjct: 65  ETPQDIIKNARSFGWDLAKLVDEGKLFILDASPDPEGQEVVGGFDLSALIERINYAIQKY 124

Query: 215 EIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVKVLL 260
                     +    +        +   L +    +  +    V+ 
Sbjct: 125 RARRVSIDSVTSVFQQYDAS--SVVRRELFRLVARLKQIGATTVMT 168

>d1nlfa_ c.37.1.11 (A:) Hexameric replicative helicase repA {Escherichia coli [TaxId: 562]} Length = 274

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Hexameric replicative helicase repA
species: Escherichia coli [TaxId: 562]

 Score = 40.8 bits (94), Expect = 7e-05
 Identities = 21/160 (13%), Positives = 43/160 (26%), Gaps = 27/160 (16%)

Query: 114 IGGLPKGRIVEIYGREASGKTTLALHVI----------KEAQKLGGYCAYLDVEN----- 158
           +  +  G +  +     +GK+ LAL +           +  +   G   YL  E+     
Sbjct: 23  LPNMVAGTVGALVSPGGAGKSMLALQLAAQIAGGPDLLEVGELPTGPVIYLPAEDPPTAI 82

Query: 159 -----ALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDT-----LTKSGSIDVIVVDSVA 208
                AL   L+        + L+ QP        +           +    ++V+D++ 
Sbjct: 83  HHRLHALGAHLSAEERQAVADGLLIQPLIGSLPNIMAPEWFDGLKRAAEGRRLMVLDTLR 142

Query: 209 ALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHT 248
               + E       M           A            +
Sbjct: 143 RFHIEEENASGP--MAQVIGRMEAIAADTGCSIVFLHHAS 180

>d1cr2a_ c.37.1.11 (A:) Gene 4 protein (g4p, DNA primase), helicase domain {Bacteriophage T7 [TaxId: 10760]} Length = 277

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Gene 4 protein (g4p, DNA primase), helicase domain
species: Bacteriophage T7 [TaxId: 10760]

 Score = 38.9 bits (89), Expect = 3e-04
 Identities = 6/41 (14%), Positives = 15/41 (36%), Gaps = 2/41 (4%)

Query: 100 VISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHV 140
           ++ +G   ++      G   G ++ +      GK+T     
Sbjct: 17  LLFSGCTGINDKTL--GARGGEVIMVTSGSGMGKSTFVRQQ 55

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	264
d1xp8a1	268	RecA protein, ATPase-domain {Deinococcus radiodura	100.0
d1u94a1	263	RecA protein, ATPase-domain {Escherichia coli [Tax	100.0
d1mo6a1	269	RecA protein, ATPase-domain {Mycobacterium tubercu	100.0
d1tf7a2	242	Circadian clock protein KaiC {Synechococcus sp. st	99.87
d1cr2a_	277	Gene 4 protein (g4p, DNA primase), helicase domain	99.83
d1tf7a1	242	Circadian clock protein KaiC {Synechococcus sp. st	99.83
d1pzna2	254	DNA repair protein Rad51, catalytic domain {Archae	99.8
d1szpa2	251	DNA repair protein Rad51, catalytic domain {Baker'	99.8
d1v5wa_	258	Meiotic recombination protein DMC1/LIM15 homolog {	99.79
d2i1qa2	258	DNA repair protein Rad51, catalytic domain {Archae	99.74
d1n0wa_	242	DNA repair protein Rad51, catalytic domain {Human	99.69
d1nlfa_	274	Hexameric replicative helicase repA {Escherichia c	99.56
d1v43a3	239	Hypothetical protein PH0022, N-terminal domain {Py	99.47
d2awna2	232	Maltose transport protein MalK, N-terminal domain	99.45
d3d31a2	229	Sulfate/molybdate ABC transporter, ATP-binding pro	99.44
d3dhwc1	240	Methionine import ATP-binding protein MetN {Escher	99.41
d1l2ta_	230	MJ0796 {Archaeon Methanococcus jannaschii [TaxId:	99.39
d1g2912	240	Maltose transport protein MalK, N-terminal domain	99.38
d1oxxk2	242	Glucose transport protein GlcV, N-terminal domain	99.35
d2onka1	240	Molybdate/tungstate import ATP-binding protein Wtp	99.34
d1vpla_	238	Putative ABC transporter TM0544 {Thermotoga mariti	99.33
d1ji0a_	240	Branched chain aminoacid ABC transporter {Thermoto	99.3
d1g6ha_	254	MJ1267 {Archaeon Methanococcus jannaschii [TaxId:	99.25
d1b0ua_	258	ATP-binding subunit of the histidine permease {Sal	99.24
d1jj7a_	251	Peptide transporter Tap1, C-terminal ABC domain {H	99.15
d1l7vc_	231	ABC transporter involved in vitamin B12 uptake, Bt	99.1
d2pmka1	241	Haemolysin B ATP-binding protein {Escherichia coli	99.1
d3b60a1	253	Multidrug resistance ABC transporter MsbA, C-termi	99.1
d1mv5a_	242	Multidrug resistance ABC transporter LmrA, C-termi	99.05
d1sgwa_	200	Putative ABC transporter PF0895 {Pyrococcus furios	98.96
d2hyda1	255	Putative multidrug export ATP-binding/permease pro	98.91
d1okkd2	207	GTPase domain of the signal recognition particle r	98.75
d1lv7a_	256	AAA domain of cell division protein FtsH {Escheric	98.72
d1ls1a2	207	GTPase domain of the signal sequence recognition p	98.72
d1ye8a1	178	Hypothetical kinase-like protein Aq_1292 {Aquifex	98.68
d2qy9a2	211	GTPase domain of the signal recognition particle r	98.65
d1j8yf2	211	GTPase domain of the signal sequence recognition p	98.58
d1vmaa2	213	GTPase domain of the signal recognition particle r	98.57
d1ixza_	247	AAA domain of cell division protein FtsH {Thermus	98.56
d1r7ra3	265	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	98.54
d1r0wa_	281	Cystic fibrosis transmembrane conductance regulato	98.52
d1e32a2	258	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	98.45
d1l8qa2	213	Chromosomal replication initiation factor DnaA {Aq	98.43
d1np6a_	170	Molybdopterin-guanine dinucleotide biosynthesis pr	98.13
d1d2na_	246	Hexamerization domain of N-ethylmalemide-sensitive	98.12
d1w44a_	321	NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}	98.1
d1bifa1	213	6-phosphofructo-2-kinase/fructose-2,6-bisphosphata	98.06
d2i3ba1	189	Cancer-related NTPase, C1orf57 {Human (Homo sapien	98.01
d2b8ta1	139	Thymidine kinase, TK1, N-terminal domain {Ureaplas	97.99
d1xjca_	165	Molybdopterin-guanine dinucleotide biosynthesis pr	97.92
d1fnna2	276	CDC6, N-domain {Archaeon Pyrobaculum aerophilum [T	97.86
d1xbta1	133	Thymidine kinase, TK1, N-terminal domain {Human (H	97.86
d1yj5a2	172	5' polynucleotide kinase-3' phosphatase, C-termina	97.85
d1c9ka_	180	Adenosylcobinamide kinase/adenosylcobinamide phosp	97.84
d1fx0a3	276	Central domain of alpha subunit of F1 ATP synthase	97.84
d1x6va3	195	Adenosine-5'phosphosulfate kinase (APS kinase) {Hu	97.81
d1zp6a1	176	Hypothetical protein Atu3015 {Agrobacterium tumefa	97.79
d2jdia3	285	Central domain of alpha subunit of F1 ATP synthase	97.79
d1yksa1	140	YFV helicase domain {Yellow fever virus [TaxId: 11	97.74
d1m8pa3	183	ATP sulfurylase C-terminal domain {Fungus (Penicil	97.73
d1wb9a2	234	DNA repair protein MutS, the C-terminal domain {Es	97.73
d1sxja2	253	Replication factor C1 {Baker's yeast (Saccharomyce	97.7
d2p67a1	327	LAO/AO transport system kinase ArgK {Escherichia c	97.69
d2jdid3	276	Central domain of beta subunit of F1 ATP synthase	97.67
d1p9ra_	401	Extracellular secretion NTPase EpsE {Vibrio choler	97.62
d1rz3a_	198	Hypothetical protein rbstp0775 {Bacillus stearothe	97.62
d1khta_	190	Adenylate kinase {Archaeon Methanococcus voltae [T	97.62
d2qm8a1	323	Metallochaperone MeaB {Methylobacterium extorquens	97.6
d1xx6a1	141	Thymidine kinase, TK1, N-terminal domain {Clostrid	97.58
d1knqa_	171	Gluconate kinase {Escherichia coli [TaxId: 562]}	97.54
d1y63a_	174	Probable kinase LmjF30.1890 {Leishmania major [Tax	97.53
d1xpua3	289	Transcription termination factor Rho, ATPase domai	97.52
d1ihua2	279	Arsenite-translocating ATPase ArsA {Escherichia co	97.52
d1ly1a_	152	Polynucleotide kinase, kinase domain {Bacteriophag	97.52
d1ewqa2	224	DNA repair protein MutS, the C-terminal domain {Th	97.5
d2bdta1	176	Hypothetical protein BH3686 {Bacillus halodurans [	97.48
d2gnoa2	198	gamma subunit of DNA polymerase III, N-domain {The	97.48
d1a5ta2	207	delta prime subunit of DNA polymerase III, N-domai	97.46
d1njfa_	239	delta prime subunit of DNA polymerase III, N-domai	97.46
d1gvnb_	273	Plasmid maintenance system epsilon/zeta, toxin zet	97.44
d1nksa_	194	Adenylate kinase {Archaeon Sulfolobus acidocaldari	97.43
d1sxje2	252	Replication factor C5 {Baker's yeast (Saccharomyce	97.43
d1rkba_	173	Adenylate kinase {Human (Homo sapiens), isoenzyme	97.41
d1svma_	362	Papillomavirus large T antigen helicase domain {Si	97.41
d1qhxa_	178	Chloramphenicol phosphotransferase {Streptomyces v	97.41
d1w5sa2	287	CDC6-like protein APE0152, N-terminal domain {Aero	97.36
d1lw7a2	192	Transcriptional regulator NadR, ribosylnicotinamid	97.36
d1nn5a_	209	Thymidylate kinase {Human (Homo sapiens) [TaxId: 9	97.36
d1sxjc2	227	Replication factor C3 {Baker's yeast (Saccharomyce	97.36
d1kaga_	169	Shikimate kinase (AroK) {Escherichia coli [TaxId:	97.36
d1qf9a_	194	UMP/CMP kinase {Dictyostelium discoideum [TaxId: 4	97.36
d2bmfa2	305	Dengue virus helicase {Dengue virus type 2 [TaxId:	97.35
d1jbka_	195	ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}	97.31
d1ak2a1	190	Adenylate kinase {Cow (Bos taurus), mitochondrial	97.3
d1r6bx2	268	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	97.29
d1cp2a_	269	Nitrogenase iron protein {Clostridium pasteurianum	97.29
d1in4a2	238	Holliday junction helicase RuvB {Thermotoga mariti	97.29
d1znwa1	182	Guanylate kinase {Mycobacterium tuberculosis [TaxI	97.27
d4tmka_	210	Thymidylate kinase {Escherichia coli [TaxId: 562]}	97.26
d1ihua1	296	Arsenite-translocating ATPase ArsA {Escherichia co	97.25
d3adka_	194	Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}	97.19
d1m7ga_	208	Adenosine-5'phosphosulfate kinase (APS kinase) {Fu	97.18
d1ixsb2	239	Holliday junction helicase RuvB {Thermus thermophi	97.18
d1byia_	224	Dethiobiotin synthetase {Escherichia coli [TaxId:	97.16
d1sq5a_	308	Pantothenate kinase PanK {Escherichia coli [TaxId:	97.14
d2afhe1	289	Nitrogenase iron protein {Azotobacter vinelandii [	97.14
d1ofha_	309	HslU {Haemophilus influenzae [TaxId: 727]}	97.12
d1g3qa_	237	Cell division regulator MinD {Archaeon Pyrococcus	97.11
d1yrba1	244	ATP(GTP)-binding protein PAB0955 {Pyrococcus abyss	97.09
d1zina1	182	Adenylate kinase {Bacillus stearothermophilus [Tax	97.06
d1ukza_	196	Uridylate kinase {Baker's yeast (Saccharomyces cer	97.04
d1teva_	194	UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]	97.03
d1zaka1	189	Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}	97.03
d1uj2a_	213	Uridine-cytidine kinase 2 {Human (Homo sapiens) [T	97.02
d1a7ja_	288	Phosphoribulokinase {Rhodobacter sphaeroides [TaxI	97.01
d2a5yb3	277	CED-4, NB-ARC domain {Caenorhabditis elegans [TaxI	97.0
d1ckea_	225	CMP kinase {Escherichia coli [TaxId: 562]}	97.0
d1qvra3	315	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	97.0
d1hyqa_	232	Cell division regulator MinD {Archaeon Archaeoglob	96.97
d1s96a_	205	Guanylate kinase {Escherichia coli [TaxId: 562]}	96.97
d1s3ga1	182	Adenylate kinase {Bacillus globisporus [TaxId: 145	96.96
d2cdna1	181	Adenylate kinase {Mycobacterium tuberculosis [TaxI	96.95
d1iqpa2	231	Replication factor C {Archaeon Pyrococcus furiosus	96.94
d1e6ca_	170	Shikimate kinase (AroK) {Erwinia chrysanthemi [Tax	96.9
d1odfa_	286	Hypothetical protein Ygr205W {Baker's yeast (Sacch	96.87
d2fnaa2	283	Archaeal ATPase SSO1545 {Sulfolobus solfataricus [	96.85
d1e4va1	179	Adenylate kinase {Escherichia coli [TaxId: 562]}	96.84
d1viaa_	161	Shikimate kinase (AroK) {Campylobacter jejuni [Tax	96.84
d1q3ta_	223	CMP kinase {Streptococcus pneumoniae [TaxId: 1313]	96.83
d1qvra2	387	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	96.82
d1akya1	180	Adenylate kinase {Baker's yeast (Saccharomyces cer	96.82
d1sxjd2	237	Replication factor C2 {Baker's yeast (Saccharomyce	96.81
d2iyva1	165	Shikimate kinase (AroK) {Mycobacterium tuberculosi	96.79
d1sxjb2	224	Replication factor C4 {Baker's yeast (Saccharomyce	96.75
d2c78a3	204	Elongation factor Tu (EF-Tu), N-terminal (G) domai	96.73
d1gsia_	208	Thymidylate kinase {Mycobacterium tuberculosis [Ta	96.7
d2ak3a1	189	Adenylate kinase {Cow (Bos taurus), mitochondrial	96.69
d1g6oa_	323	Hexameric traffic ATPase, HP0525 {Helicobacter pyl	96.64
d2bv3a2	276	Elongation factor G (EF-G), N-terminal (G) domain	96.62
d2eyqa3	233	Transcription-repair coupling factor, TRCF {Escher	96.61
d1g5ta_	157	ATP:corrinoid adenosyltransferase CobA {Salmonella	96.58
g1f2t.1	292	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	96.56
d1a1va1	136	HCV helicase domain {Human hepatitis C virus (HCV)	96.55
d1r6bx3	315	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	96.49
d1gkya_	186	Guanylate kinase {Baker's yeast (Saccharomyces cer	96.47
d1nija1	222	Hypothetical protein YjiA, N-terminal domain {Esch	96.45
d1lvga_	190	Guanylate kinase {Mouse (Mus musculus) [TaxId: 100	96.44
d1wb1a4	179	Elongation factor SelB, N-terminal domain {Methano	96.42
d1pjra1	318	DEXX box DNA helicase {Bacillus stearothermophilus	96.35
d1kgda_	178	Guanylate kinase-like domain of Cask {Human (Homo	96.31
d1um8a_	364	ClpX {Helicobacter pylori [TaxId: 210]}	96.3
d1u0la2	225	Probable GTPase EngC (YjeQ), C-terminal domain {Th	96.29
d1e9ra_	433	Bacterial conjugative coupling protein TrwB {Esche	96.29
d1htwa_	158	Hypothetical protein HI0065 {Haemophilus influenza	96.26
d1r8sa_	160	ADP-ribosylation factor {Human (Homo sapiens), ARF	96.23
d1uaaa1	306	DEXX box DNA helicase {Escherichia coli, RepD [Tax	96.19
d1uf9a_	191	Dephospho-CoA kinase {Thermus thermophilus [TaxId:	96.13
g1ii8.1	369	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	96.09
d2dy1a2	267	Elongation factor G (EF-G), N-terminal (G) domain	96.05
d1tuea_	205	Replication protein E1 helicase domain {Human papi	96.0
d1gkub1	237	Helicase-like "domain" of reverse gyrase {Archaeon	95.96
d1kkma_	176	HPr kinase HprK C-terminal domain {Lactobacillus c	95.84
d1knxa2	177	HPr kinase HprK C-terminal domain {Mycoplasma pneu	95.84
d1ofux_	119	Hypothetical protein PA3008 {Pseudomonas aeruginos	95.79
d1svia_	195	Probable GTPase EngB {Bacillus subtilis [TaxId: 14	95.78
d1tmka_	214	Thymidylate kinase {Baker's yeast (Saccharomyces c	95.77
d2gjsa1	168	Rad {Human (Homo sapiens) [TaxId: 9606]}	95.76
d1w1wa_	427	Smc head domain {Baker's yeast (Saccharomyces cere	95.76
d1w36d1	359	Exodeoxyribonuclease V alpha chain (RecD) {Escheri	95.75
d2qtvb1	166	SAR1 {Baker's yeast (Saccharomyces cerevisiae) [Ta	95.71
g1xew.1	329	Smc head domain {Pyrococcus furiosus [TaxId: 2261]	95.7
d1qhla_	222	Cell division protein MukB {Escherichia coli [TaxI	95.66
d1ko7a2	169	HPr kinase HprK C-terminal domain {Staphylococcus	95.65
d1upta_	169	ADP-ribosylation factor {Human (Homo sapiens), ARL	95.64
d2p6ra3	202	Hel308 helicase {Archaeoglobus fulgidus [TaxId: 22	95.6
d1f6ba_	186	SAR1 {Chinese hamster (Cricetulus griseus) [TaxId:	95.54
d1e69a_	308	Smc head domain {Thermotoga maritima [TaxId: 2336]	95.43
d1g41a_	443	HslU {Haemophilus influenzae [TaxId: 727]}	95.42
d1gm5a3	264	RecG helicase domain {Thermotoga maritima [TaxId:	95.37
d1zj6a1	177	ADP-ribosylation factor {Human (Homo sapiens), ARL	95.35
d2vp4a1	197	Deoxyribonucleoside kinase {Fruit fly (Drosophila	95.28
d1jjva_	205	Dephospho-CoA kinase {Haemophilus influenzae [TaxI	95.26
d2fh5b1	207	Signal recognition particle receptor beta-subunit	95.23
d1mkya1	171	Probable GTPase Der, N-terminal and middle domains	95.22
d1t9ha2	231	Probable GTPase EngC (YjeQ), C-terminal domain {Ba	95.22
d1vhta_	208	Dephospho-CoA kinase {Escherichia coli [TaxId: 562	95.2
d1ksha_	165	ADP-ribosylation factor {Mouse (Mus musculus), ARL	95.2
d1z2aa1	164	Rab23 {Mouse (Mus musculus) [TaxId: 10090]}	95.16
d1zd9a1	164	ADP-ribosylation factor {Human (Homo sapiens), ARL	95.13
d1nrjb_	209	Signal recognition particle receptor beta-subunit	95.07
d1ky3a_	175	Rab-related protein ypt7p {Baker's yeast (Saccharo	94.96
d2a5ja1	173	Rab2b {Human (Homo sapiens) [TaxId: 9606]}	94.94
d2cxxa1	184	GTP-binding protein engB {Pyrococcus horikoshii [T	94.94
d1p5zb_	241	Deoxycytidine kinase {Human (Homo sapiens) [TaxId:	94.92
d1fzqa_	176	ADP-ribosylation factor {Mouse (Mus musculus), ARL	94.92
d1g7sa4	227	Initiation factor IF2/eIF5b, N-terminal (G) domain	94.91
d1ctqa_	166	cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9	94.89
d1kaoa_	167	Rap2a {Human (Homo sapiens) [TaxId: 9606]}	94.85
d1g8pa_	333	ATPase subunit of magnesium chelatase, BchI {Rhodo	94.81
d2erya1	171	r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	94.8
d2f9la1	175	Rab11b {Human (Homo sapiens) [TaxId: 9606]}	94.75
d2f7sa1	186	Rab27b {Human (Homo sapiens) [TaxId: 9606]}	94.75
d2gj8a1	161	Probable tRNA modification GTPase TrmE (MnmE), G d	94.74
d1z0fa1	166	Rab14 {Human (Homo sapiens) [TaxId: 9606]}	94.72
d3raba_	169	Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}	94.7
d1xtqa1	167	GTP-binding protein RheB {Human (Homo sapiens) [Ta	94.69
d2erxa1	171	di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	94.64
d2ew1a1	171	Rab30 {Human (Homo sapiens) [TaxId: 9606]}	94.64
d1g16a_	166	Rab-related protein Sec4 {Baker's yeast (Saccharom	94.59
d1lnza2	185	Obg GTP-binding protein middle domain {Bacillus su	94.59
d1z08a1	167	Rab21 {Human (Homo sapiens) [TaxId: 9606]}	94.58
d1wmsa_	174	Rab9a {Human (Homo sapiens) [TaxId: 9606]}	94.57
d2bmea1	174	Rab4a {Human (Homo sapiens) [TaxId: 9606]}	94.57
d1r2qa_	170	Rab5a {Human (Homo sapiens) [TaxId: 9606]}	94.54
d2atva1	168	Ras-like estrogen-regulated growth inhibitor, RERG	94.51
d1z06a1	165	Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}	94.5
d2fn4a1	173	r-Ras {Human (Homo sapiens) [TaxId: 9606]}	94.48
d1vg8a_	184	Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}	94.45
d1egaa1	179	GTPase Era, N-terminal domain {Escherichia coli [T	94.43
d1yzqa1	164	Rab6 {Human (Homo sapiens) [TaxId: 9606]}	94.43
d1kmqa_	177	RhoA {Human (Homo sapiens) [TaxId: 9606]}	94.43
d1wf3a1	178	GTPase Era, N-terminal domain {Thermus thermophilu	94.41
d2bcgy1	194	GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisi	94.38
d1z0ja1	167	Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}	94.37
d1d2ea3	196	Elongation factor Tu (EF-Tu), N-terminal (G) domai	94.34
d1u0ja_	267	Rep 40 protein helicase domain {Adeno-associated v	94.29
d1ek0a_	170	Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [T	94.28
d1deka_	241	Deoxynucleoside monophosphate kinase {Bacteriophag	94.26
d1wp9a1	200	putative ATP-dependent RNA helicase PF2015 {Pyroco	94.25
d1e0sa_	173	ADP-ribosylation factor {Human (Homo sapiens), ARF	94.21
d2g6ba1	170	Rab26 {Human (Homo sapiens) [TaxId: 9606]}	94.2
d1moza_	182	ADP-ribosylation factor {Baker's yeast (Saccharomy	94.19
d1c1ya_	167	Rap1A {Human (Homo sapiens) [TaxId: 9606]}	94.06
d1udxa2	180	Obg GTP-binding protein middle domain {Thermus the	93.95
d1u8za_	168	Ras-related protein RalA {Cotton-top tamarin (Sagu	93.93
d1x3sa1	177	Rab18 {Human (Homo sapiens) [TaxId: 9606]}	93.9
d1x1ra1	169	Ras-related protein M-Ras (XRas) {Mouse (Mus muscu	93.89
d1mkya2	186	Probable GTPase Der, N-terminal and middle domains	93.85
d1n0ua2	341	Elongation factor 2 (eEF-2), N-terminal (G) domain	93.8
d1puia_	188	Probable GTPase EngB {Escherichia coli [TaxId: 562	93.78
d2ngra_	191	CDC42 {Human (Homo sapiens) [TaxId: 9606]}	93.77
d1m7ba_	179	RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}	93.74
d1mh1a_	183	Rac {Human (Homo sapiens) [TaxId: 9606]}	93.7
d1zcba2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	93.69
d2atxa1	185	RhoQ {Human (Homo sapiens) [TaxId: 9606]}	93.64
d2g3ya1	172	GTP-binding protein GEM {Human (Homo sapiens) [Tax	93.64
d1i2ma_	170	Ran {Human (Homo sapiens) [TaxId: 9606]}	93.63
d2ocpa1	241	Deoxyguanosine kinase {Human (Homo sapiens) [TaxId	93.56
d1osna_	331	Thymidine kinase {Varicella-zoster virus [TaxId: 1	93.51
d1ny5a2	247	Transcriptional activator sigm54 (NtrC1), C-termin	93.5
d2fu5c1	173	Rab8a {Mouse (Mus musculus) [TaxId: 10090]}	93.45
d1xzpa2	160	TrmE GTPase domain {Thermotoga maritima [TaxId: 23	93.3
d1azta2	221	Transducin (alpha subunit) {Cow (Bos taurus) [TaxI	93.26
d2bmja1	175	Centaurin gamma 1, G domain {Human (Homo sapiens)	93.21
d2bcjq2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	93.0
d1h65a_	257	Chloroplast protein translocon GTPase Toc34 {Garde	92.39
d1svsa1	195	Transducin (alpha subunit) {Rat (Rattus norvegicus	92.29
g1qhh.1	623	DEXX box DNA helicase {Bacillus stearothermophilus	92.18
d1g8fa3	122	ATP sulfurylase C-terminal domain {Baker's yeast (	91.89
d2fz4a1	206	DNA repair protein RAD25 {Archaeoglobus fulgidus [	90.04
d1f60a3	239	Elongation factor eEF-1alpha, N-terminal (G) domai	89.92
d1p6xa_	333	Thymidine kinase {Equine herpesvirus type 4 [TaxId	89.78
d1j3ba1	318	Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxalo	89.41
d2olra1	313	Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxalo	89.16
d2qn6a3	205	Initiation factor eIF2 gamma subunit, N-terminal (	89.01
d1tq4a_	400	Interferon-inducible GTPase {Mouse (Mus musculus)	88.77
d1kk1a3	195	Initiation factor eIF2 gamma subunit, N-terminal (	88.56
d1zunb3	222	Sulfate adenylate transferase subunit cysN/C, EF-T	88.4
d1ii2a1	323	Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxalo	87.84
d1ni3a1	296	YchF GTP-binding protein N-terminal domain {Fissio	86.73
d1lkxa_	684	Myosin S1, motor domain {Dictyostelium discoideum,	86.19
d1d0xa2	712	Myosin S1, motor domain {Dictyostelium discoideum	85.48
d1br2a2	710	Myosin S1, motor domain {Chicken (Gallus gallus),	84.7
d1w36b1	485	Exodeoxyribonuclease V beta chain (RecB), N-termin	84.56
d2mysa2	794	Myosin S1, motor domain {Chicken (Gallus gallus),	84.47
d1f5na2	277	Interferon-induced guanylate-binding protein 1 (GB	84.22
d1wxqa1	319	GTP-binding protein PH0525 {Pyrococcus horikoshii	83.96
d1e2ka_	329	Thymidine kinase {Herpes simplex virus type 1, dif	83.83
d1kk8a2	789	Myosin S1, motor domain {Bay scallop (Aequipecten	82.84
d1jala1	278	YchF GTP-binding protein N-terminal domain {Haemop	82.75
d1w7ja2	730	Myosin S1, motor domain {Chicken (Gallus gallus),	82.09
d1oywa2	206	RecQ helicase domain {Escherichia coli [TaxId: 562	81.12

>d1xp8a1 c.37.1.11 (A:15-282) RecA protein, ATPase-domain {Deinococcus radiodurans [TaxId: 1299]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: RecA protein, ATPase-domain
species: Deinococcus radiodurans [TaxId: 1299]

Probab=100.00  E-value=3.2e-34  Score=245.33  Aligned_cols=198  Identities=47%  Similarity=0.759  Sum_probs=170.4

Q ss_pred             hHHHHHHHHHHHHHHHhcCCccccccccccCCCCCCccccCcHHHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHH
Q 024705           64 MQKDNALRLALSQLANDFGKESMLSLKRFFGSRRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKE  143 (264)
Q Consensus        64 ~~~~~~l~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~i~tG~~~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~  143 (264)
                      .++++.|..++.++.++||++..+.+.... ..+.+.+|||++.||.+||.||+|.|.+++|+||+|+|||+||++++.+
T Consensus         2 ~~~~~~~~~~~~~i~k~~g~~~~~~~~~~~-~~~~~~i~TGs~~lD~~Lg~GGip~g~itei~G~~~sGKT~l~l~~~~~   80 (268)
T d1xp8a1           2 KERSKAIETAMSQIEKAFGKGSIMKLGAES-KLDVQVVSTGSLSLDLALGVGGIPRGRITEIYGPESGGKTTLALAIVAQ   80 (268)
T ss_dssp             CHHHHHHHHHHHHHHHHHCTTSSCCTTSCC-CCCCCEECCSCHHHHHHTSSSSEETTSEEEEEESTTSSHHHHHHHHHHH
T ss_pred             chHHHHHHHHHHHHHHHhCCcceEECCCcC-CCCCCeEcCCCHHHHHHhcCCCccCceEEEEecCCccchHHHHHHHHHH
Confidence            357888999999999999998876654433 3678899999999999996699999999999999999999999999999


Q ss_pred             HhhcCCeEEEEecCCCCCHHHHHHcCCCccceeEeCCCCHHHHHHHHHHHhhcCCccEEEEcCccccccccccCCCcCCC
Q 024705          144 AQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGM  223 (264)
Q Consensus       144 ~~~~g~~v~~~~~e~~~~~~~~~~~g~~~~~l~~~~~~~~ee~~~~i~~~~~~~~~~~vvIDsl~~~~~~~~~~~~~~~~  223 (264)
                      +++.|+.|+|+|.|...++.+++++|++++++.+.++.+.|+.++.++.+++...++++||||+.+++++.+++++.++.
T Consensus        81 aqk~g~~v~yiDtE~~~~~~~a~~~Gvd~d~i~~~~~~~~E~~~~~~~~l~~~~~~~liIiDSi~al~~r~e~~~~~~~~  160 (268)
T d1xp8a1          81 AQKAGGTCAFIDAEHALDPVYARALGVNTDELLVSQPDNGEQALEIMELLVRSGAIDVVVVDSVAALTPRAEIEGDMGDS  160 (268)
T ss_dssp             HHHTTCCEEEEESSCCCCHHHHHHTTCCGGGCEEECCSSHHHHHHHHHHHHTTTCCSEEEEECTTTCCCSTTC-------
T ss_pred             HHhCCCEEEEEECCccCCHHHHHHhCCCchhEEEEcCCCHHHHHHHHHHHHhcCCCcEEEEecccccccHHHHcccccch
Confidence            99999999999999999999999999999999999999999999999999988899999999999999888888876666


Q ss_pred             CcHHHHHHHHHHHHHHHHHHhccCcEEEEEcccchHhhh
Q 024705          224 YSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVKVLLLK  262 (264)
Q Consensus       224 ~~~~q~r~i~~~L~~l~~~l~~~g~tVi~i~h~~~~~~~  262 (264)
                      ..+.+++.+...++++...+.++++++|++||++++...
T Consensus       161 ~~~~~a~~l~~~lr~l~~~~~~~~~~vi~tNQv~~~~g~  199 (268)
T d1xp8a1         161 LPGLQARLMSQALRKLTAILSKTGTAAIFINQVREKIGV  199 (268)
T ss_dssp             -CCHHHHHHHHHHHHHHHHHTTTCCEEEEEEEC------
T ss_pred             hHHHHHHHHHHHHHHHHhhhhhcCCeEEEEeEEeecccc
Confidence            666788889999999999999999999999999988754

>d1u94a1 c.37.1.11 (A:6-268) RecA protein, ATPase-domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: RecA protein, ATPase-domain
species: Escherichia coli [TaxId: 562]

Probab=100.00  E-value=1.8e-33  Score=240.28  Aligned_cols=195  Identities=52%  Similarity=0.758  Sum_probs=166.1

Q ss_pred             HHHHHHHHHHHHHhcCCccccccccccCCCCCCccccCcHHHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHHhh
Q 024705           67 DNALRLALSQLANDFGKESMLSLKRFFGSRRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQK  146 (264)
Q Consensus        67 ~~~l~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~i~tG~~~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~  146 (264)
                      .+.|.++|.++.++||++..+++.... ..+.+.+|||+++||.+||.||+++|.+++|+||||+||||+|++++.++++
T Consensus         2 ~~~~~~~~~~i~k~~g~~~~~~~~~~~-~~~~~~isTG~~~lD~~Lg~GGi~~g~itei~G~~gsGKTtl~l~~~~~~q~   80 (263)
T d1u94a1           2 QKALAAALGQIEKQFGKGSIMRLGEDR-SMDVETISTGSLSLDIALGAGGLPMGRIVEIYGPESSGKTTLTLQVIAAAQR   80 (263)
T ss_dssp             HHHHHHHHHHHHHHHCTTSSCCTTCCC-BCCCCEECCSCHHHHHHTSSSSEETTSEEEEECSTTSSHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHhhCCcceEECCccc-CCCCCeEccCCHHHHHHhcCCCccCceEEEEecCCCcHHHHHHHHHHHHHHc
Confidence            356888899999999998877766533 3567899999999999995599999999999999999999999999999999


Q ss_pred             cCCeEEEEecCCCCCHHHHHHcCCCccceeEeCCCCHHHHHHHHHHHhhcCCccEEEEcCccccccccccCCCcCCCCcH
Q 024705          147 LGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSD  226 (264)
Q Consensus       147 ~g~~v~~~~~e~~~~~~~~~~~g~~~~~l~~~~~~~~ee~~~~i~~~~~~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~  226 (264)
                      +|+.++|+++|....+.+++++|++++++.+.++.+.|+.++.+..+.+..+++++||||+.+++++.+++++..+...+
T Consensus        81 ~g~~~vyidtE~~~~~~~a~~~Gvd~d~v~~~~~~~~E~~~~~i~~l~~~~~~~liViDSi~al~~~~e~~~~~~~~~~~  160 (263)
T d1u94a1          81 EGKTCAFIDAEHALDPIYARKLGVDIDNLLCSQPDTGEQALEICDALARSGAVDVIVVDSVAALTPKAEIEGEIGDSHMG  160 (263)
T ss_dssp             TTCCEEEEESSCCCCHHHHHHTTCCGGGCEEECCSSHHHHHHHHHHHHHHTCCSEEEEECGGGCCCHHHHTTC------C
T ss_pred             CCCEEEEEccccccCHHHHHHhCCCHHHEEEecCCCHHHHHHHHHHHHhcCCCCEEEEECccccccchhcccccccchHH
Confidence            99999999999999999999999999999999999999999999999888899999999999999877777766555556


Q ss_pred             HHHHHHHHHHHHHHHHHhccCcEEEEEcccchHhhh
Q 024705          227 AQSRIMTQALRKIHYSLCQSHTLIIFLNQVKVLLLK  262 (264)
Q Consensus       227 ~q~r~i~~~L~~l~~~l~~~g~tVi~i~h~~~~~~~  262 (264)
                      ..++.+...++++...+++++++||++||++.+.+.
T Consensus       161 ~~a~~l~~~~~~l~~~~~~~~~~vi~~NQv~~~~~~  196 (263)
T d1u94a1         161 LAARMMSQAMRKLAGNLKQSNTLLIFINQIRMKIGV  196 (263)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHTCEEEEEEC-------
T ss_pred             HHHHHHHHHHHHHHHhhhccCceEEEEEEEEecccc
Confidence            677888999999999999999999999999987654

>d1mo6a1 c.37.1.11 (A:1-269) RecA protein, ATPase-domain {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: RecA protein, ATPase-domain
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=100.00  E-value=3.4e-33  Score=238.72  Aligned_cols=197  Identities=45%  Similarity=0.751  Sum_probs=170.2

Q ss_pred             HHHHHHHHHHHHHHHhcCCccccccccccCCCCCCccccCcHHHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHH
Q 024705           65 QKDNALRLALSQLANDFGKESMLSLKRFFGSRRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEA  144 (264)
Q Consensus        65 ~~~~~l~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~i~tG~~~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~  144 (264)
                      ++.+.|..++.++.++||.+..+.+.... ....+.+|||++.||.+||.||++.|.+++|+||+|+|||++|++++.++
T Consensus         6 ~~~k~~~~~~~~i~k~~g~~~i~~~~~~~-~~~~~~i~TG~~~lD~~lg~gG~~~g~i~e~~G~~~~GKT~l~l~~~~~~   84 (269)
T d1mo6a1           6 DREKALELAVAQIEKSYGKGSVMRLGDEA-RQPISVIPTGSIALDVALGIGGLPRGRVIEIYGPESSGKTTVALHAVANA   84 (269)
T ss_dssp             THHHHHHHHHHHHHHHHCTTSSCCTTCCC-CCCSCCBCCSCHHHHHHTSSSSBCSSSEEEEECSSSSSHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHhCCcceEECCCcc-CCccceEccCCHHHHHhhccCCcccceeEEEecCCCcHHHHHHHHHHHHH
Confidence            36778999999999999998876665432 35678999999999999977999999999999999999999999999999


Q ss_pred             hhcCCeEEEEecCCCCCHHHHHHcCCCccceeEeCCCCHHHHHHHHHHHhhcCCccEEEEcCccccccccccCCCcCCCC
Q 024705          145 QKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMY  224 (264)
Q Consensus       145 ~~~g~~v~~~~~e~~~~~~~~~~~g~~~~~l~~~~~~~~ee~~~~i~~~~~~~~~~~vvIDsl~~~~~~~~~~~~~~~~~  224 (264)
                      +..|+.|+|++.|...++.+++++|++++++.++++.+.|+.++.++.+++...++++||||+.++.++.+++++.++..
T Consensus        85 q~~g~~~vyIDtE~~~~~e~a~~~GvD~d~il~~~~~~~E~~~~~~~~l~~~~~~~liIiDSi~al~~~~E~e~~~~~~~  164 (269)
T d1mo6a1          85 QAAGGVAAFIDAEHALDPDYAKKLGVDTDSLLVSQPDTGEQALEIADMLIRSGALDIVVIDSVAALVPRAELEGEMGDSH  164 (269)
T ss_dssp             HHTTCEEEEEESSCCCCHHHHHHHTCCGGGCEEECCSSHHHHHHHHHHHHHTTCEEEEEEECSTTCCCHHHHC-------
T ss_pred             hcCCCEEEEEECCccCCHHHHHHhCCCHHHeEEecCCCHHHHHHHHHHHHhcCCCCEEEEecccccccHHHhccccccch
Confidence            99999999999999999999999999999999999999999999999999888999999999999998888887766666


Q ss_pred             cHHHHHHHHHHHHHHHHHHhccCcEEEEEcccchHhhh
Q 024705          225 SDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVKVLLLK  262 (264)
Q Consensus       225 ~~~q~r~i~~~L~~l~~~l~~~g~tVi~i~h~~~~~~~  262 (264)
                      .+.+++.+.+.++++...+.++++++|++||++++.+.
T Consensus       165 ~~~~a~~l~~~l~~l~~~~~~~~~~vi~~NQv~~~~~~  202 (269)
T d1mo6a1         165 VGLQARLMSQALRKMTGALNNSGTTAIFINQLRDKIGV  202 (269)
T ss_dssp             CCHHHHHHHHHHHHHHHHHHHHTCEEEEEECC------
T ss_pred             HHHHHHHHHHHHHHHHHHHhhcCchhhhhheeeccCcc
Confidence            66788989999999999999999999999999988764

>d1tf7a2 c.37.1.11 (A:256-497) Circadian clock protein KaiC {Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Circadian clock protein KaiC
species: Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]

Probab=99.87  E-value=3.3e-22  Score=167.33  Aligned_cols=148  Identities=24%  Similarity=0.241  Sum_probs=117.5

Q ss_pred             CCCccccCcHHHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCH--HHHHHcCCCccc
Q 024705           97 RGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP--SLAEAMGIDAEN  174 (264)
Q Consensus        97 ~~~~i~tG~~~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~--~~~~~~g~~~~~  174 (264)
                      +..++|||++.||++|+ ||+++|++++|+|+||+|||+|+++++.+++..+.+++|+++|++...  .+++.+|++.+.
T Consensus         4 ~~~ri~TG~~~LD~~l~-GGi~~gsl~li~G~pGsGKT~l~~qia~~~~~~~~~~~~is~e~~~~~~~~~~~~~~~~~~~   82 (242)
T d1tf7a2           4 SNVRVSSGVVRLDEMCG-GGFFKDSIILATGATGTGKTLLVSRFVENACANKERAILFAYEESRAQLLRNAYSWGMDFEE   82 (242)
T ss_dssp             CCCEECCSCHHHHHHTT-SSEESSCEEEEEECTTSSHHHHHHHHHHHHHTTTCCEEEEESSSCHHHHHHHHHTTSCCHHH
T ss_pred             CCCccCCCcHHHHHhhc-CCCcCCeEEEEEeCCCCCHHHHHHHHHHHHHHhccccceeeccCCHHHHHHHHHHcCCChHH
Confidence            45679999999999999 999999999999999999999999999999999999999999988766  456667776543


Q ss_pred             ------eeEeC----CCCHHHHHHHHHHHhhcCCccEEEEcCccccccccccCCCcCCCCcHHHHHHHHHHHHHHHHHHh
Q 024705          175 ------LLIAQ----PDSAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLC  244 (264)
Q Consensus       175 ------l~~~~----~~~~ee~~~~i~~~~~~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r~i~~~L~~l~~~l~  244 (264)
                            +.+..    ....++....+...++..++++++||+++.+...          ....+..   ..+..+.+.++
T Consensus        83 ~~~~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~vviDs~~~~~~~----------~~~~~~~---~~~~~l~~~~~  149 (242)
T d1tf7a2          83 MERQNLLKIVCAYPESAGLEDHLQIIKSEINDFKPARIAIDSLSALARG----------VSNNAFR---QFVIGVTGYAK  149 (242)
T ss_dssp             HHHTTSEEECCCCGGGSCHHHHHHHHHHHHHTTCCSEEEEECHHHHTSS----------SCHHHHH---HHHHHHHHHHH
T ss_pred             HhhcCceEEEEeecchhhHHHHHHHHHHHHHhcCCceeeeecchhhhcC----------CCHHHHH---HHHHHHHHHHH
Confidence                  22222    2346777788888888899999999999988731          1113333   45555555669


Q ss_pred             ccCcEEEEEcccch
Q 024705          245 QSHTLIIFLNQVKV  258 (264)
Q Consensus       245 ~~g~tVi~i~h~~~  258 (264)
                      +.|+++++++|...
T Consensus       150 ~~~~~~i~~~~~~~  163 (242)
T d1tf7a2         150 QEEITGLFTNTSDQ  163 (242)
T ss_dssp             HTTCEEEEEEECSS
T ss_pred             HcCCeEEEEEeeEe
Confidence            99999999999753

>d1cr2a_ c.37.1.11 (A:) Gene 4 protein (g4p, DNA primase), helicase domain {Bacteriophage T7 [TaxId: 10760]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Gene 4 protein (g4p, DNA primase), helicase domain
species: Bacteriophage T7 [TaxId: 10760]

Probab=99.83  E-value=4.2e-20  Score=157.61  Aligned_cols=154  Identities=10%  Similarity=0.148  Sum_probs=107.1

Q ss_pred             CCCCccccCcHHHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHHh-hcCCeEEEEecCCCCCHHH----HHHcCC
Q 024705           96 RRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQ-KLGGYCAYLDVENALDPSL----AEAMGI  170 (264)
Q Consensus        96 ~~~~~i~tG~~~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~-~~g~~v~~~~~e~~~~~~~----~~~~g~  170 (264)
                      .....++||++.||.+++  |+.+|++++|+|+||+|||+|+.+++.+++ ..|.+|+|++.|++..+..    +...++
T Consensus        13 ~~~~~i~TG~~~lD~~~~--G~~~G~l~vi~G~~G~GKT~~~~~la~~~a~~~g~~v~~~s~E~~~~~~~~r~~~~~~~~   90 (277)
T d1cr2a_          13 ESVGLLFSGCTGINDKTL--GARGGEVIMVTSGSGMGKSTFVRQQALQWGTAMGKKVGLAMLEESVEETAEDLIGLHNRV   90 (277)
T ss_dssp             CCSCBCCCSCTTHHHHHC--SBCTTCEEEEECSTTSSHHHHHHHHHHHHHHTSCCCEEEEESSSCHHHHHHHHHHHHTTC
T ss_pred             CCccccCCCchhHHHHhc--CCCCCeEEEEEeCCCCCHHHHHHHHHHhhhhhcccceeEeeeccchhhHHhHHHHHhhcC
Confidence            345789999999999985  999999999999999999999999999865 5689999999998866521    111232


Q ss_pred             Ccc--------------------------ceeEe---CCCCHHHHHHHHHHHhhcCCccEEEEcCccccccccccCCCcC
Q 024705          171 DAE--------------------------NLLIA---QPDSAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPIN  221 (264)
Q Consensus       171 ~~~--------------------------~l~~~---~~~~~ee~~~~i~~~~~~~~~~~vvIDsl~~~~~~~~~~~~~~  221 (264)
                      +..                          .+.++   ...+.+++...+.......++++||||+++.+.+.....    
T Consensus        91 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vvID~l~~l~~~~~~~----  166 (277)
T d1cr2a_          91 RLRQSDSLKREIIENGKFDQWFDELFGNDTFHLYDSFAEAETDRLLAKLAYMRSGLGCDVIILDHISIVVSASGES----  166 (277)
T ss_dssp             CGGGCHHHHHHHHHTSHHHHHHHHHHSSSCEEEECCC-CCCHHHHHHHHHHHHHTTCCSEEEEEEEEC------------
T ss_pred             CchhhcccccchhhhHHHHHHHHHhhccceeeeeccccchhHHHHHHHhhhhhhccCcceEEEccccccccccccc----
Confidence            211                          12222   234677888888888788899999999998776421110    


Q ss_pred             CCCcHHHHHHHHHHHHHHHHHHhccCcEEEEEcccchHh
Q 024705          222 GMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVKVLL  260 (264)
Q Consensus       222 ~~~~~~q~r~i~~~L~~l~~~l~~~g~tVi~i~h~~~~~  260 (264)
                        ....+...+...|+.++   +++|++||+++|.++.-
T Consensus       167 --~~~~~~~~~~~~l~~lA---~~~~i~vi~~~q~~r~~  200 (277)
T d1cr2a_         167 --DERKMIDNLMTKLKGFA---KSTGVVLVVICHLKNPD  200 (277)
T ss_dssp             ----CHHHHHHHHHHHHHH---HHHCCEEEEEEECC---
T ss_pred             --chhHHHHHHHHHHHHHh---hhccccceeeccccccc
Confidence              01123333444555555   99999999999998653

>d1tf7a1 c.37.1.11 (A:14-255) Circadian clock protein KaiC {Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Circadian clock protein KaiC
species: Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]

Probab=99.83  E-value=8e-21  Score=157.25  Aligned_cols=152  Identities=16%  Similarity=0.180  Sum_probs=109.6

Q ss_pred             CCCCccccCcHHHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHHhhc-CCeEEEEecCCCCCHH--HHHHcCCCc
Q 024705           96 RRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKL-GGYCAYLDVENALDPS--LAEAMGIDA  172 (264)
Q Consensus        96 ~~~~~i~tG~~~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~-g~~v~~~~~e~~~~~~--~~~~~g~~~  172 (264)
                      ...++++||++.||.+++ ||+++|++++|+|+||+|||+|+++++.+.+.. +.+++|++.|+.....  .+...+.+.
T Consensus         3 ~~~~~i~TGi~~LD~~l~-GGi~~G~~~~I~G~~G~GKT~la~~~~~~~~~~~~~~~~~~s~e~~~~~~~~~~~~~~~~~   81 (242)
T d1tf7a1           3 QAIAKMRTMIEGFDDISH-GGLPIGRSTLVSGTSGTGKTLFSIQFLYNGIIEFDEPGVFVTFEETPQDIIKNARSFGWDL   81 (242)
T ss_dssp             SSCCEECCCCTTHHHHTT-SSEETTSEEEEEESTTSSHHHHHHHHHHHHHHHHCCCEEEEESSSCHHHHHHHHGGGTCCH
T ss_pred             CCCCcccCCcHHHHHhhc-CCCcCCeEEEEEeCCCCCHHHHHHHHHHHHHHhcCCCcccccccCCHHHHHHHHHHcCCCh
Confidence            356899999999999999 999999999999999999999999998876544 5689999999876552  334444433


Q ss_pred             cce------e------------EeCCCCHHHHHHHHHHHhhcCCccEEEEcCccccccccccCCCcCCCCcHHHHHHHHH
Q 024705          173 ENL------L------------IAQPDSAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQ  234 (264)
Q Consensus       173 ~~l------~------------~~~~~~~ee~~~~i~~~~~~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r~i~~  234 (264)
                      +..      .            .....+..++++.+...+...++++++||+++.+....  .       ....   ...
T Consensus        82 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~i~~~~~~~viiD~~~~l~~~~--~-------~~~~---~~~  149 (242)
T d1tf7a1          82 AKLVDEGKLFILDASPDPEGQEVVGGFDLSALIERINYAIQKYRARRVSIDSVTSVFQQY--D-------ASSV---VRR  149 (242)
T ss_dssp             HHHHHTTSEEEEECCCCSSCCSCCSSHHHHHHHHHHHHHHHHHTCSEEEEECSTTTSTTT--C-------CHHH---HHH
T ss_pred             HHHHHhcchhhhhhccchhhhhhhccccHHHHHHHHHHHHHhhccchhhhhHHHHHHHhc--c-------ChhH---HHH
Confidence            211      0            11111244566677777777899999999999887421  1       1122   234


Q ss_pred             HHHHHHHHHhccCcEEEEEcccchHh
Q 024705          235 ALRKIHYSLCQSHTLIIFLNQVKVLL  260 (264)
Q Consensus       235 ~L~~l~~~l~~~g~tVi~i~h~~~~~  260 (264)
                      .+..+...+++.++++++++|.....
T Consensus       150 ~~~~~~~~~~~~~~~~~~~~~~~~~~  175 (242)
T d1tf7a1         150 ELFRLVARLKQIGATTVMTTERIEEY  175 (242)
T ss_dssp             HHHHHHHHHHHHTCEEEEEEECSSSS
T ss_pred             HHHHHHHHHHhcCCceEEeecccccc
Confidence            45555666688999999999987643

>d1pzna2 c.37.1.11 (A:96-349) DNA repair protein Rad51, catalytic domain {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=99.80  E-value=4.5e-19  Score=148.36  Aligned_cols=161  Identities=25%  Similarity=0.349  Sum_probs=112.4

Q ss_pred             CCCCccccCcHHHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHHhh------cCCeEEEEecCCCCCHHHHH---
Q 024705           96 RRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQK------LGGYCAYLDVENALDPSLAE---  166 (264)
Q Consensus        96 ~~~~~i~tG~~~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~------~g~~v~~~~~e~~~~~~~~~---  166 (264)
                      ...+++|||++.||.+|+ ||+++|++++|+||||+|||+|+++++.+.+.      .++.++|++.+........+   
T Consensus        13 ~~i~ri~TGi~~LD~ll~-GGlp~G~~~li~G~pGsGKT~~~lq~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   91 (254)
T d1pzna2          13 ATIGRISTGSKSLDKLLG-GGIETQAITEVFGEFGSGKTQLAHTLAVMVQLPPEEGGLNGSVIWIDTENTFRPERIREIA   91 (254)
T ss_dssp             HTCCEECCSCHHHHHHHT-SSEESSEEEEEEESTTSSHHHHHHHHHHHTTSCGGGTSCSCEEEEEESSSCCCHHHHHHHH
T ss_pred             cCCCeECCCCHHHHHhhc-CCccCCEEEEEEcCCCCCHHHHHHHHHHHhhchHHhcCCCceEEEEeccchhHHHHHHHHH
Confidence            356789999999999999 99999999999999999999999999998874      37899999999888764333   


Q ss_pred             -HcCCCccc----eeEeCCCCHHHHHHHHHH--------HhhcCCccEEEEcCccccccccccCCCcCCCCcHHHHHHHH
Q 024705          167 -AMGIDAEN----LLIAQPDSAENLLSVVDT--------LTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMT  233 (264)
Q Consensus       167 -~~g~~~~~----l~~~~~~~~ee~~~~i~~--------~~~~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r~i~  233 (264)
                       ..+.+.+.    ...............+..        ......++++++|++..++. ....   .........+.+.
T Consensus        92 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~viDs~~~~~~-~~~~---~~~~~~~~~~~~~  167 (254)
T d1pzna2          92 QNRGLDPDEVLKHIYVARAFNSNHQMLLVQQAEDKIKELLNTDRPVKLLIVDSLTSHFR-SEYI---GRGALAERQQKLA  167 (254)
T ss_dssp             HTTTCCHHHHGGGEEEEECCSHHHHHHHHHHHHHHHHHSSSSSSCEEEEEEETSSTTHH-HHCC---STTTHHHHHHHHH
T ss_pred             HhcCCChHHhhhhhhhhhhccchhHHHHHHhhhhhhHHHHhhccCceeEeecchhheee-hhhc---ccchhhhhHHHHH
Confidence             23444332    223333333332222211        12335788999999998873 2221   1223345566667


Q ss_pred             HHHHHHHHHHhccCcEEEEEcccchHhh
Q 024705          234 QALRKIHYSLCQSHTLIIFLNQVKVLLL  261 (264)
Q Consensus       234 ~~L~~l~~~l~~~g~tVi~i~h~~~~~~  261 (264)
                      +.+..+.......++++++++|.+....
T Consensus       168 ~~~~~~~~~~~~~~~~v~~~~~~~~~~~  195 (254)
T d1pzna2         168 KHLADLHRLANLYDIAVFVTNQVQARPD  195 (254)
T ss_dssp             HHHHHHHHHHHHTTCEEEEEEECC----
T ss_pred             HHHHHHHHHhhccceEEEecceEeeccC
Confidence            7777777777889999999999987654

>d1szpa2 c.37.1.11 (A:145-395) DNA repair protein Rad51, catalytic domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.80  E-value=2.8e-19  Score=148.60  Aligned_cols=161  Identities=28%  Similarity=0.404  Sum_probs=116.1

Q ss_pred             CCCCccccCcHHHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHHhh------cCCeEEEEecCCCCCHH----HH
Q 024705           96 RRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQK------LGGYCAYLDVENALDPS----LA  165 (264)
Q Consensus        96 ~~~~~i~tG~~~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~------~g~~v~~~~~e~~~~~~----~~  165 (264)
                      ....+||||++.||.+|+ ||+++|++++|+||||+|||+|+++++.+++.      .+++++|++.+......    ..
T Consensus        11 ~~~~~i~TGi~~LD~ll~-GGi~~G~~~li~G~pGsGKT~l~lq~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~   89 (251)
T d1szpa2          11 SELICLTTGSKNLDTLLG-GGVETGSITELFGEFRTGKSQLCHTLAVTCQIPLDIGGGEGKCLYIDTEGTFRPVRLVSIA   89 (251)
T ss_dssp             HSSCEECCSCHHHHHHHT-SSEESSSEEEEEESTTSSHHHHHHHHTTTTTSCTTTTCCSCEEEEEESSSCCCGGGGHHHH
T ss_pred             cCCCeecCCCHHHHhhhC-CCCcCCeEEEEEcCCCCCHHHHHHHHHHHhhhhhhhccCCceEEEEeecchHHHHHHHHHH
Confidence            356789999999999999 99999999999999999999999999987653      46789999999887763    23


Q ss_pred             HHcCCCcc----ceeEeCC---CCHHHHHHHHHHHhhcCCccEEEEcCccccccccccCCCcCCCCcHHHHHHHHHHHHH
Q 024705          166 EAMGIDAE----NLLIAQP---DSAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRK  238 (264)
Q Consensus       166 ~~~g~~~~----~l~~~~~---~~~ee~~~~i~~~~~~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r~i~~~L~~  238 (264)
                      ..++.+..    ++.+...   ....................++++|++..+.. ....+.   .....+.......++.
T Consensus        90 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ds~~~~~~-~~~~~~---~~~~~~~~~~~~~~~~  165 (251)
T d1szpa2          90 QRFGLDPDDALNNVAYARAYNADHQLRLLDAAAQMMSESRFSLIVVDSVMALYR-TDFSGR---GELSARQMHLAKFMRA  165 (251)
T ss_dssp             HHTCCCHHHHGGGEEEEECCSTTTHHHHHHHTHHHHHHSCEEEEEEETGGGGGS-CC--------CTHHHHHHHHHHHHH
T ss_pred             HhcCCchhhhhcceEEEeccchhHHHHHHHHHHHHhhccccceeeehhhhhhhh-hhhccc---cchhhHHHHHHHHHHH
Confidence            45666644    3333333   33445555555566667899999999988873 222211   1223455556677777


Q ss_pred             HHHHHhccCcEEEEEcccchHhh
Q 024705          239 IHYSLCQSHTLIIFLNQVKVLLL  261 (264)
Q Consensus       239 l~~~l~~~g~tVi~i~h~~~~~~  261 (264)
                      +.+.+...++++++++|.+....
T Consensus       166 l~~~~~~~~~~~~~~~~~~~~~~  188 (251)
T d1szpa2         166 LQRLADQFGVAVVVTNQVVAQVD  188 (251)
T ss_dssp             HHHHHHHHCCCEEEEEECC----
T ss_pred             HHhhhhhcceEEEEEEEEEeccC
Confidence            77777889999999999887654

>d1v5wa_ c.37.1.11 (A:) Meiotic recombination protein DMC1/LIM15 homolog {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Meiotic recombination protein DMC1/LIM15 homolog
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.79  E-value=4.7e-19  Score=148.10  Aligned_cols=160  Identities=24%  Similarity=0.363  Sum_probs=112.9

Q ss_pred             CCCccccCcHHHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHHhhc------CCeEEEEecCCCCCHHHH----H
Q 024705           97 RGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKL------GGYCAYLDVENALDPSLA----E  166 (264)
Q Consensus        97 ~~~~i~tG~~~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~------g~~v~~~~~e~~~~~~~~----~  166 (264)
                      ...+||||++.||.+|| ||+++|++++|+|+||+|||+|+++++.++...      +..+.|++.+......+.    .
T Consensus        15 ~~~ri~TGi~~LD~~lg-GGip~G~~~~i~G~~GsGKT~lalq~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   93 (258)
T d1v5wa_          15 MVFHITTGSQEFDKLLG-GGIESMAITEAFGEFRTGKTQLSHTLCVTAQLPGAGGYPGGKIIFIDTENTFRPDRLRDIAD   93 (258)
T ss_dssp             GCCCBCCSCHHHHHHTT-SSBCSSEEEEEECCTTCTHHHHHHHHHHHTTSCBTTTBCCCEEEEEESSSCCCHHHHHHHHH
T ss_pred             CCceecCCCHHHHHhhc-CCCcCCEEEEEECCCCCCHHHHHHHHHHHHHhhhhcccccceEEEechHHHHHHHHHHHHHh
Confidence            45789999999999999 999999999999999999999999999887643      356899999988776433    3


Q ss_pred             HcCCCc----cceeEeCCCCHHHHHHHHHHH-----hhcCCccEEEEcCccccccccccCCCcCCCCcHHHHHHHHHHHH
Q 024705          167 AMGIDA----ENLLIAQPDSAENLLSVVDTL-----TKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALR  237 (264)
Q Consensus       167 ~~g~~~----~~l~~~~~~~~ee~~~~i~~~-----~~~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r~i~~~L~  237 (264)
                      ..+.+.    .++.+..+.+.++....+..+     .+...++++++|++..+.. ....+.   .........+.+.+.
T Consensus        94 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vid~~~~~~~-~~~~~~---~~~~~~~~~l~~~~~  169 (258)
T d1v5wa_          94 RFNVDHDAVLDNVLYARAYTSEHQMELLDYVAAKFHEEAGIFKLLIIDSIMALFR-VDFSGR---GELAERQQKLAQMLS  169 (258)
T ss_dssp             HTTCCHHHHHHTEEEEECCSTTHHHHHHHHHHHHHHHSCSSEEEEEEETSGGGHH-HHCCGG---GCHHHHHHHHHHHHH
T ss_pred             hhcccchhhhhcccccccCcHHHHHHHHHHHHHHhhhhccCceEEEeeehhhhhh-ccccCC---cchhHHHHHHHHHHH
Confidence            334443    355566666655444433322     1334678999999999874 222111   122344555677788


Q ss_pred             HHHHHHhccCcEEEEEcccchHhh
Q 024705          238 KIHYSLCQSHTLIIFLNQVKVLLL  261 (264)
Q Consensus       238 ~l~~~l~~~g~tVi~i~h~~~~~~  261 (264)
                      .+.+.+++.++++++++|.+.+..
T Consensus       170 ~L~~~~~~~~~~~~~~~~~~~~~~  193 (258)
T d1v5wa_         170 RLQKISEEYNVAVFVTNQMTADPG  193 (258)
T ss_dssp             HHHHHHHHHTCEEEEEECC-----
T ss_pred             HHHHHHHhcCCEEEEeeeEeeccc
Confidence            888888999999999999887654

>d2i1qa2 c.37.1.11 (A:65-322) DNA repair protein Rad51, catalytic domain {Archaeon Methanococcus voltae [TaxId: 2188]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Archaeon Methanococcus voltae [TaxId: 2188]

Probab=99.74  E-value=1.5e-17  Score=138.02  Aligned_cols=161  Identities=23%  Similarity=0.283  Sum_probs=114.2

Q ss_pred             CCCCccccCcHHHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHHhhc----------------CCeEEEEecCCC
Q 024705           96 RRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKL----------------GGYCAYLDVENA  159 (264)
Q Consensus        96 ~~~~~i~tG~~~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~----------------g~~v~~~~~e~~  159 (264)
                      ....++|||++.||.+|+ ||+++|++++|+|+||+|||+|+++++.+++..                +.+++|++.|..
T Consensus        11 ~~~~~i~TG~~~LD~ll~-GGl~~G~l~~i~G~~G~GKT~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~e~~   89 (258)
T d2i1qa2          11 STVWKLSTSSSELDSVLG-GGLESQSVTEFAGVFGSGKTQIMHQSCVNLQNPEFLFYDEEAVSKGEVAQPKAVYIDTEGT   89 (258)
T ss_dssp             TTCCEECCSCHHHHHHTT-SSEETTEEEEEEESTTSSHHHHHHHHHHHTTCGGGEECCTTTSCTTTTSSEEEEEEESSSC
T ss_pred             CCCceecCCCHHHHHhcC-CCccCCeEEEEEeCCCCCHHHHHHHHHHHHHhcCCCceEEeecccchhcCceEEEEEecCC
Confidence            456789999999999999 999999999999999999999999999988743                457889999887


Q ss_pred             CCHHH----HHHcCCCc----cceeEeCCCCHHHHHHHH----HHHhhcCCccEEEEcCccccccccccCCCcCCCCcHH
Q 024705          160 LDPSL----AEAMGIDA----ENLLIAQPDSAENLLSVV----DTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDA  227 (264)
Q Consensus       160 ~~~~~----~~~~g~~~----~~l~~~~~~~~ee~~~~i----~~~~~~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~  227 (264)
                      .....    ...++...    .++.+.......+....+    ........+..+++|++..... ......   .....
T Consensus        90 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vid~i~~~~~-~~~~~~---~~~~~  165 (258)
T d2i1qa2          90 FRPERIMQMAEHAGIDGQTVLDNTFVARAYNSDMQMLFAEKIEDLIQEGNNIKLVVIDSLTSTFR-NEYTGR---GKLAE  165 (258)
T ss_dssp             CCHHHHHHHHHHHTCCHHHHHHTEEEEECSSHHHHHHHHHTHHHHHHTTCEEEEEEEECSSHHHH-HHCCCT---TSHHH
T ss_pred             cCHHHHHHHHhhcchhhhhhhhcceeeccCchhhHHHHHHHHHHHHHHhcccceeeeeEEEEeec-hhcccc---ccchh
Confidence            77632    33344442    245555565555444333    3334456778999999988774 222221   22334


Q ss_pred             HHHHHHHHHHHHHHHHhccCcEEEEEcccchHhh
Q 024705          228 QSRIMTQALRKIHYSLCQSHTLIIFLNQVKVLLL  261 (264)
Q Consensus       228 q~r~i~~~L~~l~~~l~~~g~tVi~i~h~~~~~~  261 (264)
                      +.....+.++.+...++..++++++++|.+...+
T Consensus       166 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  199 (258)
T d2i1qa2         166 RQQKLGRHMATLNKLADLFNCVVLVTNQVSAKPD  199 (258)
T ss_dssp             HHHHHHHHHHHHHHHHHHTTCEEEEEECEECC--
T ss_pred             hHHHHHHHHHHHHHhhhhcceEEEeecceEeccc
Confidence            4455566667777777889999999999876554

>d1n0wa_ c.37.1.11 (A:) DNA repair protein Rad51, catalytic domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.69  E-value=1.1e-16  Score=129.67  Aligned_cols=158  Identities=25%  Similarity=0.303  Sum_probs=99.8

Q ss_pred             CCccccCcHHHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHHhhcC------CeEEEEecCCCCCHHHH----HH
Q 024705           98 GPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLG------GYCAYLDVENALDPSLA----EA  167 (264)
Q Consensus        98 ~~~i~tG~~~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g------~~v~~~~~e~~~~~~~~----~~  167 (264)
                      ..+||||++.||.+|+ ||+++|++++|+||||+|||+|+++++.+++..+      ....++..+........    ..
T Consensus         2 ~~ri~TG~~~LD~ll~-GGi~~G~v~~i~G~~GsGKT~l~l~la~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   80 (242)
T d1n0wa_           2 IIQITTGSKELDKLLQ-GGIETGSITEMFGEFRTGKTQICHTLAVTCQLPIDRGGGEGKAMYIDTEGTFRPERLLAVAER   80 (242)
T ss_dssp             CCEECCSCHHHHHHTT-TSEETTSEEEEECCTTSSHHHHHHHHHHHTTSCGGGTCCSSEEEEEESSSCCCHHHHHHHHHH
T ss_pred             CCEEcCCCHHHHHhhc-CCCcCCEEEEEEeCCCCCHHHHHHHHHHHHHHhhccccccceehhhhhhhhhHHHHHHHHHhh
Confidence            5789999999999999 9999999999999999999999999999887542      34566666655554222    12


Q ss_pred             cCCCcc----ceeEeCCCCHH---HHHHHHHHHhhcCCccEEEEcCccccccccccCCCcCCCCcHHHHHHHHHHHHHHH
Q 024705          168 MGIDAE----NLLIAQPDSAE---NLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIH  240 (264)
Q Consensus       168 ~g~~~~----~l~~~~~~~~e---e~~~~i~~~~~~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r~i~~~L~~l~  240 (264)
                      ......    .+.........   +...............++.+|++..+.... ...   ..............+..+.
T Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~---~~~~~~~~~~~~~~~~~l~  156 (242)
T d1n0wa_          81 YGLSGSDVLDNVAYARAFNTDHQTQLLYQASAMMVESRYALLIVDSATALYRTD-YSG---RGELSARQMHLARFLRMLL  156 (242)
T ss_dssp             TTCCHHHHHHTEEEEECCSHHHHHHHHHHHHHHHHHSCEEEEEEETSSGGGC-----------CHHHHHHHHHHHHHHHH
T ss_pred             cccchhhhhhhhhhhhhhchhhhhhhhhhhhhhhhhhhheeecccceeeeehhh-hhc---ccchhhhHHHHHHHHHHHH
Confidence            222211    22333333332   333334444455677888899888776422 111   1122344445566677777


Q ss_pred             HHHhccCcEEEEEcccchHh
Q 024705          241 YSLCQSHTLIIFLNQVKVLL  260 (264)
Q Consensus       241 ~~l~~~g~tVi~i~h~~~~~  260 (264)
                      ..++..++++++++|.+...
T Consensus       157 ~~~~~~~~~~~~~~~~~~~~  176 (242)
T d1n0wa_         157 RLADEFGVAVVITNQVVAQV  176 (242)
T ss_dssp             HHHHHHCCEEEEEC------
T ss_pred             HhhhhcceeEEEEEEEeccc
Confidence            77788999999999987654

>d1nlfa_ c.37.1.11 (A:) Hexameric replicative helicase repA {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Hexameric replicative helicase repA
species: Escherichia coli [TaxId: 562]

Probab=99.56  E-value=8.3e-15  Score=123.87  Aligned_cols=145  Identities=17%  Similarity=0.217  Sum_probs=91.7

Q ss_pred             ccccCcHHHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHHhh----------cCCeEEEEecCCCCCH--HHHHH
Q 024705          100 VISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQK----------LGGYCAYLDVENALDP--SLAEA  167 (264)
Q Consensus       100 ~i~tG~~~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~----------~g~~v~~~~~e~~~~~--~~~~~  167 (264)
                      .+..+.+.+|.+++  |+.+|++++|+|++|+|||||+++++.+++.          .+++|+|++.|+....  .+...
T Consensus        11 ~~~~~~p~~d~li~--G~~pg~~~~i~G~~G~GKS~l~l~la~~ia~g~~~~~~~~~~~~~vl~~~~E~~~~~~~~Rl~~   88 (274)
T d1nlfa_          11 AFAAAPPPLDYVLP--NMVAGTVGALVSPGGAGKSMLALQLAAQIAGGPDLLEVGELPTGPVIYLPAEDPPTAIHHRLHA   88 (274)
T ss_dssp             HHHSCCCCCCEEET--TEETTSEEEEEESTTSSHHHHHHHHHHHHHTCCCTTCCCCCCCCCEEEEESSSCHHHHHHHHHH
T ss_pred             HhcCCCCCHHHHhC--CccCCcEEEEEeCCCCCHHHHHHHHHHHHHcCCCcccccccCCCceEEEeccchHHHHHHHHHH
Confidence            34556677899987  5667999999999999999999999988763          3458999999987654  23333


Q ss_pred             cCCCcc---------ceeEeCC------CCHHHHHHHHHHHhhcCCccEEEEcCccccccccccCCCcCCCCcHHHHHHH
Q 024705          168 MGIDAE---------NLLIAQP------DSAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIM  232 (264)
Q Consensus       168 ~g~~~~---------~l~~~~~------~~~ee~~~~i~~~~~~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r~i  232 (264)
                      ++....         .+.+...      ....+....+...  ..++++||||++..+.+..        ..+..+.+.+
T Consensus        89 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~lvviD~l~~~~~~~--------~~~~~~~~~~  158 (274)
T d1nlfa_          89 LGAHLSAEERQAVADGLLIQPLIGSLPNIMAPEWFDGLKRA--AEGRRLMVLDTLRRFHIEE--------ENASGPMAQV  158 (274)
T ss_dssp             HHTTSCHHHHHHHHHHEEECCCTTSCCCTTSHHHHHHHHHH--HTTCSEEEEECGGGGCCSC--------TTCHHHHHHH
T ss_pred             HhhccChhhhhcccccceeccccCccchhHHHHHHHHHHHh--ccCccEEecCchhhhcccc--------ccchhhHHHH
Confidence            332211         1222211      1112222222222  2588999999999887421        1122444444


Q ss_pred             HHHHHHHHHHHhccCcEEEEEcccchH
Q 024705          233 TQALRKIHYSLCQSHTLIIFLNQVKVL  259 (264)
Q Consensus       233 ~~~L~~l~~~l~~~g~tVi~i~h~~~~  259 (264)
                         +..+...++++|++||+++|.++.
T Consensus       159 ---~~~l~~la~~~~~~vi~v~H~~K~  182 (274)
T d1nlfa_         159 ---IGRMEAIAADTGCSIVFLHHASKG  182 (274)
T ss_dssp             ---HHHHHHHHHHHCCEEEEEEEC---
T ss_pred             ---HHHHHHHhhcCCCceehhhhcccc
Confidence               444444458899999999998763

>d1v43a3 c.37.1.12 (A:7-245) Hypothetical protein PH0022, N-terminal domain {Pyrococcus horikoshii [TaxId: 53953]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Hypothetical protein PH0022, N-terminal domain
species: Pyrococcus horikoshii [TaxId: 53953]

Probab=99.47  E-value=4e-14  Score=117.43  Aligned_cols=133  Identities=13%  Similarity=0.127  Sum_probs=83.2

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCHHHHHHcCCCccceeEeCCCCHHHHHH-------
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLS-------  188 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~~~~~~~g~~~~~l~~~~~~~~ee~~~-------  188 (264)
                      -+++|+++.|.||||||||||+..++....+..|.+.+.+.+........+.+|+.+|+..++...++.+.+.       
T Consensus        28 ~v~~Ge~~~liGpsGaGKSTLl~~i~Gl~~p~sG~I~i~g~~i~~~~~~~r~ig~v~Q~~~l~~~ltv~enl~~~~~~~~  107 (239)
T d1v43a3          28 TIKDGEFLVLLGPSGCGKTTTLRMIAGLEEPTEGRIYFGDRDVTYLPPKDRNISMVFQSYAVWPHMTVYENIAFPLKIKK  107 (239)
T ss_dssp             EECTTCEEEEECCTTSSHHHHHHHHHTSSCCSEEEEEETTEECTTSCGGGGTEEEEEC------CCCHHHHHHTTCC--C
T ss_pred             EECCCCEEEEECCCCChHHHHHHHHHcCCCCCCCEEEEcceecccCCcccceEEEEeechhhcccchHHHHHHHHHHHcC
Confidence            3789999999999999999988887776655555554433333222233456888888766665555443331       


Q ss_pred             --------HHHHHh-----------------------------hcCCccEEEEcCccccccccccCCCcCCCCcHHHHHH
Q 024705          189 --------VVDTLT-----------------------------KSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRI  231 (264)
Q Consensus       189 --------~i~~~~-----------------------------~~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r~  231 (264)
                              .+..++                             -..+|+++++|..++-.             +....+.
T Consensus       108 ~~~~~~~~~~~~~l~~~~l~~~~~~~~~~LSGGq~QRvaiAraL~~~P~iLllDEPts~L-------------D~~~~~~  174 (239)
T d1v43a3         108 FPKDEIDKRVRWAAELLQIEELLNRYPAQLSGGQRQRVAVARAIVVEPDVLLMDEPLSNL-------------DAKLRVA  174 (239)
T ss_dssp             CCHHHHHHHHHHHHHHTTCGGGTTSCTTTCCSSCHHHHHHHHHHTTCCSEEEEESTTTTS-------------CHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHcCChhhhcCChhhCCHHHHHHHHHHhhhccCCCceeecCCcccC-------------CHHHHHH
Confidence                    111111                             11466777777665544             2244555


Q ss_pred             HHHHHHHHHHHHhccCcEEEEEcccchHhhhcC
Q 024705          232 MTQALRKIHYSLCQSHTLIIFLNQVKVLLLKHF  264 (264)
Q Consensus       232 i~~~L~~l~~~l~~~g~tVi~i~h~~~~~~~~~  264 (264)
                      +.+.++++.   ++.|+|||+++|..+.+...|
T Consensus       175 i~~ll~~l~---~~~g~tii~vTHd~~~a~~~~  204 (239)
T d1v43a3         175 MRAEIKKLQ---QKLKVTTIYVTHDQVEAMTMG  204 (239)
T ss_dssp             HHHHHHHHH---HHHTCEEEEEESCHHHHHHHC
T ss_pred             HHHHHHHHH---HhcCCeEEEEeCCHHHHHHhC
Confidence            667777776   778999999999998887654

>d2awna2 c.37.1.12 (A:4-235) Maltose transport protein MalK, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Maltose transport protein MalK, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=99.45  E-value=3.7e-14  Score=117.19  Aligned_cols=133  Identities=15%  Similarity=0.161  Sum_probs=79.3

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCHHHHHHcCCCccceeEeCCCCHHHHHH-------
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLS-------  188 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~~~~~~~g~~~~~l~~~~~~~~ee~~~-------  188 (264)
                      -+++|+++.|.||||||||||+..++....+..+.+.+.+.+........+.+|+.+|+..++...++.+.+.       
T Consensus        22 ~i~~Gei~~liGpsGsGKSTLl~~i~Gl~~p~sG~I~i~g~~i~~~~~~~r~ig~v~Q~~~l~~~~tv~eni~~~~~~~~  101 (232)
T d2awna2          22 DIHEGEFVVFVGPSGCGKSTLLRMIAGLETITSGDLFIGEKRMNDTPPAERGVGMVFQSYALYPHLSVAENMSFGLKLAG  101 (232)
T ss_dssp             EECTTCEEEEECCTTSSHHHHHHHHHTSSCCSEEEEEESSSCCTTSCGGGTCEEEECSSCCC------------------
T ss_pred             EEcCCCEEEEECCCCChHHHHHHHHhcCCCCCCCEEEECCEECCCCchhhceeeeeccccccccchhHHHHHHHHHHHcC
Confidence            3789999999999999999988877665545555554433333222233455788777654443333222111       


Q ss_pred             --------HHHHHh-----------------------------hcCCccEEEEcCccccccccccCCCcCCCCcHHHHHH
Q 024705          189 --------VVDTLT-----------------------------KSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRI  231 (264)
Q Consensus       189 --------~i~~~~-----------------------------~~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r~  231 (264)
                              .+.+++                             -..+|++++.|..++-.             +....+.
T Consensus       102 ~~~~~~~~~v~~~l~~~~l~~~~~~~~~~LSGGqkQRvaiAraL~~~P~illlDEPts~L-------------D~~~~~~  168 (232)
T d2awna2         102 AKKEVINQRVNQVAEVLQLAHLLDRKPKALSGGQRQRVAIGRTLVAEPSVFLLDEPLSNL-------------DAALRVQ  168 (232)
T ss_dssp             ---CHHHHHHHHHHHHC---------------------CHHHHHHTCCSEEEEESTTTTS-------------CHHHHHH
T ss_pred             CCHHHHHHHHHHHHHhCCChhhhhCChhhCCHHHHHHHHHHHHHhcCCCEEEEcCCCCCC-------------CHHHHHH
Confidence                    111100                             01456777777665544             2244455


Q ss_pred             HHHHHHHHHHHHhccCcEEEEEcccchHhhhcC
Q 024705          232 MTQALRKIHYSLCQSHTLIIFLNQVKVLLLKHF  264 (264)
Q Consensus       232 i~~~L~~l~~~l~~~g~tVi~i~h~~~~~~~~~  264 (264)
                      +...++++.   ++.|+|||+++|..+.+...|
T Consensus       169 i~~~l~~l~---~~~g~tii~vTHd~~~a~~~~  198 (232)
T d2awna2         169 MRIEISRLH---KRLGRTMIYVTHDQVEAMTLA  198 (232)
T ss_dssp             HHHHHHHHH---HHSCCEEEEEESCHHHHHHHC
T ss_pred             HHHHHHHHH---HhcCCEEEEEeCCHHHHHHhC
Confidence            666677766   788999999999998876644

>d3d31a2 c.37.1.12 (A:1-229) Sulfate/molybdate ABC transporter, ATP-binding protein {Methanosarcina acetivorans [TaxId: 2214]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Sulfate/molybdate ABC transporter, ATP-binding protein
species: Methanosarcina acetivorans [TaxId: 2214]

Probab=99.44  E-value=6.8e-14  Score=115.30  Aligned_cols=133  Identities=10%  Similarity=0.046  Sum_probs=85.6

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCHHHHHHcCCCccceeEeCCCCHHHHHHHHHHHhh
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTK  195 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~~~~~~~g~~~~~l~~~~~~~~ee~~~~i~~~~~  195 (264)
                      -+++|+++.|.||||||||||+..++.-..+..|.+.+...+........+.+|+.+|+..+++..++.+.+........
T Consensus        22 ~i~~Ge~~~liGpsGaGKSTll~~l~Gl~~p~sG~I~~~G~~i~~~~~~~r~ig~v~Q~~~l~~~~tV~enl~~~~~~~~  101 (229)
T d3d31a2          22 KVESGEYFVILGPTGAGKTLFLELIAGFHVPDSGRILLDGKDVTDLSPEKHDIAFVYQNYSLFPHMNVKKNLEFGMRMKK  101 (229)
T ss_dssp             EECTTCEEEEECCCTHHHHHHHHHHHTSSCCSEEEEEETTEECTTSCHHHHTCEEECTTCCCCTTSCHHHHHHHHHHHHC
T ss_pred             EECCCCEEEEECCCCCcHHHHHHHHhcCcCCCCCEEEEccEeccccchhHhcceeeccccccCccccHHHHHHHHHhhcc
Confidence            48899999999999999999888887766555555554333332223445679999988877777777665543221110


Q ss_pred             -----------------------------------------cCCccEEEEcCccccccccccCCCcCCCCcHHHHHHHHH
Q 024705          196 -----------------------------------------SGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQ  234 (264)
Q Consensus       196 -----------------------------------------~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r~i~~  234 (264)
                                                               -.+|+++++|..++-.             +......+.+
T Consensus       102 ~~~~~~~~~~l~~~~l~~~~~~~~~~LSGG~~QRvaiAraL~~~P~iLllDEPts~L-------------D~~~~~~i~~  168 (229)
T d3d31a2         102 IKDPKRVLDTARDLKIEHLLDRNPLTLSGGEQQRVALARALVTNPKILLLDEPLSAL-------------DPRTQENARE  168 (229)
T ss_dssp             CCCHHHHHHHHHHTTCTTTTTSCGGGSCHHHHHHHHHHHHTTSCCSEEEEESSSTTS-------------CHHHHHHHHH
T ss_pred             ccHHHHHHHHHHHhcchhhHhCChhhCCHHHhcchhhhhhhhccCCceeecCCCcCC-------------CHHHHHHHHH
Confidence                                                     1344555555443332             1133333445


Q ss_pred             HHHHHHHHHhccCcEEEEEcccchHhhhcC
Q 024705          235 ALRKIHYSLCQSHTLIIFLNQVKVLLLKHF  264 (264)
Q Consensus       235 ~L~~l~~~l~~~g~tVi~i~h~~~~~~~~~  264 (264)
                      .++++.   ++.|+|||+++|..+.+...|
T Consensus       169 ~l~~l~---~~~g~tii~vtHd~~~~~~~~  195 (229)
T d3d31a2         169 MLSVLH---KKNKLTVLHITHDQTEARIMA  195 (229)
T ss_dssp             HHHHHH---HHTTCEEEEEESCHHHHHHHC
T ss_pred             HHHHHH---hcCCcEEEEEcCCHHHHHHhC
Confidence            555554   778999999999998877654

>d3dhwc1 c.37.1.12 (C:1-240) Methionine import ATP-binding protein MetN {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Methionine import ATP-binding protein MetN
species: Escherichia coli [TaxId: 562]

Probab=99.41  E-value=2.5e-13  Score=112.69  Aligned_cols=132  Identities=15%  Similarity=0.227  Sum_probs=83.5

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCC--CH----HHHHHcCCCccceeEeCCCCHHHHHHH
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENAL--DP----SLAEAMGIDAENLLIAQPDSAENLLSV  189 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~--~~----~~~~~~g~~~~~l~~~~~~~~ee~~~~  189 (264)
                      -+++|+++.|.||||||||||+..++....+..|.+ +++.+...  ..    ...+.+|+.+|+...+...++.+.+..
T Consensus        27 ~i~~Ge~~~iiG~sGsGKSTLl~~i~Gl~~p~sG~I-~~~g~~i~~~~~~~~~~~rr~ig~VfQ~~~l~~~~tv~eni~~  105 (240)
T d3dhwc1          27 HVPAGQIYGVIGASGAGKSTLIRCVNLLERPTEGSV-LVDGQELTTLSESELTKARRQIGMIFQHFNLLSSRTVFGNVAL  105 (240)
T ss_dssp             EECSSCEEEEEESTTSSHHHHHHHHTTSSCCSEEEE-EETTEEECTTCHHHHHHHHHHEEECCSSCCCCTTSBHHHHHHH
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHcCCccccCCce-EEcCeEeeeCChhhhhhhhccccccccccccCCCccHHHHHHH
Confidence            478999999999999999998888776554444554 44433321  11    123569999888766665555443321


Q ss_pred             H---------------HHHh-----------------------------hcCCccEEEEcCccccccccccCCCcCCCCc
Q 024705          190 V---------------DTLT-----------------------------KSGSIDVIVVDSVAALIPKCEIGVPINGMYS  225 (264)
Q Consensus       190 i---------------~~~~-----------------------------~~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~  225 (264)
                      .               .+++                             -..+|++++.|..++-.             +
T Consensus       106 ~l~~~~~~~~~~~~~v~~~L~~vgL~~~~~~~~~~LSGG~~QRvaiAraL~~~P~lLllDEPt~~L-------------D  172 (240)
T d3dhwc1         106 PLELDNTPKDEVKRRVTELLSLVGLGDKHDSYPSNLSGGQKQRVAIARALASNPKVLLCDEATSAL-------------D  172 (240)
T ss_dssp             HHHTTTCCTTHHHHHHHHHHHHHSTTTTTSSCBSCCCHHHHHHHHHHHHHHTCCSEEEEESGGGSS-------------C
T ss_pred             HHHHcCCCHHHHHHHHHHHHHHcCCchhhhCChhhCCHHHHHHHHHhhhhccCCCeEEeccccccC-------------C
Confidence            1               1100                             01355666666555443             1


Q ss_pred             HHHHHHHHHHHHHHHHHHhccCcEEEEEcccchHhhhcC
Q 024705          226 DAQSRIMTQALRKIHYSLCQSHTLIIFLNQVKVLLLKHF  264 (264)
Q Consensus       226 ~~q~r~i~~~L~~l~~~l~~~g~tVi~i~h~~~~~~~~~  264 (264)
                      ...++.+.+.|+++.   ++.|+|||+++|..+.+...|
T Consensus       173 ~~~~~~i~~~l~~l~---~~~g~tvi~vTHdl~~~~~~~  208 (240)
T d3dhwc1         173 PATTRSILELLKDIN---RRLGLTILLITHEMDVVKRIC  208 (240)
T ss_dssp             HHHHHHHHHHHHHHH---HHHCCEEEEEBSCHHHHHHHC
T ss_pred             HHHhhHHHHHHHHHH---hccCCEEEEEcCCHHHHHHhC
Confidence            234444566666665   778999999999998876654

>d1l2ta_ c.37.1.12 (A:) MJ0796 {Archaeon Methanococcus jannaschii [TaxId: 2190]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: MJ0796
species: Archaeon Methanococcus jannaschii [TaxId: 2190]

Probab=99.39  E-value=4.4e-13  Score=110.55  Aligned_cols=128  Identities=15%  Similarity=0.174  Sum_probs=78.3

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCC-CC-CH-----HHHHHcCCCccceeEeCCCCHHHHHH
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVEN-AL-DP-----SLAEAMGIDAENLLIAQPDSAENLLS  188 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~-~~-~~-----~~~~~~g~~~~~l~~~~~~~~ee~~~  188 (264)
                      -+++|+++.|.||||||||||+..++.-..+..|. ++++... .. ..     .+.+.+|+.+|+..+.+..++.+.+.
T Consensus        27 ~i~~Ge~~~iiG~sGsGKSTLl~~i~gl~~p~sG~-I~~~g~~i~~~~~~~~~~~r~~~ig~v~Q~~~l~~~~tv~eni~  105 (230)
T d1l2ta_          27 NIKEGEFVSIMGPSGSGKSTMLNIIGCLDKPTEGE-VYIDNIKTNDLDDDELTKIRRDKIGFVFQQFNLIPLLTALENVE  105 (230)
T ss_dssp             EECTTCEEEEECSTTSSHHHHHHHHTTSSCCSEEE-EEETTEECTTCCHHHHHHHHHHHEEEECTTCCCCTTSCHHHHHH
T ss_pred             EEcCCCEEEEECCCCCCcchhhHhccCCCCCCcce-eEECCEEcCcCChhhcchhhcceEEEEecchhhCcCccHHHHHh
Confidence            47899999999999999999877665544444444 5555432 22 21     23456899888766555555544332


Q ss_pred             HHH------------------HHh------------------------------hcCCccEEEEcCccccccccccCCCc
Q 024705          189 VVD------------------TLT------------------------------KSGSIDVIVVDSVAALIPKCEIGVPI  220 (264)
Q Consensus       189 ~i~------------------~~~------------------------------~~~~~~~vvIDsl~~~~~~~~~~~~~  220 (264)
                      .-.                  .++                              -..+|++++.|..++-.         
T Consensus       106 ~~~~~~~~~~~~~~~~~~~~~~~l~~~~L~~~~~~~~p~~LSGGqkQRvaIAraL~~~P~lLllDEPTs~L---------  176 (230)
T d1l2ta_         106 LPLIFKYRGAMSGEERRKRALECLKMAELEERFANHKPNQLSGGQQQRVAIARALANNPPIILADQPTGAL---------  176 (230)
T ss_dssp             HHHHTCCSSCCCHHHHHHHHHHHHHHTTCCGGGTTCCGGGSCHHHHHHHHHHHHHTTCCSEEEEESTTTTS---------
T ss_pred             HHHHHhccCCCCHHHHHHHHHHHHHhhchhhhhhcCChhhCCHHHHHHHHHHhhhhcCCCEEEecCCcccc---------
Confidence            111                  000                              01345556665544333         


Q ss_pred             CCCCcHHHHHHHHHHHHHHHHHHhccCcEEEEEcccchHh
Q 024705          221 NGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVKVLL  260 (264)
Q Consensus       221 ~~~~~~~q~r~i~~~L~~l~~~l~~~g~tVi~i~h~~~~~  260 (264)
                          +...++.+.+.|+++.   ++.|+|||+++|..+..
T Consensus       177 ----D~~~~~~i~~~l~~l~---~~~g~tii~vTHd~~~a  209 (230)
T d1l2ta_         177 ----DSKTGEKIMQLLKKLN---EEDGKTVVVVTHDINVA  209 (230)
T ss_dssp             ----CHHHHHHHHHHHHHHH---HTTCCEEEEECSCHHHH
T ss_pred             ----CHHHHHHHHHHHHHHH---HhhCCEEEEECCCHHHH
Confidence                2244444566666665   78899999999998754

>d1g2912 c.37.1.12 (1:1-240) Maltose transport protein MalK, N-terminal domain {Archaeon Thermococcus litoralis [TaxId: 2265]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Maltose transport protein MalK, N-terminal domain
species: Archaeon Thermococcus litoralis [TaxId: 2265]

Probab=99.38  E-value=1.8e-13  Score=113.58  Aligned_cols=131  Identities=13%  Similarity=0.138  Sum_probs=82.5

Q ss_pred             CCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCC-------CHHHHHHcCCCccceeEeCCCCHHHHHHH
Q 024705          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENAL-------DPSLAEAMGIDAENLLIAQPDSAENLLSV  189 (264)
Q Consensus       117 l~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~-------~~~~~~~~g~~~~~l~~~~~~~~ee~~~~  189 (264)
                      +++|+++.|.||||||||||+..++....+..|.+ +++.....       ...+.+.+|+.+|+..+++..++.+.+..
T Consensus        26 i~~Ge~~~liG~sGaGKSTll~~i~gl~~p~sG~I-~~~g~~i~~~~~~~~~~~~~r~ig~v~Q~~~L~~~ltV~eni~~  104 (240)
T d1g2912          26 VKDGEFMILLGPSGCGKTTTLRMIAGLEEPSRGQI-YIGDKLVADPEKGIFVPPKDRDIAMVFQSYALYPHMTVYDNIAF  104 (240)
T ss_dssp             EETTCEEEEECSTTSSHHHHHHHHHTSSCCSEEEE-EETTEEEEEGGGTEECCGGGSSEEEECSCCCCCTTSCHHHHHHH
T ss_pred             EcCCCEEEEECCCCChHHHHHHHHhcCCCCCCCEE-EECCEEecccchhhhcccccccceecccchhhcchhhhhHhhhh
Confidence            78999999999999999999888877655555555 44332211       11234557887777666655555443322


Q ss_pred             H---------------HHHh-----------------------------hcCCccEEEEcCccccccccccCCCcCCCCc
Q 024705          190 V---------------DTLT-----------------------------KSGSIDVIVVDSVAALIPKCEIGVPINGMYS  225 (264)
Q Consensus       190 i---------------~~~~-----------------------------~~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~  225 (264)
                      .               .+++                             -..+|++++.|..++-.             +
T Consensus       105 ~~~~~~~~~~e~~~~v~~~l~~~~l~~~~~~~p~~LSGGqkQRv~IAraL~~~P~iLllDEPt~~L-------------D  171 (240)
T d1g2912         105 PLKLRKVPRQEIDQRVREVAELLGLTELLNRKPRELSGGQRQRVALGRAIVRKPQVFLMDEPLSNL-------------D  171 (240)
T ss_dssp             HHHHTTCCHHHHHHHHHHHHHHHTCGGGTTCCGGGSCHHHHHHHHHHHHHHTCCSEEEEECTTTTS-------------C
T ss_pred             hHHHcCCCHHHHHHHHHHHHHHcCChhHhcCChhhCCHHHHHHHHHHHHHhcCCCEEEecCCCccc-------------C
Confidence            1               1110                             01456677777655443             1


Q ss_pred             HHHHHHHHHHHHHHHHHHhccCcEEEEEcccchHhhhcC
Q 024705          226 DAQSRIMTQALRKIHYSLCQSHTLIIFLNQVKVLLLKHF  264 (264)
Q Consensus       226 ~~q~r~i~~~L~~l~~~l~~~g~tVi~i~h~~~~~~~~~  264 (264)
                      ......+.+.++++.   ++.|+|||+++|..+.+...|
T Consensus       172 ~~~~~~i~~~l~~l~---~~~g~tvi~vTHd~~~~~~~~  207 (240)
T d1g2912         172 AKLRVRMRAELKKLQ---RQLGVTTIYVTHDQVEAMTMG  207 (240)
T ss_dssp             HHHHHHHHHHHHHHH---HHHTCEEEEEESCHHHHHHHC
T ss_pred             HHHHHHHHHHHHHHH---hccCCEEEEEcCCHHHHHHhC
Confidence            233444556666665   778999999999998876654

>d1oxxk2 c.37.1.12 (K:1-242) Glucose transport protein GlcV, N-terminal domain {Archaeon Sulfolobus solfataricus [TaxId: 2287]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Glucose transport protein GlcV, N-terminal domain
species: Archaeon Sulfolobus solfataricus [TaxId: 2287]

Probab=99.35  E-value=1.4e-13  Score=114.23  Aligned_cols=133  Identities=11%  Similarity=0.104  Sum_probs=82.2

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCC-----CHHHHHHcCCCccceeEeCCCCHHHHHH--
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENAL-----DPSLAEAMGIDAENLLIAQPDSAENLLS--  188 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~-----~~~~~~~~g~~~~~l~~~~~~~~ee~~~--  188 (264)
                      -+++|+++.|.||||||||||+..++.-..+..|.+.|.+.+...     ...+.+.+|+.+|+..+++..++.+.+.  
T Consensus        27 ~i~~Ge~~~iiG~sGsGKSTll~~i~gl~~p~~G~I~~~g~~i~~~~~~~~~~~rr~ig~vfQ~~~L~p~ltv~eni~~~  106 (242)
T d1oxxk2          27 NIENGERFGILGPSGAGKTTFMRIIAGLDVPSTGELYFDDRLVASNGKLIVPPEDRKIGMVFQTWALYPNLTAFENIAFP  106 (242)
T ss_dssp             EECTTCEEEEECSCHHHHHHHHHHHHTSSCCSEEEEEETTEEEEETTEESSCGGGSCEEEEETTSCCCTTSCHHHHHHGG
T ss_pred             EECCCCEEEEECCCCCcHHHHHHHHHcCcCCCCceEEECCEEeecCchhhcchhhccceEEeccccccccccHHHHhhhh
Confidence            488999999999999999998888877655555555443222111     1123445788777765555444443331  


Q ss_pred             -------------HHHHHh-----------------------------hcCCccEEEEcCccccccccccCCCcCCCCcH
Q 024705          189 -------------VVDTLT-----------------------------KSGSIDVIVVDSVAALIPKCEIGVPINGMYSD  226 (264)
Q Consensus       189 -------------~i~~~~-----------------------------~~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~  226 (264)
                                   .+.+++                             -..+|++++.|..++-...             
T Consensus       107 l~~~~~~~~~~~~~v~~~l~~~gL~~~~~~~p~~LSGGqkQRvaiARaL~~~P~llllDEPt~~LD~-------------  173 (242)
T d1oxxk2         107 LTNMKMSKEEIRKRVEEVAKILDIHHVLNHFPRELSGAQQQRVALARALVKDPSLLLLDEPFSNLDA-------------  173 (242)
T ss_dssp             GTTSSCCHHHHHHHHHHHHHHTTCGGGTTSCGGGSCHHHHHHHHHHHHHTTCCSEEEEESTTTTSCG-------------
T ss_pred             hHhhcCCHHHHHHHHHHHHhhcChHhhhhCChhhCCHHHHhHHHHHhHHhhcccceeecCCccCCCH-------------
Confidence                         111110                             0146677777766654421             


Q ss_pred             HHHHHHHHHHHHHHHHHhccCcEEEEEcccchHhhhcC
Q 024705          227 AQSRIMTQALRKIHYSLCQSHTLIIFLNQVKVLLLKHF  264 (264)
Q Consensus       227 ~q~r~i~~~L~~l~~~l~~~g~tVi~i~h~~~~~~~~~  264 (264)
                      .....+.+.++++.   ++.|+|||+++|..+.+...|
T Consensus       174 ~~~~~i~~~i~~l~---~~~g~tvi~vTHd~~~~~~~~  208 (242)
T d1oxxk2         174 RMRDSARALVKEVQ---SRLGVTLLVVSHDPADIFAIA  208 (242)
T ss_dssp             GGHHHHHHHHHHHH---HHHCCEEEEEESCHHHHHHHC
T ss_pred             HHHHHHHHHHHHHH---hccCCEEEEEECCHHHHHHhC
Confidence            22233555666665   778999999999988776544

>d2onka1 c.37.1.12 (A:1-240) Molybdate/tungstate import ATP-binding protein WtpC (ModC) {Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Molybdate/tungstate import ATP-binding protein WtpC (ModC)
species: Archaeoglobus fulgidus [TaxId: 2234]

Probab=99.34  E-value=5.5e-13  Score=110.37  Aligned_cols=129  Identities=9%  Similarity=0.077  Sum_probs=79.6

Q ss_pred             CcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCHHHHHHcCCCccceeEeCCCCHHHHHH-----------
Q 024705          120 GRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLS-----------  188 (264)
Q Consensus       120 G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~~~~~~~g~~~~~l~~~~~~~~ee~~~-----------  188 (264)
                      ++++.|.||||||||||+..++....+..|.+.|...+........+.+|+.+|+..+++..++.|.+.           
T Consensus        24 ~e~~~liGpnGaGKSTll~~i~Gl~~p~~G~I~~~G~~i~~~~~~~r~ig~v~Q~~~l~~~ltV~enl~~~l~~~~~~~~  103 (240)
T d2onka1          24 RDYCVLLGPTGAGKSVFLELIAGIVKPDRGEVRLNGADITPLPPERRGIGFVPQDYALFPHLSVYRNIAYGLRNVERVER  103 (240)
T ss_dssp             SSEEEEECCTTSSHHHHHHHHHTSSCCSEEEEEETTEECTTSCTTTSCCBCCCSSCCCCTTSCHHHHHHTTCTTSCHHHH
T ss_pred             CEEEEEECCCCChHHHHHHHHHcCCCCCceEEEECCEECCcCCHHHcCceeeccchhhcccchhhHhhhhhhcccCHHHH
Confidence            468899999999999988888876655555554433333222223456899888876666556554432           


Q ss_pred             --HHHHHhh-----------------------------cCCccEEEEcCccccccccccCCCcCCCCcHHHHHHHHHHHH
Q 024705          189 --VVDTLTK-----------------------------SGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALR  237 (264)
Q Consensus       189 --~i~~~~~-----------------------------~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r~i~~~L~  237 (264)
                        .+..+++                             ..+|+++++|..++-.             +...+..+...++
T Consensus       104 ~~~v~~~l~~~gl~~~~~~~~~~LSGG~kQRvaiAral~~~P~illlDEPts~L-------------D~~~~~~i~~~i~  170 (240)
T d2onka1         104 DRRVREMAEKLGIAHLLDRKPARLSGGERQRVALARALVIQPRLLLLDEPLSAV-------------DLKTKGVLMEELR  170 (240)
T ss_dssp             HHHHHHHHHTTTCTTTTTCCGGGSCHHHHHHHHHHHHHTTCCSSBEEESTTSSC-------------CHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCcHhhhhCChhhCCHHHHHHHHHHHHHhccCCceEecCccccC-------------CHHHHHHHHHHHH
Confidence              1211111                             1244455555433322             2244444555666


Q ss_pred             HHHHHHhccCcEEEEEcccchHhhhcC
Q 024705          238 KIHYSLCQSHTLIIFLNQVKVLLLKHF  264 (264)
Q Consensus       238 ~l~~~l~~~g~tVi~i~h~~~~~~~~~  264 (264)
                      ++.   ++.|+|||+++|..+.+...|
T Consensus       171 ~l~---~~~g~tvi~vtHd~~~~~~~a  194 (240)
T d2onka1         171 FVQ---REFDVPILHVTHDLIEAAMLA  194 (240)
T ss_dssp             HHH---HHHTCCEEEEESCHHHHHHHC
T ss_pred             HHH---HhcCCeEEEEeCCHHHHHHhC
Confidence            665   778999999999998876654

>d1vpla_ c.37.1.12 (A:) Putative ABC transporter TM0544 {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Putative ABC transporter TM0544
species: Thermotoga maritima [TaxId: 2336]

Probab=99.33  E-value=1.3e-12  Score=108.47  Aligned_cols=132  Identities=13%  Similarity=0.119  Sum_probs=85.0

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCH-HHHHHcCCCccceeEeCCCCHHHHHHH-----
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP-SLAEAMGIDAENLLIAQPDSAENLLSV-----  189 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~-~~~~~~g~~~~~l~~~~~~~~ee~~~~-----  189 (264)
                      .+++|+++.|.||||||||||+..++....+..+.+.+...+..... ...+.+|+.++...++...++.+.+..     
T Consensus        24 ~v~~Gei~glvG~nGaGKSTLl~~l~G~~~p~~G~i~i~G~~i~~~~~~~~~~i~~vpq~~~~~~~ltv~e~l~~~~~~~  103 (238)
T d1vpla_          24 EIEEGEIFGLIGPNGAGKTTTLRIISTLIKPSSGIVTVFGKNVVEEPHEVRKLISYLPEEAGAYRNMQGIEYLRFVAGFY  103 (238)
T ss_dssp             EECTTCEEEEECCTTSSHHHHHHHHTTSSCCSEEEEEETTEETTTCHHHHHTTEEEECTTCCCCTTSBHHHHHHHHHHHH
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhcCCCCCCCEEEECcEecccChHHHHhhEeEeeeccccCCCccHHHHHHHHHHhc
Confidence            37899999999999999999988888776666666655444433333 445567877776555544443332211     


Q ss_pred             ----------HHHH-----------------------------hhcCCccEEEEcCccccccccccCCCcCCCCcHHHHH
Q 024705          190 ----------VDTL-----------------------------TKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSR  230 (264)
Q Consensus       190 ----------i~~~-----------------------------~~~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r  230 (264)
                                ++.+                             .-..+|+++++|..++-.             +...++
T Consensus       104 ~~~~~~~~~~~~~~l~~~~l~~~~~~~~~~lSgG~~qrv~iA~al~~~p~illLDEPt~gL-------------D~~~~~  170 (238)
T d1vpla_         104 ASSSSEIEEMVERATEIAGLGEKIKDRVSTYSKGMVRKLLIARALMVNPRLAILDEPTSGL-------------DVLNAR  170 (238)
T ss_dssp             CCCHHHHHHHHHHHHHHHCCGGGGGSBGGGCCHHHHHHHHHHHHHTTCCSEEEEESTTTTC-------------CHHHHH
T ss_pred             CCCHHHHHHHHHHHHHhCCCHHHHhhhhhhCCHHHHHHHHHHHHHhcCCCEEEecCCCCCC-------------CHHHHH
Confidence                      1110                             011466777777655443             223444


Q ss_pred             HHHHHHHHHHHHHhccCcEEEEEcccchHhhhcC
Q 024705          231 IMTQALRKIHYSLCQSHTLIIFLNQVKVLLLKHF  264 (264)
Q Consensus       231 ~i~~~L~~l~~~l~~~g~tVi~i~h~~~~~~~~~  264 (264)
                      .+.+.++++    ++.|.|||+++|..+.+...|
T Consensus       171 ~i~~~i~~~----~~~g~tii~~tH~l~~~~~~~  200 (238)
T d1vpla_         171 EVRKILKQA----SQEGLTILVSSHNMLEVEFLC  200 (238)
T ss_dssp             HHHHHHHHH----HHTTCEEEEEECCHHHHTTTC
T ss_pred             HHHHHHHHH----HhcCCEEEEEeCCHHHHHHhC
Confidence            455556555    456999999999999988765

>d1ji0a_ c.37.1.12 (A:) Branched chain aminoacid ABC transporter {Thermotoga maritima, TM1139 [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Branched chain aminoacid ABC transporter
species: Thermotoga maritima, TM1139 [TaxId: 2336]

Probab=99.30  E-value=1.6e-12  Score=108.17  Aligned_cols=130  Identities=19%  Similarity=0.212  Sum_probs=80.0

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCH-HHHHHc--CCCccceeEeCCCCHHHHHH----
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP-SLAEAM--GIDAENLLIAQPDSAENLLS----  188 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~-~~~~~~--g~~~~~l~~~~~~~~ee~~~----  188 (264)
                      -+++|+++.|.||||||||||+..++....+..+.+.+...+..... ....+.  ++.+++..+++..++.+.+.    
T Consensus        28 ~i~~Gei~~liGpnGaGKSTl~~~i~Gl~~p~~G~I~~~G~~i~~~~~~~~~r~gi~~~~q~~~l~~~ltv~en~~~~~~  107 (240)
T d1ji0a_          28 KVPRGQIVTLIGANGAGKTTTLSAIAGLVRAQKGKIIFNGQDITNKPAHVINRMGIALVPEGRRIFPELTVYENLMMGAY  107 (240)
T ss_dssp             EEETTCEEEEECSTTSSHHHHHHHHTTSSCCSEEEEEETTEECTTCCHHHHHHTTEEEECSSCCCCTTSBHHHHHHGGGT
T ss_pred             EECCCCEEEEECCCCCcHHHHHHHHhCCCCCCccEEEecccccccccHHHHHHhcccccCcccccCCcccHHHHHHHHHH
Confidence            37899999999999999999888888766555566555444333222 233333  45555544444444332221    


Q ss_pred             ------------------------------------------HHHHHhhcCCccEEEEcCccccccccccCCCcCCCCcH
Q 024705          189 ------------------------------------------VVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSD  226 (264)
Q Consensus       189 ------------------------------------------~i~~~~~~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~  226 (264)
                                                                +.+.+  ..+|+++++|..++-..             .
T Consensus       108 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~LSGG~~Qrv~iAraL--~~~P~lLllDEPt~gLD-------------~  172 (240)
T d1ji0a_         108 NRKDKEGIKRDLEWIFSLFPRLKERLKQLGGTLSGGEQQMLAIGRAL--MSRPKLLMMDEPSLGLA-------------P  172 (240)
T ss_dssp             TCCCSSHHHHHHHHHHHHCHHHHTTTTSBSSSSCHHHHHHHHHHHHH--TTCCSEEEEECTTTTCC-------------H
T ss_pred             hcCCHHHHHHHHHHHHHHhhChHHHHhCchhhCCHHHHHHHHHHHHH--HhCCCEeeecCCCcCCC-------------H
Confidence                                                      01111  24677777776655442             2


Q ss_pred             HHHHHHHHHHHHHHHHHhccCcEEEEEcccchHhhhcC
Q 024705          227 AQSRIMTQALRKIHYSLCQSHTLIIFLNQVKVLLLKHF  264 (264)
Q Consensus       227 ~q~r~i~~~L~~l~~~l~~~g~tVi~i~h~~~~~~~~~  264 (264)
                      ...+.+.+.++++    ++.|+|||+++|..+.+...|
T Consensus       173 ~~~~~i~~~i~~l----~~~g~til~~tH~l~~~~~~~  206 (240)
T d1ji0a_         173 ILVSEVFEVIQKI----NQEGTTILLVEQNALGALKVA  206 (240)
T ss_dssp             HHHHHHHHHHHHH----HHTTCCEEEEESCHHHHHHHC
T ss_pred             HHHHHHHHHHHHH----HhCCCEEEEEeCCHHHHHHhC
Confidence            4444555666666    445999999999998877654

>d1g6ha_ c.37.1.12 (A:) MJ1267 {Archaeon Methanococcus jannaschii [TaxId: 2190]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: MJ1267
species: Archaeon Methanococcus jannaschii [TaxId: 2190]

Probab=99.25  E-value=4.5e-12  Score=106.22  Aligned_cols=130  Identities=15%  Similarity=0.121  Sum_probs=79.0

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCC-H-HHH-HHcCCCccceeEeCCCCHHHHH-----
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALD-P-SLA-EAMGIDAENLLIAQPDSAENLL-----  187 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~-~-~~~-~~~g~~~~~l~~~~~~~~ee~~-----  187 (264)
                      -+++|+++.|.||||||||||+..++....+..+.+.|...+.... + .++ ..+++.+|+..++...++.+.+     
T Consensus        26 ~v~~Gei~~liG~nGaGKSTLl~~i~Gl~~p~~G~I~~~g~~i~~~~~~~~~~~gi~~v~Q~~~~~~~ltv~enl~~~~~  105 (254)
T d1g6ha_          26 SVNKGDVTLIIGPNGSGKSTLINVITGFLKADEGRVYFENKDITNKEPAELYHYGIVRTFQTPQPLKEMTVLENLLIGEI  105 (254)
T ss_dssp             EEETTCEEEEECSTTSSHHHHHHHHTTSSCCSEEEEEETTEECTTCCHHHHHHHTEEECCCCCGGGGGSBHHHHHHGGGT
T ss_pred             EECCCCEEEEECCCCCcHHHHHHHHHCCCcCCCcEEEECCEeccchhHHHHHHhcCCccCCccccCCCCeeeeeeeehhh
Confidence            4789999999999999999988888876655555555544333222 2 222 2356556544333222222211     


Q ss_pred             ------------------------------------------------------HHHHHHhhcCCccEEEEcCccccccc
Q 024705          188 ------------------------------------------------------SVVDTLTKSGSIDVIVVDSVAALIPK  213 (264)
Q Consensus       188 ------------------------------------------------------~~i~~~~~~~~~~~vvIDsl~~~~~~  213 (264)
                                                                            .+.+.+  ..+|+++++|..++-.. 
T Consensus       106 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~l~~~~~~~~~~LSgG~~Qrv~iAraL--~~~P~llilDEPt~gLD-  182 (254)
T d1g6ha_         106 CPGESPLNSLFYKKWIPKEEEMVEKAFKILEFLKLSHLYDRKAGELSGGQMKLVEIGRAL--MTNPKMIVMDEPIAGVA-  182 (254)
T ss_dssp             STTSCHHHHHHHCSSCCCCHHHHHHHHHHHHHTTCGGGTTSBGGGSCHHHHHHHHHHHHH--HTCCSEEEEESTTTTCC-
T ss_pred             hccccchhhhhhhcccccHHHHHHHHHHHHHhcCcchhccCchhhCCcHHHHHHHHHHHH--HhCcCchhhcCCcccCC-
Confidence                                                                  111111  14677888886665442 


Q ss_pred             cccCCCcCCCCcHHHHHHHHHHHHHHHHHHhccCcEEEEEcccchHhhhcC
Q 024705          214 CEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVKVLLLKHF  264 (264)
Q Consensus       214 ~~~~~~~~~~~~~~q~r~i~~~L~~l~~~l~~~g~tVi~i~h~~~~~~~~~  264 (264)
                                  ....+.+.+.++++    ++.|+|||+++|..+.+...|
T Consensus       183 ------------~~~~~~i~~~i~~l----~~~g~til~vsHdl~~~~~~~  217 (254)
T d1g6ha_         183 ------------PGLAHDIFNHVLEL----KAKGITFLIIEHRLDIVLNYI  217 (254)
T ss_dssp             ------------HHHHHHHHHHHHHH----HHTTCEEEEECSCCSTTGGGC
T ss_pred             ------------HHHHHHHHHHHHHH----HHCCCEEEEEeCcHHHHHHhC
Confidence                        13344455566655    566999999999998887655

>d1b0ua_ c.37.1.12 (A:) ATP-binding subunit of the histidine permease {Salmonella typhimurium [TaxId: 90371]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: ATP-binding subunit of the histidine permease
species: Salmonella typhimurium [TaxId: 90371]

Probab=99.24  E-value=5.1e-12  Score=105.99  Aligned_cols=131  Identities=11%  Similarity=0.087  Sum_probs=79.1

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCC------------C----HHHHHHcCCCccceeEeC
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENAL------------D----PSLAEAMGIDAENLLIAQ  179 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~------------~----~~~~~~~g~~~~~l~~~~  179 (264)
                      -+++|+++.|+||||||||||+..++.-..+..|. ++++.+...            .    ..+.+.+|+.+|+..++.
T Consensus        24 ~i~~GEi~~iiG~sGsGKSTLl~~i~Gl~~p~~G~-I~~~G~~i~~~~~~~~~~~~~~~~~~~~~r~~ig~vfQ~~~l~~  102 (258)
T d1b0ua_          24 QARAGDVISIIGSSGSGKSTFLRCINFLEKPSEGA-IIVNGQNINLVRDKDGQLKVADKNQLRLLRTRLTMVFQHFNLWS  102 (258)
T ss_dssp             EECTTCEEEEECCTTSSHHHHHHHHTTSSCCSEEE-EEETTEECCEEECTTSSEEESCHHHHHHHHHHEEEECSSCCCCT
T ss_pred             EEcCCCEEEEECCCCCcHHHHHHHHHcCccCCCCC-EEECCEEeccCCccchhcccccHhHHHHHhcceEEEEechhhcc
Confidence            37899999999999999999888887644343444 455443321            1    134566888877766555


Q ss_pred             CCCHHHHHHH----------------HHHHh------------------------------hcCCccEEEEcCccccccc
Q 024705          180 PDSAENLLSV----------------VDTLT------------------------------KSGSIDVIVVDSVAALIPK  213 (264)
Q Consensus       180 ~~~~ee~~~~----------------i~~~~------------------------------~~~~~~~vvIDsl~~~~~~  213 (264)
                      ..++.+.+..                +.+.+                              -..+|++++.|..++-.  
T Consensus       103 ~~tv~env~~~~~~~~~~~~~~~~~~~~~~l~~~~l~~~~~~~~p~~LSGG~~QRv~iAraL~~~P~llilDEPT~gL--  180 (258)
T d1b0ua_         103 HMTVLENVMEAPIQVLGLSKHDARERALKYLAKVGIDERAQGKYPVHLSGGQQQRVSIARALAMEPDVLLFDEPTSAL--  180 (258)
T ss_dssp             TSCHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHTTCCHHHHTSCGGGSCHHHHHHHHHHHHHHTCCSEEEEESTTTTS--
T ss_pred             chhcchhhhhhHHHhcCCCHHHHHHHHHHHHHHcCCchhhhccCcccccHHHHHHHHHHHHHhcCCCEEEeccccccC--
Confidence            5554433211                00000                              01355666666555433  


Q ss_pred             cccCCCcCCCCcHHHHHHHHHHHHHHHHHHhccCcEEEEEcccchHhhhcC
Q 024705          214 CEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVKVLLLKHF  264 (264)
Q Consensus       214 ~~~~~~~~~~~~~~q~r~i~~~L~~l~~~l~~~g~tVi~i~h~~~~~~~~~  264 (264)
                                 +...++.+.+.++++    ++.|+|||+++|....+...|
T Consensus       181 -----------D~~~~~~i~~ll~~l----~~~g~til~vtHdl~~~~~~a  216 (258)
T d1b0ua_         181 -----------DPELVGEVLRIMQQL----AEEGKTMVVVTHEMGFARHVS  216 (258)
T ss_dssp             -----------CHHHHHHHHHHHHHH----HHTTCCEEEECSCHHHHHHHC
T ss_pred             -----------CHHHHHHHHHhhhhh----cccCCceEEEeCCHHHHHHhC
Confidence                       123334455556655    445999999999998876544

>d1jj7a_ c.37.1.12 (A:) Peptide transporter Tap1, C-terminal ABC domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Peptide transporter Tap1, C-terminal ABC domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.15  E-value=1.4e-11  Score=102.95  Aligned_cols=62  Identities=23%  Similarity=0.271  Sum_probs=42.2

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCC--CC-HHHHHHcCCCccceeEe
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENA--LD-PSLAEAMGIDAENLLIA  178 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~--~~-~~~~~~~g~~~~~l~~~  178 (264)
                      -+++|+++.|+||||||||||+..+.....+..|.+ +++....  .. ..+.+.+++.+|+..++
T Consensus        36 ~i~~Ge~vaivG~sGsGKSTLl~li~gl~~p~~G~I-~i~g~~i~~~~~~~~r~~i~~v~Q~~~lf  100 (251)
T d1jj7a_          36 TLRPGEVTALVGPNGSGKSTVAALLQNLYQPTGGQL-LLDGKPLPQYEHRYLHRQVAAVGQEPQVF  100 (251)
T ss_dssp             EECTTCEEEEECSTTSSHHHHHHHHTTSSCCSEEEE-EETTEEGGGBCHHHHHHHEEEECSSCCCC
T ss_pred             EEcCCCEEEEECCCCCcHHHHHHHHhcccCCCcCEE-EECCEecchhhhHHHHHHhhhcccccccc
Confidence            478999999999999999998888777665555554 4443321  11 24556677776655443

>d1l7vc_ c.37.1.12 (C:) ABC transporter involved in vitamin B12 uptake, BtuD {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: ABC transporter involved in vitamin B12 uptake, BtuD
species: Escherichia coli [TaxId: 562]

Probab=99.10  E-value=1.2e-10  Score=96.09  Aligned_cols=130  Identities=15%  Similarity=0.174  Sum_probs=74.1

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCC-C-CH-HHHHHcCCCccceeEe--------------
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENA-L-DP-SLAEAMGIDAENLLIA--------------  178 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~-~-~~-~~~~~~g~~~~~l~~~--------------  178 (264)
                      -+++|+++.|.||||||||||+..++. +.+..+. +++..+.- . .. .++...++..++....              
T Consensus        21 ~I~~Gei~~iiG~nGaGKSTLl~~l~G-l~~~~G~-I~~~g~~i~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~~~~~   98 (231)
T d1l7vc_          21 EVRAGEILHLVGPNGAGKSTLLARMAG-MTSGKGS-IQFAGQPLEAWSATKLALHRAYLSQQQTPPFATPVWHYLTLHQH   98 (231)
T ss_dssp             EEETTCEEECBCCTTSSHHHHHHHHHT-SCCCSSE-EEESSSBGGGSCHHHHHHHEEEECSCCCCCSSCBHHHHHHHHCS
T ss_pred             EEcCCCEEEEECCCCCcHHHHHHHHhC-CCCCceE-EEECCEECCcCCHHHHHhhceeeeccccCCccccHHHHhhhccc
Confidence            578999999999999999999888776 4443444 44443321 1 11 2222222221110000              


Q ss_pred             -------------------------CCCCHH--HHHHHHHHHhh-----cCCccEEEEcCccccccccccCCCcCCCCcH
Q 024705          179 -------------------------QPDSAE--NLLSVVDTLTK-----SGSIDVIVVDSVAALIPKCEIGVPINGMYSD  226 (264)
Q Consensus       179 -------------------------~~~~~e--e~~~~i~~~~~-----~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~  226 (264)
                                               ...+.-  +-+...+.++.     ..+|+++++|..++-..             .
T Consensus        99 ~~~~~~~~~~~~~~~~l~~~~~~~~~~LSgG~~Qrv~iA~al~~~~p~~~p~p~llllDEPt~gLD-------------~  165 (231)
T d1l7vc_          99 DKTRTELLNDVAGALALDDKLGRSTNQLSGGEWQRVRLAAVVLQITPQANPAGQLLLLDEPMNSLD-------------V  165 (231)
T ss_dssp             CTTCHHHHHHHHHHTTCTTTTTSBGGGCCHHHHHHHHHHHHHHHHCTTTCTTCCEEEESSCSTTCC-------------H
T ss_pred             hhhHHHHHHHHHHhcCCHhHhCcChhhcCHHHHHHHHHHHHHHhhCcccCCCCCEEEEcCCCCCCC-------------H
Confidence                                     001111  12222333332     12568999997776552             2


Q ss_pred             HHHHHHHHHHHHHHHHHhccCcEEEEEcccchHhhhcC
Q 024705          227 AQSRIMTQALRKIHYSLCQSHTLIIFLNQVKVLLLKHF  264 (264)
Q Consensus       227 ~q~r~i~~~L~~l~~~l~~~g~tVi~i~h~~~~~~~~~  264 (264)
                      ..+..+.+.++++    ++.|+|||+++|..+.+...|
T Consensus       166 ~~~~~i~~~i~~l----~~~g~tii~vtHdl~~~~~~~  199 (231)
T d1l7vc_         166 AQQSALDKILSAL----CQQGLAIVMSSHDLNHTLRHA  199 (231)
T ss_dssp             HHHHHHHHHHHHH----HHTTCEEEECCCCHHHHHHHC
T ss_pred             HHHHHHHHHHHHH----HhCCCEEEEEeCCHHHHHHHC
Confidence            4445455666666    456999999999998876654

>d2pmka1 c.37.1.12 (A:467-707) Haemolysin B ATP-binding protein {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Haemolysin B ATP-binding protein
species: Escherichia coli [TaxId: 562]

Probab=99.10  E-value=6e-11  Score=98.37  Aligned_cols=61  Identities=23%  Similarity=0.367  Sum_probs=42.5

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCC--C-HHHHHHcCCCccceeE
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENAL--D-PSLAEAMGIDAENLLI  177 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~--~-~~~~~~~g~~~~~l~~  177 (264)
                      -+++|+.+.|+||+|||||||+..++....+..|.+ +++.....  . ..+.+.+++.+|+..+
T Consensus        25 ~i~~Ge~vaIvG~sGsGKSTLl~ll~gl~~p~~G~I-~i~g~~i~~~~~~~lr~~i~~v~Q~~~l   88 (241)
T d2pmka1          25 SIKQGEVIGIVGRSGSGKSTLTKLIQRFYIPENGQV-LIDGHDLALADPNWLRRQVGVVLQDNVL   88 (241)
T ss_dssp             EEETTCEEEEECSTTSSHHHHHHHHTTSSCCSEEEE-EETTEETTTSCHHHHHHHEEEECSSCCC
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHHhcCCCCCCEE-EECCEEecccchhhhhceEEEEeccccc
Confidence            378999999999999999998888877665555554 44432221  1 2456678887775543

>d3b60a1 c.37.1.12 (A:329-581) Multidrug resistance ABC transporter MsbA, C-terminal domain {Salmonella typhimurium [TaxId: 90371]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Multidrug resistance ABC transporter MsbA, C-terminal domain
species: Salmonella typhimurium [TaxId: 90371]

Probab=99.10  E-value=9.7e-11  Score=97.85  Aligned_cols=60  Identities=25%  Similarity=0.387  Sum_probs=40.5

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCC---HHHHHHcCCCcccee
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALD---PSLAEAMGIDAENLL  176 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~---~~~~~~~g~~~~~l~  176 (264)
                      -+++|+.+.|+||+|||||||+..++.-..+..+.+ +++......   ..+.+.+++.+++..
T Consensus        37 ~i~~Ge~iaivG~sGsGKSTLl~ll~gl~~p~~G~I-~i~g~~i~~~~~~~~r~~i~~v~Q~~~   99 (253)
T d3b60a1          37 KIPAGKTVALVGRSGSGKSTIASLITRFYDIDEGHI-LMDGHDLREYTLASLRNQVALVSQNVH   99 (253)
T ss_dssp             EECTTCEEEEEECTTSSHHHHHHHHTTTTCCSEEEE-EETTEETTTBCHHHHHHTEEEECSSCC
T ss_pred             EEcCCCEEEEECCCCChHHHHHHHHhcccCCCccEE-EECCcccchhhhhhhhheEEEEeeccc
Confidence            478999999999999999998887776555544444 444332221   145556776666543

>d1mv5a_ c.37.1.12 (A:) Multidrug resistance ABC transporter LmrA, C-terminal domain {Lactococcus lactis [TaxId: 1358]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Multidrug resistance ABC transporter LmrA, C-terminal domain
species: Lactococcus lactis [TaxId: 1358]

Probab=99.05  E-value=3.1e-11  Score=100.26  Aligned_cols=39  Identities=18%  Similarity=0.140  Sum_probs=31.7

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEE
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYL  154 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~  154 (264)
                      -+++|+++.|.||||||||||+..++.-..+..|.+.+.
T Consensus        24 ~i~~Ge~vaivG~sGsGKSTLl~ll~gl~~p~~G~I~i~   62 (242)
T d1mv5a_          24 EAQPNSIIAFAGPSGGGKSTIFSLLERFYQPTAGEITID   62 (242)
T ss_dssp             EECTTEEEEEECCTTSSHHHHHHHHTTSSCCSBSCEEET
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHHHhhCCCCCEEEEC
Confidence            378999999999999999998888877665555655553

>d1sgwa_ c.37.1.12 (A:) Putative ABC transporter PF0895 {Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Putative ABC transporter PF0895
species: Pyrococcus furiosus [TaxId: 2261]

Probab=98.96  E-value=9.4e-11  Score=94.60  Aligned_cols=38  Identities=32%  Similarity=0.432  Sum_probs=31.4

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEE
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAY  153 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~  153 (264)
                      -+++|+++.|.||||||||||+..++....+..|.+.|
T Consensus        23 ~i~~Gei~~l~G~NGsGKSTLl~~i~gl~~p~~G~I~~   60 (200)
T d1sgwa_          23 TIEKGNVVNFHGPNGIGKTTLLKTISTYLKPLKGEIIY   60 (200)
T ss_dssp             EEETTCCEEEECCTTSSHHHHHHHHTTSSCCSEEEEEE
T ss_pred             EEcCCCEEEEECCCCChHHHHHHHHhcccccCCCEEEE
Confidence            47899999999999999999988887766665565544

>d2hyda1 c.37.1.12 (A:324-578) Putative multidrug export ATP-binding/permease protein SAV1866 {Staphylococcus aureus [TaxId: 1280]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Putative multidrug export ATP-binding/permease protein SAV1866
species: Staphylococcus aureus [TaxId: 1280]

Probab=98.91  E-value=3.8e-10  Score=94.21  Aligned_cols=60  Identities=23%  Similarity=0.311  Sum_probs=39.9

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCC--CC-HHHHHHcCCCcccee
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENA--LD-PSLAEAMGIDAENLL  176 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~--~~-~~~~~~~g~~~~~l~  176 (264)
                      -+++|+.+.|.||+|||||||+..++....+..+.+ +++....  .. ..+.+.+++.+++..
T Consensus        40 ~i~~Ge~vaivG~sGsGKSTLl~ll~gl~~p~~G~I-~i~g~~i~~~~~~~lr~~i~~v~Q~~~  102 (255)
T d2hyda1          40 SIEKGETVAFVGMSGGGKSTLINLIPRFYDVTSGQI-LIDGHNIKDFLTGSLRNQIGLVQQDNI  102 (255)
T ss_dssp             EECTTCEEEEECSTTSSHHHHHTTTTTSSCCSEEEE-EETTEEGGGSCHHHHHHTEEEECSSCC
T ss_pred             EEcCCCEEEEECCCCCcHHHHHHHHHhcCCcccccc-ccCCEEcccCCHHHhhheeeeeecccc
Confidence            378999999999999999998877766554444444 4443221  11 245566777666543

>d1okkd2 c.37.1.10 (D:97-303) GTPase domain of the signal recognition particle receptor FtsY {Thermus aquaticus [TaxId: 271]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal recognition particle receptor FtsY
species: Thermus aquaticus [TaxId: 271]

Probab=98.75  E-value=1.5e-07  Score=75.67  Aligned_cols=91  Identities=21%  Similarity=0.222  Sum_probs=64.4

Q ss_pred             CCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCH------HHHHHcCCCccceeEeCCCCHHHHHHHHHH
Q 024705          119 KGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP------SLAEAMGIDAENLLIAQPDSAENLLSVVDT  192 (264)
Q Consensus       119 ~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~------~~~~~~g~~~~~l~~~~~~~~ee~~~~i~~  192 (264)
                      ++.++.++||+|+||||.+..++..+...|.+|.++..|.-...      .+++.+|++.-.  .....++.+.+.....
T Consensus         5 ~~~vi~lvGptGvGKTTTiaKLA~~~~~~g~kV~lit~Dt~R~gA~eQL~~~a~~l~i~~~~--~~~~~d~~~~~~~~~~   82 (207)
T d1okkd2           5 KGRVVLVVGVNGVGKTTTIAKLGRYYQNLGKKVMFCAGDTFRAAGGTQLSEWGKRLSIPVIQ--GPEGTDPAALAYDAVQ   82 (207)
T ss_dssp             SSSEEEEECSTTSSHHHHHHHHHHHHHTTTCCEEEECCCCSSTTHHHHHHHHHHHHTCCEEC--CCTTCCHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEEeccccccchhhHhhcccccCceEEe--ccCCccHHHHHHHHHH
Confidence            57899999999999999999999988888999999998864332      356777776321  1123344444443333


Q ss_pred             HhhcCCccEEEEcCccccc
Q 024705          193 LTKSGSIDVIVVDSVAALI  211 (264)
Q Consensus       193 ~~~~~~~~~vvIDsl~~~~  211 (264)
                      .....+.++|+||......
T Consensus        83 ~~~~~~~d~ilIDTaGr~~  101 (207)
T d1okkd2          83 AMKARGYDLLFVDTAGRLH  101 (207)
T ss_dssp             HHHHHTCSEEEECCCCCCT
T ss_pred             HHHHCCCCEEEcCccccch
Confidence            3334578999999877544

>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=98.72  E-value=4.4e-08  Score=81.54  Aligned_cols=124  Identities=17%  Similarity=0.089  Sum_probs=71.5

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCHHHHHHcCCCccceeEeCCCCHHHHHHHHHHHhh
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTK  195 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~~~~~~~g~~~~~l~~~~~~~~ee~~~~i~~~~~  195 (264)
                      |.....-++++||||+|||+++..++..+   +.++++++...-...               +...+...+...+. ..+
T Consensus        41 g~~~~~~iLL~GppGtGKT~la~~iA~~~---~~~~~~i~~~~l~~~---------------~~g~~~~~l~~~f~-~A~  101 (256)
T d1lv7a_          41 GGKIPKGVLMVGPPGTGKTLLAKAIAGEA---KVPFFTISGSDFVEM---------------FVGVGASRVRDMFE-QAK  101 (256)
T ss_dssp             --CCCCEEEEECCTTSCHHHHHHHHHHHH---TCCEEEECSCSSTTS---------------CCCCCHHHHHHHHH-HHH
T ss_pred             CCCCCCeEEeeCCCCCCccHHHHHHHHHc---CCCEEEEEhHHhhhc---------------chhHHHHHHHHHHH-HHH
Confidence            34445668999999999999999998765   566777765432211               00122233333333 334


Q ss_pred             cCCccEEEEcCccccccccccCCCcCCCCcHHHHHHHHHHHHHHHHHHhccCcEEEEEcccchHhh
Q 024705          196 SGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVKVLLL  261 (264)
Q Consensus       196 ~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r~i~~~L~~l~~~l~~~g~tVi~i~h~~~~~~  261 (264)
                      ...|.+++||.+..+.+... .+.. . ......+.+..++..+...-...++.||.+++.-+.++
T Consensus       102 ~~~P~il~iDeiD~l~~~r~-~~~~-~-~~~~~~~~~~~ll~~~d~~~~~~~v~vIatTn~~~~ld  164 (256)
T d1lv7a_         102 KAAPCIIFIDEIDAVGRQRG-AGLG-G-GHDEREQTLNQMLVEMDGFEGNEGIIVIAATNRPDVLD  164 (256)
T ss_dssp             TTCSEEEEETTHHHHTCCCS-TTSC-C-TTCHHHHHHHHHHHHHHTCCSSSCEEEEEEESCTTTSC
T ss_pred             HcCCEEEEEEChhhhCccCC-CCCC-C-CcHHHHHHHHHHHHHhhCCCCCCCEEEEEeCCCcccCC
Confidence            57889999999998874211 1111 1 11233344555665554332445678887776655554

>d1ls1a2 c.37.1.10 (A:89-295) GTPase domain of the signal sequence recognition protein Ffh {Thermus aquaticus [TaxId: 271]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal sequence recognition protein Ffh
species: Thermus aquaticus [TaxId: 271]

Probab=98.72  E-value=1.1e-07  Score=76.47  Aligned_cols=93  Identities=22%  Similarity=0.254  Sum_probs=68.9

Q ss_pred             CCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCH------HHHHHcCCCccceeEeCCCCHHHHHHHH
Q 024705          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP------SLAEAMGIDAENLLIAQPDSAENLLSVV  190 (264)
Q Consensus       117 l~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~------~~~~~~g~~~~~l~~~~~~~~ee~~~~i  190 (264)
                      ...+.+++++||+|+||||.+..++..+..+|.+|.+++.|.....      .+++.+|++...  ...+.+..+.....
T Consensus         7 ~~~~~vi~lvGp~GvGKTTTiaKLA~~~~~~g~kV~lit~Dt~R~gA~eQL~~~a~~l~v~~~~--~~~~~~~~~~~~~~   84 (207)
T d1ls1a2           7 LKDRNLWFLVGLQGSGKTTTAAKLALYYKGKGRRPLLVAADTQRPAAREQLRLLGEKVGVPVLE--VMDGESPESIRRRV   84 (207)
T ss_dssp             CCSSEEEEEECCTTTTHHHHHHHHHHHHHHTTCCEEEEECCSSCHHHHHHHHHHHHHHTCCEEE--CCTTCCHHHHHHHH
T ss_pred             CCCCcEEEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEecccccchHHHHHHHHHHhcCCcccc--ccccchhhHHHHHH
Confidence            3456789999999999999999999999999999999998765432      356777775432  23345566665555


Q ss_pred             HHHhhcCCccEEEEcCccccc
Q 024705          191 DTLTKSGSIDVIVVDSVAALI  211 (264)
Q Consensus       191 ~~~~~~~~~~~vvIDsl~~~~  211 (264)
                      ....+..+.++|+||......
T Consensus        85 ~~~~~~~~~d~vlIDTaGr~~  105 (207)
T d1ls1a2          85 EEKARLEARDLILVDTAGRLQ  105 (207)
T ss_dssp             HHHHHHHTCCEEEEECCCCSS
T ss_pred             HHHHhhccCcceeecccccch
Confidence            444445688999999877554

>d1ye8a1 c.37.1.11 (A:1-178) Hypothetical kinase-like protein Aq_1292 {Aquifex aeolicus [TaxId: 63363]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Hypothetical kinase-like protein Aq 1292
species: Aquifex aeolicus [TaxId: 63363]

Probab=98.68  E-value=2.9e-08  Score=77.04  Aligned_cols=30  Identities=27%  Similarity=0.225  Sum_probs=24.6

Q ss_pred             EEEEecCCCChHHHHHHHHHHHhhcCCeEE
Q 024705          123 VEIYGREASGKTTLALHVIKEAQKLGGYCA  152 (264)
Q Consensus       123 ~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~  152 (264)
                      ++|.||||+|||||+..++.......+.+.
T Consensus         3 i~I~G~~G~GKSTLl~~i~~~l~~~~g~~~   32 (178)
T d1ye8a1           3 IIITGEPGVGKTTLVKKIVERLGKRAIGFW   32 (178)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHGGGEEEEE
T ss_pred             EEEECCCCcHHHHHHHHHHhcCCCCcceEE
Confidence            789999999999999999988766544433

>d2qy9a2 c.37.1.10 (A:285-495) GTPase domain of the signal recognition particle receptor FtsY {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal recognition particle receptor FtsY
species: Escherichia coli [TaxId: 562]

Probab=98.65  E-value=2.4e-07  Score=74.56  Aligned_cols=90  Identities=14%  Similarity=0.139  Sum_probs=64.1

Q ss_pred             CcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCH------HHHHHcCCCccceeEeCCCCHHHHHHHHHHH
Q 024705          120 GRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP------SLAEAMGIDAENLLIAQPDSAENLLSVVDTL  193 (264)
Q Consensus       120 G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~------~~~~~~g~~~~~l~~~~~~~~ee~~~~i~~~  193 (264)
                      ..++.++||+|+||||.+..++..+...|.+|.++..|.-...      .+++.+|++...  ...+.+...++......
T Consensus         9 p~vi~lvGptGvGKTTTiAKLA~~~~~~g~kV~lit~Dt~R~gA~eQL~~~a~~l~v~~~~--~~~~~d~~~~l~~~~~~   86 (211)
T d2qy9a2           9 PFVILMVGVNGVGKTTTIGKLARQFEQQGKSVMLAAGDTFRAAAVEQLQVWGQRNNIPVIA--QHTGADSASVIFDAIQA   86 (211)
T ss_dssp             TEEEEEECCTTSCHHHHHHHHHHHHHTTTCCEEEECCCTTCHHHHHHHHHHHHHTTCCEEC--CSTTCCHHHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEecccccccchhhhhhhhhhcCCcccc--cccCCCHHHHHHHHHHH
Confidence            4689999999999999999999988888999999998765432      356777766421  22334455555444333


Q ss_pred             hhcCCccEEEEcCccccc
Q 024705          194 TKSGSIDVIVVDSVAALI  211 (264)
Q Consensus       194 ~~~~~~~~vvIDsl~~~~  211 (264)
                      ....+.++|+||......
T Consensus        87 a~~~~~d~ilIDTaGr~~  104 (211)
T d2qy9a2          87 AKARNIDVLIADTAGRLQ  104 (211)
T ss_dssp             HHHTTCSEEEECCCCCGG
T ss_pred             HHHcCCCEEEeccCCCcc
Confidence            344689999999866443

>d1j8yf2 c.37.1.10 (F:87-297) GTPase domain of the signal sequence recognition protein Ffh {Archaeon Acidianus ambivalens [TaxId: 2283]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal sequence recognition protein Ffh
species: Archaeon Acidianus ambivalens [TaxId: 2283]

Probab=98.58  E-value=4.8e-07  Score=72.80  Aligned_cols=89  Identities=15%  Similarity=0.139  Sum_probs=57.5

Q ss_pred             CCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCH------HHHHHcCCCccceeEeCCCCHHHHHHHHHH
Q 024705          119 KGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP------SLAEAMGIDAENLLIAQPDSAENLLSVVDT  192 (264)
Q Consensus       119 ~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~------~~~~~~g~~~~~l~~~~~~~~ee~~~~i~~  192 (264)
                      ...++.++||+|+||||.+..++..+..+|.+|.++..|.....      .+++.+|++...  ...+..+.........
T Consensus        11 ~p~vi~lvGptGvGKTTTiAKLA~~~~~~g~kV~lit~Dt~R~ga~eQL~~~a~~l~v~~~~--~~~~~~~~~~~~~a~~   88 (211)
T d1j8yf2          11 IPYVIMLVGVQGTGKATTAGKLAYFYKKKGFKVGLVGADVYRPAALEQLQQLGQQIGVPVYG--EPGEKDVVGIAKRGVE   88 (211)
T ss_dssp             SSEEEEEECSCCC----HHHHHHHHHHHTTCCEEEEECCCSSHHHHHHHHHHHHHHTCCEEC--CTTCCCHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHHHHCCCceEEEEeeccccchhHHHHHhccccCcceee--cccchhhhHHHHHHHH
Confidence            45789999999999999999999999888999999998865432      356667766432  1122233333332222


Q ss_pred             HhhcCCccEEEEcCccc
Q 024705          193 LTKSGSIDVIVVDSVAA  209 (264)
Q Consensus       193 ~~~~~~~~~vvIDsl~~  209 (264)
                      .....+.++|+||....
T Consensus        89 ~~~~~~~d~IlIDTaGr  105 (211)
T d1j8yf2          89 KFLSEKMEIIIVDTAGR  105 (211)
T ss_dssp             HHHHTTCSEEEEECCCS
T ss_pred             HhhccCCceEEEecCCc
Confidence            22346899999997664

>d1vmaa2 c.37.1.10 (A:82-294) GTPase domain of the signal recognition particle receptor FtsY {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal recognition particle receptor FtsY
species: Thermotoga maritima [TaxId: 2336]

Probab=98.57  E-value=3.8e-07  Score=73.49  Aligned_cols=91  Identities=14%  Similarity=0.128  Sum_probs=64.4

Q ss_pred             CCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCH------HHHHHcCCCccceeEeCCCCHHHHHHHHHH
Q 024705          119 KGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP------SLAEAMGIDAENLLIAQPDSAENLLSVVDT  192 (264)
Q Consensus       119 ~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~------~~~~~~g~~~~~l~~~~~~~~ee~~~~i~~  192 (264)
                      +..++.++||+|+||||.+..++..+..++.+|.++..|.-...      .+++.+|++...  ..+..+..........
T Consensus        10 ~p~vi~lvGptGvGKTTTiAKLAa~~~~~~~kV~lit~Dt~R~gA~eQL~~~a~~l~i~~~~--~~~~~d~~~~~~~~~~   87 (213)
T d1vmaa2          10 PPFVIMVVGVNGTGKTTSCGKLAKMFVDEGKSVVLAAADTFRAAAIEQLKIWGERVGATVIS--HSEGADPAAVAFDAVA   87 (213)
T ss_dssp             SCEEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEEECTTCHHHHHHHHHHHHHHTCEEEC--CSTTCCHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHHHHCCCceEEEeecccccchhHHHHHHhhhcCccccc--cCCCCcHHHHHHHHHH
Confidence            45788999999999999999999999889999999998865432      345666665321  1223344555544444


Q ss_pred             HhhcCCccEEEEcCccccc
Q 024705          193 LTKSGSIDVIVVDSVAALI  211 (264)
Q Consensus       193 ~~~~~~~~~vvIDsl~~~~  211 (264)
                      .....+.++|+||......
T Consensus        88 ~~~~~~~d~ilIDTaGr~~  106 (213)
T d1vmaa2          88 HALARNKDVVIIDTAGRLH  106 (213)
T ss_dssp             HHHHTTCSEEEEEECCCCS
T ss_pred             HHHHcCCCEEEEecccccc
Confidence            4445688999999876443

>d1ixza_ c.37.1.20 (A:) AAA domain of cell division protein FtsH {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: AAA domain of cell division protein FtsH
species: Thermus thermophilus [TaxId: 274]

Probab=98.56  E-value=8.1e-08  Score=79.46  Aligned_cols=124  Identities=17%  Similarity=0.080  Sum_probs=67.4

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCHHHHHHcCCCccceeEeCCCCHHHHHHHHHHHhh
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTK  195 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~~~~~~~g~~~~~l~~~~~~~~ee~~~~i~~~~~  195 (264)
                      |.....-++++||||+|||+++..++..+   +.++++++...    .....+|            ..+..+..+-...+
T Consensus        38 g~~~~~giLl~GppGtGKT~la~aia~~~---~~~~~~i~~~~----l~~~~~g------------~~~~~l~~~f~~a~   98 (247)
T d1ixza_          38 GARIPKGVLLVGPPGVGKTHLARAVAGEA---RVPFITASGSD----FVEMFVG------------VGAARVRDLFETAK   98 (247)
T ss_dssp             TCCCCSEEEEECCTTSSHHHHHHHHHHHT---TCCEEEEEHHH----HHHSCTT------------HHHHHHHHHHHHHT
T ss_pred             CCCCCceEEEecCCCCChhHHHHHHHHHc---CCCEEEEEhHH----hhhcccc------------HHHHHHHHHHHHHH
Confidence            45555568999999999999999999754   66777776321    0110011            11222333333334


Q ss_pred             cCCccEEEEcCccccccccccCCCcCCCCcHHHHHHHHHHHHHHHHHHhccCcEEEEEcccchHhh
Q 024705          196 SGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVKVLLL  261 (264)
Q Consensus       196 ~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r~i~~~L~~l~~~l~~~g~tVi~i~h~~~~~~  261 (264)
                      ...+.+++||.+..+..... ...  ........+.++.++..+...-.+.++.||.+++..+.++
T Consensus        99 ~~~p~Ii~iDeid~l~~~r~-~~~--~~~~~~~~~~~~~ll~~~d~~~~~~~vivi~tTn~~~~ld  161 (247)
T d1ixza_          99 RHAPCIVFIDEIDAVGRKRG-SGV--GGGNDEREQTLNQLLVEMDGFEKDTAIVVMAATNRPDILD  161 (247)
T ss_dssp             TSSSEEEEEETHHHHHC------------CHHHHHHHHHHHHHHHTCCTTCCEEEEEEESCGGGSC
T ss_pred             HcCCEEEEEEChhhhCccCC-CCC--CCCcHHHHHHHHHHHHHhhCCCCCCCEEEEEeCCCccccC
Confidence            56788999999998874211 111  1111233344555555553322345667776665555443

>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=98.54  E-value=9.4e-08  Score=79.86  Aligned_cols=125  Identities=17%  Similarity=0.152  Sum_probs=71.9

Q ss_pred             CCCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCHHHHHHcCCCccceeEeCCCCHHHHHHHHHHHh
Q 024705          115 GGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLT  194 (264)
Q Consensus       115 gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~~~~~~~g~~~~~l~~~~~~~~ee~~~~i~~~~  194 (264)
                      .|+++..-++++||||+|||+++..++..+   +.++++++...        -.+..        ....++.+..+-...
T Consensus        36 ~g~~~~~giLL~Gp~GtGKT~l~~ala~~~---~~~~~~~~~~~--------l~~~~--------~~~~~~~l~~~f~~A   96 (265)
T d1r7ra3          36 FGMTPSKGVLFYGPPGCGKTLLAKAIANEC---QANFISIKGPE--------LLTMW--------FGESEANVREIFDKA   96 (265)
T ss_dssp             CCCCCCCEEEEBCCTTSSHHHHHHHHHHHT---TCEEEEECHHH--------HHTSC--------TTTHHHHHHHHHHHH
T ss_pred             CCCCCCCeEEEECCCCCcchhHHHHHHHHh---CCcEEEEEHHH--------hhhcc--------ccchHHHHHHHHHHH
Confidence            578888889999999999999999998865   56666665211        01100        111233333332223


Q ss_pred             hcCCccEEEEcCccccccccccCCCcCCCCcHHHHHHHHHHHHHHHHHHhccCcEEEEEcccchHhh
Q 024705          195 KSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVKVLLL  261 (264)
Q Consensus       195 ~~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r~i~~~L~~l~~~l~~~g~tVi~i~h~~~~~~  261 (264)
                      ....+.+++||.+..+.......  . ........+.+...+..+.......++.||.+++..+.++
T Consensus        97 ~~~~p~il~ideid~l~~~~~~~--~-~~~~~~~~~~~~~ll~~l~~~~~~~~v~vi~ttn~~~~ld  160 (265)
T d1r7ra3          97 RQAAPCVLFFDELDSIAKARGGN--I-GDGGGAADRVINQILTEMDGMSTKKNVFIIGATNRPDIID  160 (265)
T ss_dssp             HHTCSEEEEESSGGGTCCHHHHC--C-CTTHHHHHHHHHHHHHTCC------CCEEEECCBSCTTTS
T ss_pred             HhcCCcceeHHhhhhccccCCCc--C-CCCcHHHHHHHHHHHHHhhCcCCCCCEEEEEeCCCchhCC
Confidence            44688999999999988522111  1 1112233333444555544333556788898888776654

>d1r0wa_ c.37.1.12 (A:) Cystic fibrosis transmembrane conductance regulator, CFTR, nucleotide-binding domain {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Cystic fibrosis transmembrane conductance regulator, CFTR, nucleotide-binding domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.52  E-value=2.2e-07  Score=78.13  Aligned_cols=43  Identities=26%  Similarity=0.451  Sum_probs=33.1

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhc------CCeEEEEecCC
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKL------GGYCAYLDVEN  158 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~------g~~v~~~~~e~  158 (264)
                      -+++|+++.|.||||||||||+..++....+.      ++++.|+..+.
T Consensus        58 ~i~~Ge~vaivG~nGsGKSTLl~~i~Gl~~p~~G~I~~~g~i~~v~Q~~  106 (281)
T d1r0wa_          58 NIEKGEMLAITGSTGSGKTSLLMLILGELEASEGIIKHSGRVSFCSQFS  106 (281)
T ss_dssp             EECTTCEEEEEESTTSSHHHHHHHHHTSSCCSEEEEECCSCEEEECSSC
T ss_pred             EEcCCCEEEEECCCCChHHHHHHHHhCCCcCCCcEEEECCEEEEEeccc
Confidence            38899999999999999999988887765543      34566665543

>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=98.45  E-value=3.8e-07  Score=75.69  Aligned_cols=122  Identities=20%  Similarity=0.245  Sum_probs=67.8

Q ss_pred             CCCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCHHHHHHcCCCccceeEeCCCCHHHHHHHHHHHh
Q 024705          115 GGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLT  194 (264)
Q Consensus       115 gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~~~~~~~g~~~~~l~~~~~~~~ee~~~~i~~~~  194 (264)
                      .|+++..-++++||||+|||+++..++...   +.++.+++...-...        -        .-..+..+..+-...
T Consensus        33 ~g~~~~~giLL~GppGtGKT~l~~ala~~~---~~~~~~i~~~~l~~~--------~--------~g~~~~~l~~~f~~A   93 (258)
T d1e32a2          33 IGVKPPRGILLYGPPGTGKTLIARAVANET---GAFFFLINGPEIMSK--------L--------AGESESNLRKAFEEA   93 (258)
T ss_dssp             CCCCCCCEEEEECCTTSSHHHHHHHHHHHT---TCEEEEECHHHHTTS--------C--------TTHHHHHHHHHHHHH
T ss_pred             CCCCCCceeEEecCCCCCchHHHHHHHHHh---CCeEEEEEchhhccc--------c--------cccHHHHHHHHHHHH
Confidence            466666669999999999999999888753   666666653211000        0        000122222222233


Q ss_pred             hcCCccEEEEcCccccccccccCCCcCCCCcHHHHHHHHHHHHHHHHHHhccCcEEEEEcccchHhh
Q 024705          195 KSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVKVLLL  261 (264)
Q Consensus       195 ~~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r~i~~~L~~l~~~l~~~g~tVi~i~h~~~~~~  261 (264)
                      ....+.+++||.+..+..... .+.. +    ...+.+...+..+.......++.||.+++.-+.++
T Consensus        94 ~~~~p~il~iDeid~l~~~r~-~~~~-~----~~~~~~~~~~~~~~~~~~~~~vlvi~tTn~~~~ld  154 (258)
T d1e32a2          94 EKNAPAIIFIDELDAIAPKRE-KTHG-E----VERRIVSQLLTLMDGLKQRAHVIVMAATNRPNSID  154 (258)
T ss_dssp             HHTCSEEEEESSGGGTCCHHH-HCCC-T----THHHHHHHHHHHHHTCCCSSCEEEEEEESCGGGSC
T ss_pred             HhcCCeEEEehhhhhhccCCC-CCCC-c----hHHHHHHHhccccccccccCCccEEEeCCCccccc
Confidence            446899999999999985322 1111 1    12222333333333222345778887776655544

>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=98.43  E-value=1.6e-06  Score=69.81  Aligned_cols=102  Identities=23%  Similarity=0.263  Sum_probs=65.4

Q ss_pred             EEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCHHHHHHcCCCccceeEeCCCCHHHHHHHHHHHhhcCCccE
Q 024705          122 IVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTKSGSIDV  201 (264)
Q Consensus       122 ~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~~~~~~~g~~~~~l~~~~~~~~ee~~~~i~~~~~~~~~~~  201 (264)
                      .+.|+||+|+|||+|+..++..+...+..++|++........ ...+.          .....++.+.+      ...++
T Consensus        38 ~l~l~G~~G~GKTHLl~A~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~----------~~~~~~~~~~~------~~~dl  100 (213)
T d1l8qa2          38 PIFIYGSVGTGKTHLLQAAGNEAKKRGYRVIYSSADDFAQAM-VEHLK----------KGTINEFRNMY------KSVDL  100 (213)
T ss_dssp             SEEEECSSSSSHHHHHHHHHHHHHHTTCCEEEEEHHHHHHHH-HHHHH----------HTCHHHHHHHH------HTCSE
T ss_pred             cEEEECCCCCcHHHHHHHHHHHhccCccceEEechHHHHHHH-HHHHH----------ccchhhHHHHH------hhccc
Confidence            378999999999999999999999999999998754321110 00000          01122333222      37899


Q ss_pred             EEEcCccccccccccCCCcCCCCcHHHHHHHHHHHHHHHHHHhccCcEEEEEccc
Q 024705          202 IVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQV  256 (264)
Q Consensus       202 vvIDsl~~~~~~~~~~~~~~~~~~~~q~r~i~~~L~~l~~~l~~~g~tVi~i~h~  256 (264)
                      ++||.+..+....            ...    ..+..+...+.+.|..+|+++..
T Consensus       101 l~iDDi~~i~~~~------------~~~----~~lf~lin~~~~~~~~iiits~~  139 (213)
T d1l8qa2         101 LLLDDVQFLSGKE------------RTQ----IEFFHIFNTLYLLEKQIILASDR  139 (213)
T ss_dssp             EEEECGGGGTTCH------------HHH----HHHHHHHHHHHHTTCEEEEEESS
T ss_pred             hhhhhhhhhcCch------------HHH----HHHHHHHHHHhhccceEEEecCC
Confidence            9999998886321            111    23444445557888888888753

>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=98.13  E-value=1.3e-06  Score=66.50  Aligned_cols=38  Identities=18%  Similarity=0.168  Sum_probs=34.0

Q ss_pred             EEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCC
Q 024705          122 IVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENA  159 (264)
Q Consensus       122 ~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~  159 (264)
                      ++.|+|++|||||||+..++..+..+|.++.++..+..
T Consensus         4 vi~itG~~GSGKTTL~~~L~~~l~~~g~~v~v~~~d~~   41 (170)
T d1np6a_           4 LLAFAAWSGTGKTTLLKKLIPALCARGIRPGLIKHTHH   41 (170)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHHHTTCCEEEEEECCC
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHHCCCeEEEeccccc
Confidence            68999999999999999999999999999988876543

>d1d2na_ c.37.1.20 (A:) Hexamerization domain of N-ethylmalemide-sensitive fusion (NSF) protein {Chinese hamster (Cricetulus griseus) [TaxId: 10029]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Hexamerization domain of N-ethylmalemide-sensitive fusion (NSF) protein
species: Chinese hamster (Cricetulus griseus) [TaxId: 10029]

Probab=98.12  E-value=5.8e-06  Score=67.90  Aligned_cols=75  Identities=19%  Similarity=0.208  Sum_probs=44.4

Q ss_pred             CcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCHHHHHHcCCCccceeEeCCCCHHHHHHHHHHHhhcCCc
Q 024705          120 GRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTKSGSI  199 (264)
Q Consensus       120 G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~~~~~~~g~~~~~l~~~~~~~~ee~~~~i~~~~~~~~~  199 (264)
                      ..-++++||||+|||+++..++..+   +.+++.++.-...       .|+.        ..+..+.+..+-.......+
T Consensus        40 ~~~vLL~GppGtGKT~la~alA~~~---~~~~~~i~~~~~~-------~g~~--------~~~~~~~i~~if~~A~~~~p  101 (246)
T d1d2na_          40 LVSVLLEGPPHSGKTALAAKIAEES---NFPFIKICSPDKM-------IGFS--------ETAKCQAMKKIFDDAYKSQL  101 (246)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHHH---TCSEEEEECGGGC-------TTCC--------HHHHHHHHHHHHHHHHTSSE
T ss_pred             CeEEEEECcCCCCHHHHHHHHhhcc---ccccccccccccc-------cccc--------ccchhhhhhhhhhhhhhccc
Confidence            3458999999999999999998754   4555555421100       0100        00111222222222334578


Q ss_pred             cEEEEcCcccccc
Q 024705          200 DVIVVDSVAALIP  212 (264)
Q Consensus       200 ~~vvIDsl~~~~~  212 (264)
                      .+++||.+..+.+
T Consensus       102 ~il~iDEid~l~~  114 (246)
T d1d2na_         102 SCVVVDDIERLLD  114 (246)
T ss_dssp             EEEEECCHHHHTT
T ss_pred             ceeehhhhhhHhh
Confidence            8999999998774

>d1w44a_ c.37.1.11 (A:) NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: NTPase P4
species: Bacteriophage phi-12 [TaxId: 161736]

Probab=98.10  E-value=9e-06  Score=69.15  Aligned_cols=125  Identities=18%  Similarity=0.076  Sum_probs=69.3

Q ss_pred             HHHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCHHHHHHcCCCccceeEeCCCCHHH
Q 024705          106 LKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAEN  185 (264)
Q Consensus       106 ~~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~~~~~~~g~~~~~l~~~~~~~~ee  185 (264)
                      +.+...+|  .-.+..+.+++||||+|||.++..++..+... ...+.++..+-.+.               +.-.....
T Consensus       111 ~~~~~~~~--~~~~~g~~l~~G~pG~GKT~la~ala~~~~~~-~~~~~~~~~~~~~~---------------~~G~~e~~  172 (321)
T d1w44a_         111 PVVAEFGG--HRYASGMVIVTGKGNSGKTPLVHALGEALGGK-DKYATVRFGEPLSG---------------YNTDFNVF  172 (321)
T ss_dssp             CEEEEETT--EEEESEEEEEECSSSSCHHHHHHHHHHHHHTT-SCCEEEEBSCSSTT---------------CBCCHHHH
T ss_pred             hHHHHHhh--cccCCceEEEECCCCccHHHHHHHHHHHhcCC-CCeEEEEhhHhhhc---------------ccchHHHH
Confidence            44455553  33344556678999999999999999876421 12222332221111               00111223


Q ss_pred             HHHHHHHHhhcCCccEEEEcCccccccccccCCCcCCCCcHHHHHHHHHHHHHHHHHHhccCcEEEEEccc
Q 024705          186 LLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQV  256 (264)
Q Consensus       186 ~~~~i~~~~~~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r~i~~~L~~l~~~l~~~g~tVi~i~h~  256 (264)
                      +...++...   .+.+++||.+..+.+...-     +...+...+.+.+.|.++-......|+.||..+.-
T Consensus       173 ~~~~f~~a~---~~~ilf~DEid~~~~~r~~-----~~~~~~~~r~v~~lL~e~dg~~~~~~v~viaatN~  235 (321)
T d1w44a_         173 VDDIARAML---QHRVIVIDSLKNVIGAAGG-----NTTSGGISRGAFDLLSDIGAMAASRGCVVIASLNP  235 (321)
T ss_dssp             HHHHHHHHH---HCSEEEEECCTTTC----------------CCHHHHHHHHHHHHHHHHHTCEEEEECCC
T ss_pred             HHHHHHHHh---hccEEEeehhhhhcccccc-----CCCCCcchhhhhhhhhhccccccCCCeEEEEeCCC
Confidence            333333332   3569999999999853211     11122333567778888776667779999988873

>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=98.06  E-value=1.7e-05  Score=62.34  Aligned_cols=37  Identities=19%  Similarity=0.249  Sum_probs=32.2

Q ss_pred             cEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecC
Q 024705          121 RIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVE  157 (264)
Q Consensus       121 ~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e  157 (264)
                      .+++++|.|||||||++..++......+.++..++.+
T Consensus         3 ~li~l~GlpgsGKSTla~~L~~~l~~~~~~~~~~~~D   39 (213)
T d1bifa1           3 TLIVMVGLPARGKTYISKKLTRYLNFIGVPTREFNVG   39 (213)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEEHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHHHhcCCCCeEEccc
Confidence            5799999999999999999998887778888777754

>d2i3ba1 c.37.1.11 (A:1-189) Cancer-related NTPase, C1orf57 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Cancer-related NTPase, C1orf57
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.01  E-value=2.1e-06  Score=65.97  Aligned_cols=37  Identities=27%  Similarity=0.172  Sum_probs=31.2

Q ss_pred             cEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecC
Q 024705          121 RIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVE  157 (264)
Q Consensus       121 ~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e  157 (264)
                      ..+.|+||||+|||||+..++..+...+..+.++...
T Consensus         2 k~v~ItG~~GtGKTtl~~~i~~~l~~~~~~v~~~~~~   38 (189)
T d2i3ba1           2 RHVFLTGPPGVGKTTLIHKASEVLKSSGVPVDGFYTE   38 (189)
T ss_dssp             CCEEEESCCSSCHHHHHHHHHHHHHHTTCCCEEEECC
T ss_pred             cEEEEECCCCCcHHHHHHHHHHHHHHCCCEEEEEEec
Confidence            3588999999999999999999998888777666533

>d2b8ta1 c.37.1.24 (A:11-149) Thymidine kinase, TK1, N-terminal domain {Ureaplasma urealyticum [TaxId: 2130]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Type II thymidine kinase
domain: Thymidine kinase, TK1, N-terminal domain
species: Ureaplasma urealyticum [TaxId: 2130]

Probab=97.99  E-value=2.3e-05  Score=58.53  Aligned_cols=89  Identities=17%  Similarity=0.160  Sum_probs=59.5

Q ss_pred             CcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCH--HHHHHcCCCccceeEeCCCCHHHHHHHHHHHhhcC
Q 024705          120 GRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP--SLAEAMGIDAENLLIAQPDSAENLLSVVDTLTKSG  197 (264)
Q Consensus       120 G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~--~~~~~~g~~~~~l~~~~~~~~ee~~~~i~~~~~~~  197 (264)
                      |.+.+|+||-.|||||-++..+......|.+++++........  ....+.|.......+   ....++.+.+.......
T Consensus         2 G~L~~i~GpMfsGKTteLi~~~~~~~~~~~kv~~ikp~~D~R~~~~i~s~~g~~~~~~~~---~~~~~~~~~~~~~~~~~   78 (139)
T d2b8ta1           2 GWIEFITGPMFAGKTAELIRRLHRLEYADVKYLVFKPKIDTRSIRNIQSRTGTSLPSVEV---ESAPEILNYIMSNSFND   78 (139)
T ss_dssp             CEEEEEECSTTSCHHHHHHHHHHHHHHTTCCEEEEEECCCGGGCSSCCCCCCCSSCCEEE---SSTHHHHHHHHSTTSCT
T ss_pred             cEEEEEEccccCHHHHHHHHHHHHHHHCCCcEEEEEEcccccccceEEcccCceeeeEEe---ccchhhHHHHHhhcccc
Confidence            7899999999999999999999988888999988875543221  112223333333222   23355555554333334


Q ss_pred             CccEEEEcCccccc
Q 024705          198 SIDVIVVDSVAALI  211 (264)
Q Consensus       198 ~~~~vvIDsl~~~~  211 (264)
                      .+++|+||..+-+.
T Consensus        79 ~~dvI~IDE~QFf~   92 (139)
T d2b8ta1          79 ETKVIGIDEVQFFD   92 (139)
T ss_dssp             TCCEEEECSGGGSC
T ss_pred             CcCEEEechhhhcc
Confidence            78999999999764

>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=97.92  E-value=6e-06  Score=63.13  Aligned_cols=38  Identities=24%  Similarity=0.258  Sum_probs=33.8

Q ss_pred             cEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCC
Q 024705          121 RIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVEN  158 (264)
Q Consensus       121 ~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~  158 (264)
                      .++.|+|++|||||||+..++..+..+|.+|..+..+.
T Consensus         2 kii~I~G~~gSGKTTli~~l~~~L~~~g~~v~vik~d~   39 (165)
T d1xjca_           2 NVWQVVGYKHSGKTTLMEKWVAAAVREGWRVGTVKHHG   39 (165)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEECCC
T ss_pred             cEEEEEeCCCCCHHHHHHHHHHHHHhCCCeEEEEEecc
Confidence            36789999999999999999999999999999886554

>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=97.86  E-value=0.00017  Score=58.25  Aligned_cols=88  Identities=15%  Similarity=0.124  Sum_probs=50.1

Q ss_pred             CcEEEEEecCCCChHHHHHHHHHHHhhc-CCeEEEEecCCCCCH-H----HHHHcCCCccceeEeCCCCHHHHHHHHHHH
Q 024705          120 GRIVEIYGREASGKTTLALHVIKEAQKL-GGYCAYLDVENALDP-S----LAEAMGIDAENLLIAQPDSAENLLSVVDTL  193 (264)
Q Consensus       120 G~~~~I~G~~GsGKTtl~~~l~~~~~~~-g~~v~~~~~e~~~~~-~----~~~~~g~~~~~l~~~~~~~~ee~~~~i~~~  193 (264)
                      ...++|+||||+|||+++..++..+... +..++++........ .    .....+....    ........+...+...
T Consensus        43 ~~~lll~GppGtGKT~l~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~~~~  118 (276)
T d1fnna2          43 YPRATLLGRPGTGKTVTLRKLWELYKDKTTARFVYINGFIYRNFTAIIGEIARSLNIPFP----RRGLSRDEFLALLVEH  118 (276)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHHTTSCCCEEEEEETTTCCSHHHHHHHHHHHTTCCCC----SSCCCHHHHHHHHHHH
T ss_pred             CCceEEECCCCCCHHHHHHHHHHHHhcccCCcEEEecchhhhhhhhhhhhhHHhhhhhhh----hhccchhHHHHHHHHH
Confidence            3568899999999999999998887543 345556655443333 1    1222232211    1123344444444333


Q ss_pred             h-hcCCccEEEEcCccccc
Q 024705          194 T-KSGSIDVIVVDSVAALI  211 (264)
Q Consensus       194 ~-~~~~~~~vvIDsl~~~~  211 (264)
                      . ........++|.+....
T Consensus       119 ~~~~~~~~~~~~~~~d~~~  137 (276)
T d1fnna2         119 LRERDLYMFLVLDDAFNLA  137 (276)
T ss_dssp             HHHTTCCEEEEEETGGGSC
T ss_pred             HhhcccccccchhHHHHhh
Confidence            3 33456677777666554

>d1xbta1 c.37.1.24 (A:18-150) Thymidine kinase, TK1, N-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Type II thymidine kinase
domain: Thymidine kinase, TK1, N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.86  E-value=8.2e-05  Score=54.95  Aligned_cols=84  Identities=19%  Similarity=0.152  Sum_probs=52.1

Q ss_pred             CCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCH--HHHHHcCCCccceeEeCCCCHHHHHHHHHHHhhc
Q 024705          119 KGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP--SLAEAMGIDAENLLIAQPDSAENLLSVVDTLTKS  196 (264)
Q Consensus       119 ~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~--~~~~~~g~~~~~l~~~~~~~~ee~~~~i~~~~~~  196 (264)
                      +|.+.+|+||-.|||||-++..+......|.+++++........  .....-+.......+..   ..+.....      
T Consensus         1 ~G~L~li~GpMfsGKTt~Li~~~~~~~~~g~~v~~ikp~~D~R~~~~~~~~~~~~~~~~~~~~---~~~~~~~~------   71 (133)
T d1xbta1           1 RGQIQVILGPMFSGKSTELMRRVRRFQIAQYKCLVIKYAKDTRYSSSFCTHDRNTMEALPACL---LRDVAQEA------   71 (133)
T ss_dssp             CCEEEEEECCTTSCHHHHHHHHHHHHHTTTCCEEEEEETTCCC--------------CEEESS---GGGGHHHH------
T ss_pred             CcEEEEEEecccCHHHHHHHHHHHHHHHcCCcEEEEecccccCCcceeeecCCCcceeeeeec---hhhhhhhh------
Confidence            68999999999999999999999998888988998875543322  11111111122222211   12222211      


Q ss_pred             CCccEEEEcCccccc
Q 024705          197 GSIDVIVVDSVAALI  211 (264)
Q Consensus       197 ~~~~~vvIDsl~~~~  211 (264)
                      .++++|+||..+-+.
T Consensus        72 ~~~d~I~IDEaQFf~   86 (133)
T d1xbta1          72 LGVAVIGIDEGQFFP   86 (133)
T ss_dssp             HTCSEEEESSGGGCT
T ss_pred             cccceEEeehhHHHH
Confidence            268899999999773

>d1yj5a2 c.37.1.1 (A:351-522) 5' polynucleotide kinase-3' phosphatase, C-terminal domain {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: 5' polynucleotide kinase-3' phosphatase, C-terminal domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=97.85  E-value=1.6e-05  Score=61.42  Aligned_cols=25  Identities=24%  Similarity=0.365  Sum_probs=21.4

Q ss_pred             CCCcEEEEEecCCCChHHHHHHHHH
Q 024705          118 PKGRIVEIYGREASGKTTLALHVIK  142 (264)
Q Consensus       118 ~~G~~~~I~G~~GsGKTtl~~~l~~  142 (264)
                      ++..+++++|+|||||||++..++.
T Consensus        12 ~~p~liil~G~pGsGKST~a~~l~~   36 (172)
T d1yj5a2          12 PNPEVVVAVGFPGAGKSTFIQEHLV   36 (172)
T ss_dssp             SSCCEEEEECCTTSSHHHHHHHHTG
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHH
Confidence            4568999999999999999987653

>d1c9ka_ c.37.1.11 (A:) Adenosylcobinamide kinase/adenosylcobinamide phosphate guanylyltransferase CobU {Salmonella typhimurium [TaxId: 90371]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Adenosylcobinamide kinase/adenosylcobinamide phosphate guanylyltransferase CobU
species: Salmonella typhimurium [TaxId: 90371]

Probab=97.84  E-value=1.8e-05  Score=61.63  Aligned_cols=125  Identities=12%  Similarity=0.167  Sum_probs=68.0

Q ss_pred             EEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCHHHHHHcC----CCccce-eEeCCCCHHHHHHHHHHHhhc
Q 024705          122 IVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMG----IDAENL-LIAQPDSAENLLSVVDTLTKS  196 (264)
Q Consensus       122 ~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~~~~~~~g----~~~~~l-~~~~~~~~ee~~~~i~~~~~~  196 (264)
                      +++|+|+.+||||.+|-+++    ..+++++|+.+-...+.+..+++.    -.+... .+..+....+.+.   .  ..
T Consensus         1 iiLVtGGarSGKS~~AE~l~----~~~~~~~YiAT~~~~D~em~~RI~~Hr~rR~~~w~tiE~~~~l~~~l~---~--~~   71 (180)
T d1c9ka_           1 MILVTGGARSGKSRHAEALI----GDAPQVLYIATSQILDDEMAARIQHHKDGRPAHWRTAECWRHLDTLIT---A--DL   71 (180)
T ss_dssp             CEEEEECTTSSHHHHHHHHH----CSCSSEEEEECCCC------CHHHHHHHTSCTTEEEECCSSCGGGTSC---T--TS
T ss_pred             CEEEECCCCccHHHHHHHHH----hcCCCcEEEEccCCCCHHHHHHHHHHHhcCcCCCEEecccccHHHHHH---h--hc
Confidence            47999999999999998764    456789999876555443222211    112222 2333333333221   1  12


Q ss_pred             CCccEEEEcCccccccccccC----CCcCCCCcHHHHHHHHHHHHHHHHHHhccCcEEEEEcc
Q 024705          197 GSIDVIVVDSVAALIPKCEIG----VPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQ  255 (264)
Q Consensus       197 ~~~~~vvIDsl~~~~~~~~~~----~~~~~~~~~~q~r~i~~~L~~l~~~l~~~g~tVi~i~h  255 (264)
                      .+.+.|++|+++.+....-+.    ..+...........+.+.+..+...+++.+.++|+++.
T Consensus        72 ~~~~~vLlDclt~~l~N~l~~~~~~~~~~~~~~~~~~~~i~~~i~~l~~~l~~~~~~~ViVsn  134 (180)
T d1c9ka_          72 APDDAILLECITTMVTNLLFALGGENDPEQWDYAAMERAIDDEIQILIAACQRCPAKVVLVTN  134 (180)
T ss_dssp             CTTCEEEEECHHHHHHHHHHHC----CTTSCCHHHHHHHHHHHHHHHHHHHHHCCSEEEEECC
T ss_pred             CcccchhhhhhhHHHHHHHHhcccccchhhhhhhhHHHHHHHHHHHHHHHHHhCCCcEEEEec
Confidence            467899999999877432211    11111222233344555566666666777777776665

>d1fx0a3 c.37.1.11 (A:97-372) Central domain of alpha subunit of F1 ATP synthase {Spinach (Spinacia oleracea), chloroplast [TaxId: 3562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Central domain of alpha subunit of F1 ATP synthase
species: Spinach (Spinacia oleracea), chloroplast [TaxId: 3562]

Probab=97.84  E-value=1e-05  Score=67.33  Aligned_cols=113  Identities=16%  Similarity=0.249  Sum_probs=71.1

Q ss_pred             CCCCccccCcHHHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCH--HHHHH-c--CC
Q 024705           96 RRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP--SLAEA-M--GI  170 (264)
Q Consensus        96 ~~~~~i~tG~~~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~--~~~~~-~--g~  170 (264)
                      ...+.+.||+..+|.++.   +-+|+-+.|.|++|+|||+++..++.+.......++|....+....  +..+. .  +.
T Consensus        46 ~~~~~l~TGi~~ID~l~p---ig~GQr~~Ifg~~g~GKt~l~~~~~~~~~~~~~v~V~~~iGer~~Ev~e~~~~~~~~~~  122 (276)
T d1fx0a3          46 SVYEPLQTGLIAIDAMIP---VGRGQRELIIGDRQTGKTAVATDTILNQQGQNVICVYVAIGQKASSVAQVVTNFQERGA  122 (276)
T ss_dssp             CCCSBCCCSCTTTTTTSC---CBTTCBCBEEESSSSSHHHHHHHHHHTCCTTTCEEEEEEESCCHHHHHHHHHHTGGGTG
T ss_pred             CCCccccccceEEecccc---ccCCceEeeccCCCCChHHHHHHHHhhhcccCceeeeeeecchhHHHHHHHHhhccCCc
Confidence            456789999999999986   7899999999999999999998877765555556777654443332  12221 1  21


Q ss_pred             CccceeEeCC--CC-------HHHHHHHHHHHhhcCCccEEEEcCccccc
Q 024705          171 DAENLLIAQP--DS-------AENLLSVVDTLTKSGSIDVIVVDSVAALI  211 (264)
Q Consensus       171 ~~~~l~~~~~--~~-------~ee~~~~i~~~~~~~~~~~vvIDsl~~~~  211 (264)
                      ...-+.+...  .+       +.--....+.....++--++++|+++.+.
T Consensus       123 ~~~tvvv~~tsd~p~~~r~~a~~~a~tiAEyfrd~G~~Vlll~Dsltr~A  172 (276)
T d1fx0a3         123 MEYTIVVAETADSPATLQYLAPYTGAALAEYFMYRERHTLIIYDDLSKQA  172 (276)
T ss_dssp             GGSEEEEEECTTSCGGGTTHHHHHHHHHHHHHHHTTCEEEEEEECHHHHH
T ss_pred             ceeeeecccccCccHHHHHHHHHHHHHHHHHHHHcCCceeEEeeccHHHH
Confidence            1122222211  11       12222334444445566678899998765

>d1x6va3 c.37.1.4 (A:34-228) Adenosine-5'phosphosulfate kinase (APS kinase) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Adenosine-5'phosphosulfate kinase (APS kinase)
domain: Adenosine-5'phosphosulfate kinase (APS kinase)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.81  E-value=4.1e-06  Score=65.22  Aligned_cols=41  Identities=32%  Similarity=0.405  Sum_probs=33.6

Q ss_pred             CCCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEec
Q 024705          115 GGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDV  156 (264)
Q Consensus       115 gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~  156 (264)
                      +|. +|.++.|+|+|||||||++..++..+........++..
T Consensus        15 ~~~-~g~vI~L~G~pGSGKTTiAk~La~~l~~~~~~~~~~~~   55 (195)
T d1x6va3          15 GGF-RGCTVWLTGLSGAGKTTVSMALEEYLVCHGIPCYTLDG   55 (195)
T ss_dssp             CSC-CCEEEEEESSCHHHHHHHHHHHHHHHHHTTCCEEEECH
T ss_pred             cCC-CCeEEEEECCCCCCHHHHHHHHHHHHHhcCCCccchhH
Confidence            455 78899999999999999999999988766666666553

>d1zp6a1 c.37.1.25 (A:6-181) Hypothetical protein Atu3015 {Agrobacterium tumefaciens [TaxId: 358]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Atu3015-like
domain: Hypothetical protein Atu3015
species: Agrobacterium tumefaciens [TaxId: 358]

Probab=97.79  E-value=7.7e-06  Score=62.43  Aligned_cols=36  Identities=25%  Similarity=0.291  Sum_probs=28.1

Q ss_pred             CCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecC
Q 024705          119 KGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVE  157 (264)
Q Consensus       119 ~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e  157 (264)
                      .|++++|.|||||||||++..++.   ..|.+.++++.+
T Consensus         3 ~g~iI~l~G~~GsGKSTia~~La~---~lg~~~~~~~~d   38 (176)
T d1zp6a1           3 GGNILLLSGHPGSGKSTIAEALAN---LPGVPKVHFHSD   38 (176)
T ss_dssp             TTEEEEEEECTTSCHHHHHHHHHT---CSSSCEEEECTT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHH---HhCCCEEEecHH
Confidence            488999999999999999887755   235666667653

>d2jdia3 c.37.1.11 (A:95-379) Central domain of alpha subunit of F1 ATP synthase {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Central domain of alpha subunit of F1 ATP synthase
species: Cow (Bos taurus) [TaxId: 9913]

Probab=97.79  E-value=0.00011  Score=61.27  Aligned_cols=48  Identities=23%  Similarity=0.322  Sum_probs=42.8

Q ss_pred             CCCCCccccCcHHHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHHh
Q 024705           95 SRRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQ  145 (264)
Q Consensus        95 ~~~~~~i~tG~~~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~  145 (264)
                      ....+.+.||+..+|.++.   +-+|+-+.|.|++|+|||+++..++.+..
T Consensus        46 ~~i~e~l~TGIraID~l~p---ig~GQr~~If~~~g~GKt~ll~~~~~~~~   93 (285)
T d2jdia3          46 ISVREPMQTGIKAVDSLVP---IGRGQRELIIGDRQTGKTSIAIDTIINQK   93 (285)
T ss_dssp             CCCCSBCCCSCHHHHHHSC---CBTTCBCEEEESTTSSHHHHHHHHHHHTH
T ss_pred             cCCCcccccCceEEecccC---ccCCCEEEeecCCCCChHHHHHHHHHhHH
Confidence            3467889999999999986   88999999999999999999999988754

>d1yksa1 c.37.1.14 (A:185-324) YFV helicase domain {Yellow fever virus [TaxId: 11089]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RNA helicase
domain: YFV helicase domain
species: Yellow fever virus [TaxId: 11089]

Probab=97.74  E-value=8.2e-05  Score=54.06  Aligned_cols=40  Identities=23%  Similarity=0.112  Sum_probs=30.0

Q ss_pred             CCCCcEEEEEecCCCChHHHHHHH-HHHHhhcCCeEEEEec
Q 024705          117 LPKGRIVEIYGREASGKTTLALHV-IKEAQKLGGYCAYLDV  156 (264)
Q Consensus       117 l~~G~~~~I~G~~GsGKTtl~~~l-~~~~~~~g~~v~~~~~  156 (264)
                      +++|+.++|.+|+|+|||..+... +......+.+++++..
T Consensus         4 l~~~~~~il~~~tGsGKT~~~~~~~~~~~~~~~~~vli~~p   44 (140)
T d1yksa1           4 LKKGMTTVLDFHPGAGKTRRFLPQILAECARRRLRTLVLAP   44 (140)
T ss_dssp             TSTTCEEEECCCTTSSTTTTHHHHHHHHHHHTTCCEEEEES
T ss_pred             HHcCCcEEEEcCCCCChhHHHHHHHHHHhhhcCceeeeeec
Confidence            568999999999999999776544 4455566667777663

>d1m8pa3 c.37.1.15 (A:391-573) ATP sulfurylase C-terminal domain {Fungus (Penicillium chrysogenum) [TaxId: 5076]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ATP sulfurylase C-terminal domain
domain: ATP sulfurylase C-terminal domain
species: Fungus (Penicillium chrysogenum) [TaxId: 5076]

Probab=97.73  E-value=1.2e-05  Score=61.31  Aligned_cols=38  Identities=24%  Similarity=0.280  Sum_probs=30.0

Q ss_pred             CCCcEEEEEecCCCChHHHHHHHHHHHhhcCC-eEEEEe
Q 024705          118 PKGRIVEIYGREASGKTTLALHVIKEAQKLGG-YCAYLD  155 (264)
Q Consensus       118 ~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~-~v~~~~  155 (264)
                      .+|.++.|+|+|||||||++..++..+...+. .+.+++
T Consensus         4 ~~g~~I~l~G~~GsGKTTia~~La~~L~~~~~~~~~~~~   42 (183)
T d1m8pa3           4 TQGFTIFLTGYMNSGKDAIARALQVTLNQQGGRSVSLLL   42 (183)
T ss_dssp             TCCEEEEEECSTTSSHHHHHHHHHHHHHHHCSSCEEEEE
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHhhcCCCchhhhh
Confidence            47899999999999999999999988765543 333443

>d1wb9a2 c.37.1.12 (A:567-800) DNA repair protein MutS, the C-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: DNA repair protein MutS, the C-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=97.73  E-value=0.00058  Score=55.10  Aligned_cols=26  Identities=27%  Similarity=0.271  Sum_probs=23.1

Q ss_pred             CcEEEEEecCCCChHHHHHHHHHHHh
Q 024705          120 GRIVEIYGREASGKTTLALHVIKEAQ  145 (264)
Q Consensus       120 G~~~~I~G~~GsGKTtl~~~l~~~~~  145 (264)
                      +.+.+|+|||.+||||++++++....
T Consensus        41 ~~~~iiTGpN~~GKSt~lk~i~l~~~   66 (234)
T d1wb9a2          41 RRMLIITGPNMGGKSTYMRQTALIAL   66 (234)
T ss_dssp             SCEEEEECCTTSSHHHHHHHHHHHHH
T ss_pred             ceEEEEeccCchhhHHHHHHHHHHHH
Confidence            57899999999999999999987665

>d1sxja2 c.37.1.20 (A:295-547) Replication factor C1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=97.70  E-value=5.7e-05  Score=61.18  Aligned_cols=42  Identities=26%  Similarity=0.180  Sum_probs=31.2

Q ss_pred             CCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCH
Q 024705          118 PKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP  162 (264)
Q Consensus       118 ~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~  162 (264)
                      .....++|+||||+||||++..++...   +..+.+++..+....
T Consensus        50 ~~~~~lll~GPpG~GKTt~a~~la~~~---~~~~~~~~~~~~~~~   91 (253)
T d1sxja2          50 GVFRAAMLYGPPGIGKTTAAHLVAQEL---GYDILEQNASDVRSK   91 (253)
T ss_dssp             TSCSEEEEECSTTSSHHHHHHHHHHHT---TCEEEEECTTSCCCH
T ss_pred             CCCceEEEECCCCCCHHHHHHHHHHHH---Hhhhhccccccchhh
Confidence            344578999999999999999988754   566777766554443

>d2p67a1 c.37.1.10 (A:1-327) LAO/AO transport system kinase ArgK {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: LAO/AO transport system kinase ArgK
species: Escherichia coli [TaxId: 562]

Probab=97.69  E-value=0.0001  Score=62.67  Aligned_cols=41  Identities=17%  Similarity=0.118  Sum_probs=36.3

Q ss_pred             CCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCC
Q 024705          119 KGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENA  159 (264)
Q Consensus       119 ~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~  159 (264)
                      +.-.+.|+||||+|||||...++......|.+|.++..+-+
T Consensus        53 ~~~~IgitG~pGaGKSTLi~~l~~~~~~~g~~vavlavDps   93 (327)
T d2p67a1          53 NTLRLGVTGTPGAGKSTFLEAFGMLLIREGLKVAVIAVDPS   93 (327)
T ss_dssp             CSEEEEEEECTTSCHHHHHHHHHHHHHHTTCCEEEEEECCC
T ss_pred             CceEEEeeCCCCCCHHHHHHHHHHHHHhcCCceeeecCCCc
Confidence            56789999999999999999999999888999988887654

>d2jdid3 c.37.1.11 (D:82-357) Central domain of beta subunit of F1 ATP synthase {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Central domain of beta subunit of F1 ATP synthase
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=97.67  E-value=3.7e-05  Score=63.83  Aligned_cols=64  Identities=28%  Similarity=0.474  Sum_probs=52.4

Q ss_pred             CCCCCccccCcHHHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHHhhc-CCeEEEEecCCCCC
Q 024705           95 SRRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKL-GGYCAYLDVENALD  161 (264)
Q Consensus        95 ~~~~~~i~tG~~~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~-g~~v~~~~~e~~~~  161 (264)
                      ....+.+.||+..+|.++.   +-+|+-..|.|++|+|||+|+..++.+..+. ...++|....+...
T Consensus        46 ~~i~~~l~TGIraID~l~p---igkGQr~~If~~~g~GKt~l~~~i~~~~~~~~~~v~V~~~iGer~~  110 (276)
T d2jdid3          46 SVEQEILVTGIKVVDLLAP---YAKGGKIGLFGGAGVGKTVLIMELINNVAKAHGGYSVFAGVGERTR  110 (276)
T ss_dssp             CCCCCEECCSCHHHHHHSC---EETTCEEEEEECTTSSHHHHHHHHHHHHTTTCSSEEEEEEESCCHH
T ss_pred             cCCCcccccCceeeeeecc---ccCCCEEEeeCCCCCCHHHHHHHHHHHHHhhCCCeEEEEEeccChH
Confidence            3456889999999999986   7799999999999999999999999987654 45677776555433

>d1p9ra_ c.37.1.11 (A:) Extracellular secretion NTPase EpsE {Vibrio cholerae [TaxId: 666]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Extracellular secretion NTPase EpsE
species: Vibrio cholerae [TaxId: 666]

Probab=97.62  E-value=7.2e-05  Score=65.49  Aligned_cols=111  Identities=16%  Similarity=0.197  Sum_probs=65.8

Q ss_pred             CCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCHHHHHHcCCCccceeEeCCCCHHHHHHHHHHHhhcC
Q 024705          118 PKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTKSG  197 (264)
Q Consensus       118 ~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~~~~~~~g~~~~~l~~~~~~~~ee~~~~i~~~~~~~  197 (264)
                      .++.+++|+||.||||||++..++..+...+..++  ..|.+.+....   |+.  +..+. ......+...++..++ .
T Consensus       156 ~~~GliLvtGpTGSGKSTTl~~~l~~~~~~~~~i~--tiEdPiE~~~~---~~~--q~~v~-~~~~~~~~~~l~~~lR-~  226 (401)
T d1p9ra_         156 RPHGIILVTGPTGSGKSTTLYAGLQELNSSERNIL--TVEDPIEFDID---GIG--QTQVN-PRVDMTFARGLRAILR-Q  226 (401)
T ss_dssp             SSSEEEEEECSTTSCHHHHHHHHHHHHCCTTSCEE--EEESSCCSCCS---SSE--EEECB-GGGTBCHHHHHHHHGG-G
T ss_pred             hhhceEEEEcCCCCCccHHHHHHhhhhcCCCceEE--EeccCcccccC---CCC--eeeec-CCcCCCHHHHHHHHHh-h
Confidence            56779999999999999999999887765555544  44444332100   110  11111 1112234555555543 5


Q ss_pred             CccEEEEcCccccccccccCCCcCCCCcHHHHHHHHHHHHHHHHHHhccCcEEEEEcccchHhh
Q 024705          198 SIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVKVLLL  261 (264)
Q Consensus       198 ~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r~i~~~L~~l~~~l~~~g~tVi~i~h~~~~~~  261 (264)
                      .|++++|..+.....                    .....    .+...|..|+.+-|..+..+
T Consensus       227 dPDvi~igEiRd~~t--------------------a~~a~----~aa~tGhlV~tTlHa~~a~~  266 (401)
T d1p9ra_         227 DPDVVMVGEIRDLET--------------------AQIAV----QASLTGHLVMSTLHTNTAVG  266 (401)
T ss_dssp             CCSEEEESCCCSHHH--------------------HHHHH----HHHHTTCEEEEEECCSSSHH
T ss_pred             cCCEEEecCcCChHH--------------------HHHHH----HHHhcCCeEEEEeccCchHh
Confidence            899999987764431                    11111    22567888888888776543

>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=97.62  E-value=3e-05  Score=60.03  Aligned_cols=37  Identities=27%  Similarity=0.368  Sum_probs=30.9

Q ss_pred             EEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCC
Q 024705          122 IVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVEN  158 (264)
Q Consensus       122 ~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~  158 (264)
                      ++.|.|++||||||++..+.......+..+..++.+.
T Consensus        24 iIgI~G~~GSGKSTla~~L~~~l~~~~~~~~~~~~~~   60 (198)
T d1rz3a_          24 VLGIDGLSRSGKTTLANQLSQTLREQGISVCVFHMDD   60 (198)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHHHHHTTCCEEEEEGGG
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhccccccceeccccc
Confidence            5779999999999999999988877777777776543

>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=97.62  E-value=2.4e-05  Score=59.91  Aligned_cols=36  Identities=19%  Similarity=0.254  Sum_probs=31.0

Q ss_pred             cEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEec
Q 024705          121 RIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDV  156 (264)
Q Consensus       121 ~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~  156 (264)
                      .+++|.|+|||||||++..++..+...+.++..++.
T Consensus         2 kiI~i~G~~GsGKsT~~~~L~~~l~~~~~~~~~~~~   37 (190)
T d1khta_           2 KVVVVTGVPGVGSTTSSQLAMDNLRKEGVNYKMVSF   37 (190)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHHHTTTCCCEEEEH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHHHcCCCeEEEec
Confidence            589999999999999999999988777777776654

>d2qm8a1 c.37.1.10 (A:5-327) Metallochaperone MeaB {Methylobacterium extorquens [TaxId: 408]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Metallochaperone MeaB
species: Methylobacterium extorquens [TaxId: 408]

Probab=97.60  E-value=9.1e-05  Score=62.95  Aligned_cols=90  Identities=22%  Similarity=0.247  Sum_probs=56.2

Q ss_pred             CCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCH---------HHHHHcCCCccceeEeCCC---CHHHH
Q 024705          119 KGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP---------SLAEAMGIDAENLLIAQPD---SAENL  186 (264)
Q Consensus       119 ~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~---------~~~~~~g~~~~~l~~~~~~---~~ee~  186 (264)
                      +.-.+.|+|+||+|||||.-.++..+...|.++..+..+.+...         .+...++.+ .+.++.+..   ....+
T Consensus        50 ~~~~igitG~pGaGKSTli~~l~~~~~~~g~~vaViavDpss~~~gg~llgdr~rm~~~~~~-~~~~ir~~~~~~~~gg~  128 (323)
T d2qm8a1          50 RAIRVGITGVPGVGKSTTIDALGSLLTAAGHKVAVLAVDPSSTRTGGSILGDKTRMARLAID-RNAFIRPSPSSGTLGGV  128 (323)
T ss_dssp             CSEEEEEECCTTSCHHHHHHHHHHHHHHTTCCEEEEEECGGGGSSCCCSSCCGGGSTTGGGC-TTEEEECCCCCSSHHHH
T ss_pred             CceEEeeeCCCCCCHHHHHHHHHHHHhhcCCceeeeecccccHHHHhccccchhhHHHHhcc-cceeeccccccccccch
Confidence            45679999999999999999999988888988888876543221         122222222 233333322   23333


Q ss_pred             HHHHH---HHhhcCCccEEEEcCccc
Q 024705          187 LSVVD---TLTKSGSIDVIVVDSVAA  209 (264)
Q Consensus       187 ~~~i~---~~~~~~~~~~vvIDsl~~  209 (264)
                      .....   .+.+..+.++++|.++..
T Consensus       129 ~~~~~~~i~~~~~~g~d~iiiETVG~  154 (323)
T d2qm8a1         129 AAKTRETMLLCEAAGFDVILVETVGV  154 (323)
T ss_dssp             HHHHHHHHHHHHHTTCCEEEEEECSS
T ss_pred             hHHHHHHHHhhccCCCCeEEEeehhh
Confidence            33322   233446889999888755

>d1xx6a1 c.37.1.24 (A:2-142) Thymidine kinase, TK1, N-terminal domain {Clostridium acetobutylicum [TaxId: 1488]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Type II thymidine kinase
domain: Thymidine kinase, TK1, N-terminal domain
species: Clostridium acetobutylicum [TaxId: 1488]

Probab=97.58  E-value=0.00014  Score=54.26  Aligned_cols=86  Identities=20%  Similarity=0.233  Sum_probs=55.4

Q ss_pred             CCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCC--H-HHHHHcCCCccceeEeCCCCHHHHHHHHHHHh
Q 024705          118 PKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALD--P-SLAEAMGIDAENLLIAQPDSAENLLSVVDTLT  194 (264)
Q Consensus       118 ~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~--~-~~~~~~g~~~~~l~~~~~~~~ee~~~~i~~~~  194 (264)
                      ..|.+.+|+||-.|||||-++..+......|.+|+++.......  . ....+.|...+.+.+.   +..++...+    
T Consensus         5 ~~G~l~lI~GpMfSGKTteLi~~~~~~~~~g~~vl~i~~~~D~Ry~~~~i~sh~g~~~~a~~~~---~~~~~~~~~----   77 (141)
T d1xx6a1           5 DHGWVEVIVGPMYSGKSEELIRRIRRAKIAKQKIQVFKPEIDNRYSKEDVVSHMGEKEQAVAIK---NSREILKYF----   77 (141)
T ss_dssp             TCCEEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEEEC-------CEEECTTSCEEECEEES---SSTHHHHHC----
T ss_pred             cceeEEEEEeccccHHHHHHHHHHHHhhhcCCcEEEEEeccccccccceeeecccceEEEEEec---chhhhhhhh----
Confidence            57999999999999999999999999888899999887544321  1 1111223222222222   222333221    


Q ss_pred             hcCCccEEEEcCccccc
Q 024705          195 KSGSIDVIVVDSVAALI  211 (264)
Q Consensus       195 ~~~~~~~vvIDsl~~~~  211 (264)
                       ...+++|+||..+-+.
T Consensus        78 -~~~~dvI~IDE~QFf~   93 (141)
T d1xx6a1          78 -EEDTEVIAIDEVQFFD   93 (141)
T ss_dssp             -CTTCSEEEECSGGGSC
T ss_pred             -cccccEEEEeehhhcc
Confidence             2468999999999764

>d1knqa_ c.37.1.17 (A:) Gluconate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Gluconate kinase
domain: Gluconate kinase
species: Escherichia coli [TaxId: 562]

Probab=97.54  E-value=2.7e-05  Score=59.08  Aligned_cols=27  Identities=26%  Similarity=0.345  Sum_probs=23.9

Q ss_pred             CCCcEEEEEecCCCChHHHHHHHHHHH
Q 024705          118 PKGRIVEIYGREASGKTTLALHVIKEA  144 (264)
Q Consensus       118 ~~G~~~~I~G~~GsGKTtl~~~l~~~~  144 (264)
                      ..+.+++|.|+|||||||++..++..+
T Consensus         4 ~~~~iivl~G~~GsGKsT~a~~La~~l   30 (171)
T d1knqa_           4 HDHHIYVLMGVSGSGKSAVASEVAHQL   30 (171)
T ss_dssp             TTSEEEEEECSTTSCHHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            357899999999999999999998865

>d1y63a_ c.37.1.1 (A:) Probable kinase LmjF30.1890 {Leishmania major [TaxId: 5664]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Probable kinase LmjF30.1890
species: Leishmania major [TaxId: 5664]

Probab=97.53  E-value=2.7e-05  Score=59.19  Aligned_cols=27  Identities=37%  Similarity=0.516  Sum_probs=23.7

Q ss_pred             CCCcEEEEEecCCCChHHHHHHHHHHH
Q 024705          118 PKGRIVEIYGREASGKTTLALHVIKEA  144 (264)
Q Consensus       118 ~~G~~~~I~G~~GsGKTtl~~~l~~~~  144 (264)
                      |+|-.++|+|||||||||++..++..+
T Consensus         3 pk~~~I~i~G~~GsGKTT~~~~La~~l   29 (174)
T d1y63a_           3 PKGINILITGTPGTGKTSMAEMIAAEL   29 (174)
T ss_dssp             CSSCEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CCCCEEEEEeCCCCCHHHHHHHHHHHh
Confidence            678889999999999999999888753

>d1xpua3 c.37.1.11 (A:129-417) Transcription termination factor Rho, ATPase domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Transcription termination factor Rho, ATPase domain
species: Escherichia coli [TaxId: 562]

Probab=97.52  E-value=5.3e-05  Score=63.20  Aligned_cols=47  Identities=21%  Similarity=0.152  Sum_probs=40.6

Q ss_pred             CccccCcHHHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHHhhcC
Q 024705           99 PVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLG  148 (264)
Q Consensus        99 ~~i~tG~~~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g  148 (264)
                      ....+|...+|.++.   +-+|+-.+|.|++|+|||+|+..++.+.....
T Consensus        25 ~~~~~~~r~ID~l~P---igrGQr~~I~g~~g~GKT~l~~~i~~~~~~~~   71 (289)
T d1xpua3          25 STEDLTARVLDLASP---IGRGQRGLIVAPPKAGKTMLLQNIAQSIAYNH   71 (289)
T ss_dssp             CSTHHHHHHHHHHSC---CBTTCEEEEEECSSSSHHHHHHHHHHHHHHHC
T ss_pred             Ccccccceeeeeccc---ccCCCeeeEeCCCCCCHHHHHHHHHHHHhhcC
Confidence            345678899999986   88999999999999999999999999886543

>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=97.52  E-value=0.00013  Score=59.96  Aligned_cols=40  Identities=20%  Similarity=0.274  Sum_probs=36.9

Q ss_pred             CcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCC
Q 024705          120 GRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENA  159 (264)
Q Consensus       120 G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~  159 (264)
                      ..+++++|.-|+||||++.+++..++..|.+|+++|.|..
T Consensus        20 ~~iii~sGKGGVGKTT~a~nLA~~lA~~G~rVllvD~Dp~   59 (279)
T d1ihua2          20 HGLIMLMGKGGVGKTTMAAAIAVRLADMGFDVHLTTSDPA   59 (279)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEESCCC
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEeCCCC
Confidence            4788888999999999999999999999999999999954

>d1ly1a_ c.37.1.1 (A:) Polynucleotide kinase, kinase domain {Bacteriophage T4 [TaxId: 10665]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Polynucleotide kinase, kinase domain
species: Bacteriophage T4 [TaxId: 10665]

Probab=97.52  E-value=2.4e-05  Score=58.28  Aligned_cols=33  Identities=24%  Similarity=0.274  Sum_probs=24.4

Q ss_pred             cEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecC
Q 024705          121 RIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVE  157 (264)
Q Consensus       121 ~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e  157 (264)
                      .+++|.|+|||||||++..++..    ...+.+++.+
T Consensus         3 klIii~G~pGsGKTTla~~L~~~----~~~~~~~~~d   35 (152)
T d1ly1a_           3 KIILTIGCPGSGKSTWAREFIAK----NPGFYNINRD   35 (152)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHH----STTEEEECHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHHh----CCCCEEechH
Confidence            47889999999999998877542    3335566543

>d1ewqa2 c.37.1.12 (A:542-765) DNA repair protein MutS, the C-terminal domain {Thermus aquaticus [TaxId: 271]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: DNA repair protein MutS, the C-terminal domain
species: Thermus aquaticus [TaxId: 271]

Probab=97.50  E-value=0.001  Score=53.23  Aligned_cols=25  Identities=28%  Similarity=0.291  Sum_probs=22.2

Q ss_pred             cEEEEEecCCCChHHHHHHHHHHHh
Q 024705          121 RIVEIYGREASGKTTLALHVIKEAQ  145 (264)
Q Consensus       121 ~~~~I~G~~GsGKTtl~~~l~~~~~  145 (264)
                      ++++|+|||.+||||++.+++....
T Consensus        36 ~~~iiTGpN~~GKSt~lk~i~l~~i   60 (224)
T d1ewqa2          36 ELVLITGPNMAGKSTFLRQTALIAL   60 (224)
T ss_dssp             CEEEEESCSSSSHHHHHHHHHHHHH
T ss_pred             cEEEEECCCccccchhhhhhHHHHH
Confidence            4899999999999999999887664

>d2bdta1 c.37.1.25 (A:1-176) Hypothetical protein BH3686 {Bacillus halodurans [TaxId: 86665]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Atu3015-like
domain: Hypothetical protein BH3686
species: Bacillus halodurans [TaxId: 86665]

Probab=97.48  E-value=2.9e-05  Score=58.66  Aligned_cols=24  Identities=21%  Similarity=0.302  Sum_probs=21.0

Q ss_pred             cEEEEEecCCCChHHHHHHHHHHH
Q 024705          121 RIVEIYGREASGKTTLALHVIKEA  144 (264)
Q Consensus       121 ~~~~I~G~~GsGKTtl~~~l~~~~  144 (264)
                      .+++|.|||||||||++..++...
T Consensus         3 klI~i~G~~GsGKTTva~~L~~~~   26 (176)
T d2bdta1           3 KLYIITGPAGVGKSTTCKRLAAQL   26 (176)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHc
Confidence            478999999999999999888653

>d2gnoa2 c.37.1.20 (A:11-208) gamma subunit of DNA polymerase III, N-domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: gamma subunit of DNA polymerase III, N-domain
species: Thermotoga maritima [TaxId: 2336]

Probab=97.48  E-value=0.00058  Score=53.62  Aligned_cols=73  Identities=15%  Similarity=0.170  Sum_probs=48.5

Q ss_pred             CCcEEEEEecCCCChHHHHHHHHHHHhhcCC---eEEEEecCCCCCHHHHHHcCCCccceeEeCCCCHHHHHHHHHHHhh
Q 024705          119 KGRIVEIYGREASGKTTLALHVIKEAQKLGG---YCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTK  195 (264)
Q Consensus       119 ~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~---~v~~~~~e~~~~~~~~~~~g~~~~~l~~~~~~~~ee~~~~i~~~~~  195 (264)
                      .+..++++||||+|||+++..++........   .+.++..+..                    ...++++.+....+..
T Consensus        14 ~~~~~l~~G~~g~gk~~~a~~l~~~i~~~~~~h~D~~~i~~~~~--------------------~I~Id~IR~i~~~~~~   73 (198)
T d2gnoa2          14 EGISILINGEDLSYPREVSLELPEYVEKFPPKASDVLEIDPEGE--------------------NIGIDDIRTIKDFLNY   73 (198)
T ss_dssp             SSEEEEEECSSSSHHHHHHHHHHHHHHTSCCCTTTEEEECCSSS--------------------CBCHHHHHHHHHHHTS
T ss_pred             CCceEEEECCCCCCHHHHHHHHHHHHhccccCCCCEEEEeCCcC--------------------CCCHHHHHHHHHHHhh
Confidence            4678999999999999999999976643221   2444432210                    1235666665554422


Q ss_pred             ---cCCccEEEEcCccccc
Q 024705          196 ---SGSIDVIVVDSVAALI  211 (264)
Q Consensus       196 ---~~~~~~vvIDsl~~~~  211 (264)
                         .++.++++||....+.
T Consensus        74 ~~~~~~~KviIId~ad~l~   92 (198)
T d2gnoa2          74 SPELYTRKYVIVHDCERMT   92 (198)
T ss_dssp             CCSSSSSEEEEETTGGGBC
T ss_pred             CcccCCCEEEEEeCccccc
Confidence               2567899999988886

>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=97.46  E-value=0.00017  Score=57.19  Aligned_cols=87  Identities=14%  Similarity=0.083  Sum_probs=47.4

Q ss_pred             EEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCH-HHHHHcCCCccceeEeC-----CCCHHHHHHHHHHHh-
Q 024705          122 IVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP-SLAEAMGIDAENLLIAQ-----PDSAENLLSVVDTLT-  194 (264)
Q Consensus       122 ~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~-~~~~~~g~~~~~l~~~~-----~~~~ee~~~~i~~~~-  194 (264)
                      .+++.||+|+||||++..++..+.......   ........ ...-.-+..++-..+..     ....+++.+...... 
T Consensus        26 ~lLl~Gp~G~GKtt~a~~~a~~l~~~~~~~---~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~i~~~~ir~l~~~~~~  102 (207)
T d1a5ta2          26 ALLIQALPGMGDDALIYALSRYLLCQQPQG---HKSCGHCRGCQLMQAGTHPDYYTLAPEKGKNTLGVDAVREVTEKLNE  102 (207)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHTCSSCBT---TBCCSCSHHHHHHHHTCCTTEEEECCCTTCSSBCHHHHHHHHHHTTS
T ss_pred             EEEEECCCCCcHHHHHHHHHHhcccccccc---cccccccchhhhhhhccccccchhhhhhcccccccchhhHHhhhhhh
Confidence            388999999999999999998775322110   00000011 11111233322222221     123556555555432 


Q ss_pred             --hcCCccEEEEcCccccc
Q 024705          195 --KSGSIDVIVVDSVAALI  211 (264)
Q Consensus       195 --~~~~~~~vvIDsl~~~~  211 (264)
                        ...+.++++||.+..+.
T Consensus       103 ~~~~~~~kviIide~d~l~  121 (207)
T d1a5ta2         103 HARLGGAKVVWVTDAALLT  121 (207)
T ss_dssp             CCTTSSCEEEEESCGGGBC
T ss_pred             ccccCccceEEechhhhhh
Confidence              23467899999988876

>d1njfa_ c.37.1.20 (A:) delta prime subunit of DNA polymerase III, N-domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: delta prime subunit of DNA polymerase III, N-domain
species: Escherichia coli [TaxId: 562]

Probab=97.46  E-value=0.00012  Score=59.28  Aligned_cols=26  Identities=23%  Similarity=0.211  Sum_probs=22.2

Q ss_pred             cEEEEEecCCCChHHHHHHHHHHHhh
Q 024705          121 RIVEIYGREASGKTTLALHVIKEAQK  146 (264)
Q Consensus       121 ~~~~I~G~~GsGKTtl~~~l~~~~~~  146 (264)
                      ..++|+||||+||||++..++..+..
T Consensus        35 ~~~Ll~Gp~G~GKtt~a~~~~~~l~~   60 (239)
T d1njfa_          35 HAYLFSGTRGVGKTSIARLLAKGLNC   60 (239)
T ss_dssp             SEEEEECSTTSSHHHHHHHHHHHHHC
T ss_pred             eeEEEECCCCCcHHHHHHHHHHHhcC
Confidence            45789999999999999998887653

>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=97.44  E-value=3.5e-05  Score=62.91  Aligned_cols=37  Identities=24%  Similarity=0.331  Sum_probs=27.7

Q ss_pred             CCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEec
Q 024705          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDV  156 (264)
Q Consensus       117 l~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~  156 (264)
                      ......++++|||||||||++..++..+   +...+.++.
T Consensus        29 ~~~P~~ilL~GpPGtGKT~la~~la~~~---~~~~~~i~~   65 (273)
T d1gvnb_          29 VESPTAFLLGGQPGSGKTSLRSAIFEET---QGNVIVIDN   65 (273)
T ss_dssp             CSSCEEEEEECCTTSCTHHHHHHHHHHT---TTCCEEECT
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHHHh---hcceEEEec
Confidence            3344569999999999999999988765   344555654

>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=97.43  E-value=7.1e-05  Score=57.39  Aligned_cols=36  Identities=19%  Similarity=0.181  Sum_probs=30.5

Q ss_pred             cEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEec
Q 024705          121 RIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDV  156 (264)
Q Consensus       121 ~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~  156 (264)
                      .+++|.|++||||||++..++..+..++..+..++.
T Consensus         2 kiivi~G~~GsGKTT~~~~La~~L~~~~~~~~~~~~   37 (194)
T d1nksa_           2 KIGIVTGIPGVGKSTVLAKVKEILDNQGINNKIINY   37 (194)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHHHHHTTTCCEEEEEH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHHcCCCEEEEEC
Confidence            368899999999999999999888777877777663

>d1sxje2 c.37.1.20 (E:4-255) Replication factor C5 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C5
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=97.43  E-value=0.00041  Score=55.74  Aligned_cols=26  Identities=23%  Similarity=0.472  Sum_probs=22.4

Q ss_pred             EEEEecCCCChHHHHHHHHHHHhhcC
Q 024705          123 VEIYGREASGKTTLALHVIKEAQKLG  148 (264)
Q Consensus       123 ~~I~G~~GsGKTtl~~~l~~~~~~~g  148 (264)
                      ++|+||||+||||++..++..+...+
T Consensus        36 lll~Gp~G~GKTt~~~~la~~l~~~~   61 (252)
T d1sxje2          36 LLLYGPNGTGKKTRCMALLESIFGPG   61 (252)
T ss_dssp             EEEECSTTSSHHHHHHTHHHHHSCTT
T ss_pred             EEEECCCCCCHHHHHHHHHHhhcCcc
Confidence            78999999999999999998875433

>d1rkba_ c.37.1.1 (A:) Adenylate kinase {Human (Homo sapiens), isoenzyme 6 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Human (Homo sapiens), isoenzyme 6 [TaxId: 9606]

Probab=97.41  E-value=4e-05  Score=57.98  Aligned_cols=22  Identities=27%  Similarity=0.419  Sum_probs=19.6

Q ss_pred             EEEEecCCCChHHHHHHHHHHH
Q 024705          123 VEIYGREASGKTTLALHVIKEA  144 (264)
Q Consensus       123 ~~I~G~~GsGKTtl~~~l~~~~  144 (264)
                      ++|+|||||||||++..++...
T Consensus         7 I~i~G~pGsGKTTia~~La~~l   28 (173)
T d1rkba_           7 ILLTGTPGVGKTTLGKELASKS   28 (173)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHH
Confidence            6799999999999999988754

>d1svma_ c.37.1.20 (A:) Papillomavirus large T antigen helicase domain {Simian virus 40 [TaxId: 10633]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Papillomavirus large T antigen helicase domain
species: Simian virus 40 [TaxId: 10633]

Probab=97.41  E-value=7.2e-05  Score=64.58  Aligned_cols=46  Identities=30%  Similarity=0.359  Sum_probs=36.1

Q ss_pred             HHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCC
Q 024705          108 LDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVEN  158 (264)
Q Consensus       108 LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~  158 (264)
                      |-.++.  |.|++..++++||||+|||+++..++..+   |++++.++...
T Consensus       144 l~~~~~--~~~~~~~~~~~g~~~~gk~~~~~~~~~~~---~~~~i~in~s~  189 (362)
T d1svma_         144 LKCMVY--NIPKKRYWLFKGPIDSGKTTLAAALLELC---GGKALNVNLPL  189 (362)
T ss_dssp             HHHHHH--CCTTCCEEEEECSTTSSHHHHHHHHHHHH---CCEEECCSSCT
T ss_pred             HHHHHh--CCCCcCeEEEECCCCCCHHHHHHHHHHHc---CCCEEEEECcc
Confidence            333444  89999999999999999999999998865   66666665433

>d1qhxa_ c.37.1.3 (A:) Chloramphenicol phosphotransferase {Streptomyces venezuelae [TaxId: 54571]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Chloramphenicol phosphotransferase
domain: Chloramphenicol phosphotransferase
species: Streptomyces venezuelae [TaxId: 54571]

Probab=97.41  E-value=4.7e-05  Score=57.69  Aligned_cols=33  Identities=12%  Similarity=0.149  Sum_probs=25.5

Q ss_pred             CcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEe
Q 024705          120 GRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLD  155 (264)
Q Consensus       120 G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~  155 (264)
                      ..+++|.|+|||||||++..++..+   +.+...++
T Consensus         3 ~kiI~l~G~~GsGKsTva~~L~~~l---~~~~~~~~   35 (178)
T d1qhxa_           3 TRMIILNGGSSAGKSGIVRCLQSVL---PEPWLAFG   35 (178)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHS---SSCEEEEE
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHc---CCCeEEee
Confidence            5689999999999999999988754   34444444

>d1w5sa2 c.37.1.20 (A:7-293) CDC6-like protein APE0152, N-terminal domain {Aeropyrum pernix [TaxId: 56636]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CDC6-like protein APE0152, N-terminal domain
species: Aeropyrum pernix [TaxId: 56636]

Probab=97.36  E-value=9.8e-05  Score=60.17  Aligned_cols=87  Identities=21%  Similarity=0.250  Sum_probs=49.0

Q ss_pred             EEEEEecCCCChHHHHHHHHHHHhhc------CCeEEEEecCCCCCHH-----HHHHcCCCccceeEeCCCCHHHHHHHH
Q 024705          122 IVEIYGREASGKTTLALHVIKEAQKL------GGYCAYLDVENALDPS-----LAEAMGIDAENLLIAQPDSAENLLSVV  190 (264)
Q Consensus       122 ~~~I~G~~GsGKTtl~~~l~~~~~~~------g~~v~~~~~e~~~~~~-----~~~~~g~~~~~l~~~~~~~~ee~~~~i  190 (264)
                      +++|+||||+|||+++..++..+...      ...+.|+.........     .....+....    ........+...+
T Consensus        48 ~l~l~GppGtGKT~l~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~l  123 (287)
T d1w5sa2          48 IYGSIGRVGIGKTTLAKFTVKRVSEAAAKEGLTVKQAYVNAFNAPNLYTILSLIVRQTGYPIQ----VRGAPALDILKAL  123 (287)
T ss_dssp             EEECTTCCSSSHHHHHHHHHHHHHHHHHHTTCCEEEEEEEGGGCCSHHHHHHHHHHHHTCCCC----CTTCCHHHHHHHH
T ss_pred             EEEeECCCCCCHHHHHHHHHHHHHhhcccccCCceeeeeccccccchhhHHHHHhhhcccccc----cccchHHHHHHHH
Confidence            45678999999999999998876421      2345555544443331     1222222211    1123344444444


Q ss_pred             HHHh-hcCCccEEEEcCcccccc
Q 024705          191 DTLT-KSGSIDVIVVDSVAALIP  212 (264)
Q Consensus       191 ~~~~-~~~~~~~vvIDsl~~~~~  212 (264)
                      .... ......++++|.+..+..
T Consensus       124 ~~~~~~~~~~~~~iide~d~l~~  146 (287)
T d1w5sa2         124 VDNLYVENHYLLVILDEFQSMLS  146 (287)
T ss_dssp             HHHHHHHTCEEEEEEESTHHHHS
T ss_pred             HHHHHhccCccccceeEEEEecc
Confidence            4333 335667788898887763

>d1lw7a2 c.37.1.1 (A:220-411) Transcriptional regulator NadR, ribosylnicotinamide kinase domain {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Transcriptional regulator NadR, ribosylnicotinamide kinase domain
species: Haemophilus influenzae [TaxId: 727]

Probab=97.36  E-value=3.3e-05  Score=58.93  Aligned_cols=24  Identities=33%  Similarity=0.437  Sum_probs=21.4

Q ss_pred             cEEEEEecCCCChHHHHHHHHHHH
Q 024705          121 RIVEIYGREASGKTTLALHVIKEA  144 (264)
Q Consensus       121 ~~~~I~G~~GsGKTtl~~~l~~~~  144 (264)
                      ..++|.||||||||||+..++..+
T Consensus         8 K~I~i~G~~GsGKTTla~~La~~~   31 (192)
T d1lw7a2           8 KTVAILGGESSGKSVLVNKLAAVF   31 (192)
T ss_dssp             EEEEEECCTTSHHHHHHHHHHHHT
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh
Confidence            568999999999999999998854

>d1nn5a_ c.37.1.1 (A:) Thymidylate kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.36  E-value=0.00012  Score=58.13  Aligned_cols=40  Identities=18%  Similarity=0.331  Sum_probs=35.4

Q ss_pred             CCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecC
Q 024705          118 PKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVE  157 (264)
Q Consensus       118 ~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e  157 (264)
                      .+|.++.|.|+.||||||++..++..+...|.++.++...
T Consensus         1 ~rG~lI~ieG~dGsGKsT~~~~L~~~L~~~g~~v~~~~~p   40 (209)
T d1nn5a_           1 RRGALIVLEGVDRAGKSTQSRKLVEALCAAGHRAELLRFP   40 (209)
T ss_dssp             CCCCEEEEEESTTSSHHHHHHHHHHHHHHTTCCEEEEESS
T ss_pred             CCeeEEEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEeCC
Confidence            3789999999999999999999999988889888887643

>d1sxjc2 c.37.1.20 (C:12-238) Replication factor C3 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C3
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=97.36  E-value=0.00073  Score=53.51  Aligned_cols=23  Identities=26%  Similarity=0.472  Sum_probs=20.9

Q ss_pred             EEEEecCCCChHHHHHHHHHHHh
Q 024705          123 VEIYGREASGKTTLALHVIKEAQ  145 (264)
Q Consensus       123 ~~I~G~~GsGKTtl~~~l~~~~~  145 (264)
                      ++|+||+|+||||++..++..+.
T Consensus        38 lLl~Gp~G~GKttl~~~la~~l~   60 (227)
T d1sxjc2          38 LLFYGPPGTGKTSTIVALAREIY   60 (227)
T ss_dssp             EEEECSSSSSHHHHHHHHHHHHH
T ss_pred             EEEECCCCCChhHHHHHHHHHhh
Confidence            78999999999999999998764

>d1kaga_ c.37.1.2 (A:) Shikimate kinase (AroK) {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Escherichia coli [TaxId: 562]

Probab=97.36  E-value=4e-05  Score=57.13  Aligned_cols=23  Identities=17%  Similarity=0.328  Sum_probs=20.1

Q ss_pred             EEEEEecCCCChHHHHHHHHHHH
Q 024705          122 IVEIYGREASGKTTLALHVIKEA  144 (264)
Q Consensus       122 ~~~I~G~~GsGKTtl~~~l~~~~  144 (264)
                      .+.|.|||||||||++..++..+
T Consensus         4 ~I~l~G~~GsGKSTvak~La~~L   26 (169)
T d1kaga_           4 NIFLVGPMGAGKSTIGRQLAQQL   26 (169)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHHT
T ss_pred             eEEEECCCCCCHHHHHHHHHHHh
Confidence            47788999999999999998864

>d1qf9a_ c.37.1.1 (A:) UMP/CMP kinase {Dictyostelium discoideum [TaxId: 44689]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: UMP/CMP kinase
species: Dictyostelium discoideum [TaxId: 44689]

Probab=97.36  E-value=6.3e-05  Score=58.57  Aligned_cols=26  Identities=27%  Similarity=0.447  Sum_probs=22.6

Q ss_pred             CCcEEEEEecCCCChHHHHHHHHHHH
Q 024705          119 KGRIVEIYGREASGKTTLALHVIKEA  144 (264)
Q Consensus       119 ~G~~~~I~G~~GsGKTtl~~~l~~~~  144 (264)
                      +..+++|.|||||||||++..++...
T Consensus         5 kp~iI~i~G~pGSGKsT~a~~La~~~   30 (194)
T d1qf9a_           5 KPNVVFVLGGPGSGKGTQCANIVRDF   30 (194)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHH
Confidence            45689999999999999999998754

>d2bmfa2 c.37.1.14 (A:178-482) Dengue virus helicase {Dengue virus type 2 [TaxId: 11060]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RNA helicase
domain: Dengue virus helicase
species: Dengue virus type 2 [TaxId: 11060]

Probab=97.35  E-value=0.00037  Score=57.60  Aligned_cols=39  Identities=26%  Similarity=0.248  Sum_probs=32.4

Q ss_pred             CCCCcEEEEEecCCCChHH-HHHHHHHHHhhcCCeEEEEe
Q 024705          117 LPKGRIVEIYGREASGKTT-LALHVIKEAQKLGGYCAYLD  155 (264)
Q Consensus       117 l~~G~~~~I~G~~GsGKTt-l~~~l~~~~~~~g~~v~~~~  155 (264)
                      +.+|+.+++.+|+|||||+ ++..++..+..++.+++|+.
T Consensus         6 ~~~~~~~lv~~~TGsGKT~~~l~~~~~~~~~~~~~~lvi~   45 (305)
T d2bmfa2           6 FRKKRLTIMDLHPGAGKTKRYLPAIVREAIKRGLRTLILA   45 (305)
T ss_dssp             SSTTCEEEECCCTTSSTTTTHHHHHHHHHHHHTCCEEEEE
T ss_pred             hhcCCcEEEEECCCCCHHHHHHHHHHHHHHhcCCEEEEEc
Confidence            5689999999999999996 55566667777788899886

>d1jbka_ c.37.1.20 (A:) ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpB, AAA+ modules
species: Escherichia coli [TaxId: 562]

Probab=97.31  E-value=0.0016  Score=50.83  Aligned_cols=29  Identities=14%  Similarity=0.147  Sum_probs=25.1

Q ss_pred             CCCcEEEEEecCCCChHHHHHHHHHHHhh
Q 024705          118 PKGRIVEIYGREASGKTTLALHVIKEAQK  146 (264)
Q Consensus       118 ~~G~~~~I~G~~GsGKTtl~~~l~~~~~~  146 (264)
                      .....++++||||+|||+++..++..+..
T Consensus        41 ~~k~n~lLvG~pGVGKTalv~~LA~ri~~   69 (195)
T d1jbka_          41 RTKNNPVLIGEPGVGKTAIVEGLAQRIIN   69 (195)
T ss_dssp             SSSCEEEEECCTTSCHHHHHHHHHHHHHH
T ss_pred             cCCCCeEEEecCCcccHHHHHHHHHHHHh
Confidence            34578999999999999999999988764

>d1ak2a1 c.37.1.1 (A:14-146,A:177-233) Adenylate kinase {Cow (Bos taurus), mitochondrial izozyme-2 [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Cow (Bos taurus), mitochondrial izozyme-2 [TaxId: 9913]

Probab=97.30  E-value=8.3e-05  Score=57.74  Aligned_cols=34  Identities=29%  Similarity=0.334  Sum_probs=26.6

Q ss_pred             CCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEec
Q 024705          118 PKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDV  156 (264)
Q Consensus       118 ~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~  156 (264)
                      |+|--++|.|||||||||.+..++...   |  ..+++.
T Consensus         1 p~~~riil~G~pGSGKsT~a~~La~~~---g--~~~i~~   34 (190)
T d1ak2a1           1 PKGVRAVLLGPPGAGKGTQAPKLAKNF---C--VCHLAT   34 (190)
T ss_dssp             CCCCEEEEECCTTSSHHHHHHHHHHHH---T--CEEEEH
T ss_pred             CCccEEEEECCCCCCHHHHHHHHHHHh---C--CeEEeH
Confidence            567677889999999999999988754   3  446664

>d1r6bx2 c.37.1.20 (X:169-436) ClpA, an Hsp100 chaperone, AAA+ modules {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpA, an Hsp100 chaperone, AAA+ modules
species: Escherichia coli [TaxId: 562]

Probab=97.29  E-value=0.00028  Score=58.18  Aligned_cols=111  Identities=14%  Similarity=0.132  Sum_probs=61.5

Q ss_pred             CCcEEEEEecCCCChHHHHHHHHHHHhhc-------CCeEEEEecCCCCCHHHHHHcCCCccceeEeCCCCHHHHHHHHH
Q 024705          119 KGRIVEIYGREASGKTTLALHVIKEAQKL-------GGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVD  191 (264)
Q Consensus       119 ~G~~~~I~G~~GsGKTtl~~~l~~~~~~~-------g~~v~~~~~e~~~~~~~~~~~g~~~~~l~~~~~~~~ee~~~~i~  191 (264)
                      ....++++||||+|||+++..++..+...       +..+..++...-.       -|...       .-..++.+..+.
T Consensus        38 ~k~n~lLVG~~GvGKTalv~~la~ri~~~~vp~~l~~~~i~~l~~~~li-------ag~~~-------~g~~e~r~~~i~  103 (268)
T d1r6bx2          38 RKNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLDIGSLL-------AGTKY-------RGDFEKRFKALL  103 (268)
T ss_dssp             SSCEEEEECCTTSSHHHHHHHHHHHHHHTCSCGGGTTCEEEECCCC----------CCCCC-------SSCHHHHHHHHH
T ss_pred             ccCCcEEECCCCCcHHHHHHHHHHHHHhCCcccccccceeEEeeechHh-------ccCcc-------chhHHHHHHHHH
Confidence            45788999999999999999999887642       2223222211100       00000       123455555444


Q ss_pred             HHhhcCCccEEEEcCccccccccccCCCcCCCCcHHHHHHHHHHHHHHHHHHhccCcEEEEEcc
Q 024705          192 TLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQ  255 (264)
Q Consensus       192 ~~~~~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r~i~~~L~~l~~~l~~~g~tVi~i~h  255 (264)
                      ..+...+.-+++||.+..++....-.+   +      .-.++..|+-.   +.+-++.+|..+.
T Consensus       104 ~~~~~~~~iIlfiDeih~l~~~g~~~g---~------~~d~a~~Lkp~---L~rg~i~vIgatT  155 (268)
T d1r6bx2         104 KQLEQDTNSILFIDEIHTIIGAGAASG---G------QVDAANLIKPL---LSSGKIRVIGSTT  155 (268)
T ss_dssp             HHHSSSSCEEEEETTTTTTTTSCCSSS---C------HHHHHHHHSSC---SSSCCCEEEEEEC
T ss_pred             HHhhccCCceEEecchHHHhcCCCCCC---c------cccHHHHhhHH---HhCCCCeEEEeCC
Confidence            444445666889999999984211111   1      01133444433   2556777877654

>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=97.29  E-value=0.00012  Score=60.05  Aligned_cols=38  Identities=21%  Similarity=0.353  Sum_probs=35.1

Q ss_pred             EEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCC
Q 024705          122 IVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENA  159 (264)
Q Consensus       122 ~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~  159 (264)
                      .+.|+|.-|+||||++.+++..++..|.+|+.+|.|..
T Consensus         3 ~Iai~gKGGvGKTT~a~nLA~~LA~~G~rVllID~D~q   40 (269)
T d1cp2a_           3 QVAIYGKGGIGKSTTTQNLTSGLHAMGKTIMVVGCDPK   40 (269)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHHHHTTTCCEEEEEECTT
T ss_pred             EEEEECCCcCCHHHHHHHHHHHHHhCCCcEEEEecCCC
Confidence            57789999999999999999999999999999999864

>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=97.29  E-value=6.3e-05  Score=60.52  Aligned_cols=23  Identities=39%  Similarity=0.356  Sum_probs=20.5

Q ss_pred             EEEEEecCCCChHHHHHHHHHHH
Q 024705          122 IVEIYGREASGKTTLALHVIKEA  144 (264)
Q Consensus       122 ~~~I~G~~GsGKTtl~~~l~~~~  144 (264)
                      .++++||||+||||+|..++..+
T Consensus        37 ~~L~~GPpGtGKT~lA~~la~~~   59 (238)
T d1in4a2          37 HVLLAGPPGLGKTTLAHIIASEL   59 (238)
T ss_dssp             CEEEESSTTSSHHHHHHHHHHHH
T ss_pred             eEEEECCCCCcHHHHHHHHHhcc
Confidence            37899999999999999988865

>d1znwa1 c.37.1.1 (A:20-201) Guanylate kinase {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=97.27  E-value=7.8e-05  Score=57.63  Aligned_cols=25  Identities=32%  Similarity=0.488  Sum_probs=22.2

Q ss_pred             CcEEEEEecCCCChHHHHHHHHHHH
Q 024705          120 GRIVEIYGREASGKTTLALHVIKEA  144 (264)
Q Consensus       120 G~~~~I~G~~GsGKTtl~~~l~~~~  144 (264)
                      |.+++|.||+||||||++..+....
T Consensus         2 G~iivl~GpsG~GK~tl~~~L~~~~   26 (182)
T d1znwa1           2 GRVVVLSGPSAVGKSTVVRCLRERI   26 (182)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CeEEEEECCCCCCHHHHHHHHHhhC
Confidence            7899999999999999988877654

>d4tmka_ c.37.1.1 (A:) Thymidylate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Escherichia coli [TaxId: 562]

Probab=97.26  E-value=0.00015  Score=57.29  Aligned_cols=40  Identities=28%  Similarity=0.308  Sum_probs=33.3

Q ss_pred             CCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCC
Q 024705          119 KGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVEN  158 (264)
Q Consensus       119 ~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~  158 (264)
                      +|.+++|.|+.||||||++..+...+...|.+++++..+.
T Consensus         1 rgkfIviEG~dGsGKsT~~~~L~~~L~~~g~~~~~~~~ep   40 (210)
T d4tmka_           1 RSKYIVIEGLEGAGKTTARNVVVETLEQLGIRDMVFTREP   40 (210)
T ss_dssp             CCCEEEEEECTTSCHHHHHHHHHHHHHHTTCCCEEEEESS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHHHhCCCCeEEEecCC
Confidence            5889999999999999999999988888787666555443

>d1ihua1 c.37.1.10 (A:1-296) Arsenite-translocating ATPase ArsA {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Arsenite-translocating ATPase ArsA
species: Escherichia coli [TaxId: 562]

Probab=97.25  E-value=0.00017  Score=59.46  Aligned_cols=40  Identities=15%  Similarity=0.184  Sum_probs=36.8

Q ss_pred             CcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCC
Q 024705          120 GRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENA  159 (264)
Q Consensus       120 G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~  159 (264)
                      -.++.++|.-|+||||++.+++..+++.|.+|+.+|.|-.
T Consensus         8 p~~i~~sGKGGVGKTTvaa~lA~~lA~~G~rVLlvD~Dp~   47 (296)
T d1ihua1           8 PPYLFFTGKGGVGKTSISCATAIRLAEQGKRVLLVSTDPA   47 (296)
T ss_dssp             CSEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEECCTT
T ss_pred             CeEEEEECCCcChHHHHHHHHHHHHHHCCCCEEEEeCCCC
Confidence            4578899999999999999999999999999999999854

>d3adka_ c.37.1.1 (A:) Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Pig (Sus scrofa) [TaxId: 9823]

Probab=97.19  E-value=8.5e-05  Score=57.95  Aligned_cols=34  Identities=26%  Similarity=0.416  Sum_probs=26.7

Q ss_pred             CCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEec
Q 024705          118 PKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDV  156 (264)
Q Consensus       118 ~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~  156 (264)
                      ..+.++.|.|||||||||.+..++...   |  ..+++.
T Consensus         6 ~~~~iI~l~G~pGSGKsT~a~~La~~~---g--~~~is~   39 (194)
T d3adka_           6 KKSKIIFVVGGPGSGKGTQCEKIVQKY---G--YTHLST   39 (194)
T ss_dssp             HTSCEEEEEECTTSSHHHHHHHHHHHT---C--CEEEEH
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHHHHh---C--CeeEec
Confidence            367899999999999999999887742   3  455664

>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=97.18  E-value=0.00015  Score=57.59  Aligned_cols=41  Identities=29%  Similarity=0.316  Sum_probs=34.2

Q ss_pred             CCCcEEEEEecCCCChHHHHHHHHHHHhh-cCCeEEEEecCC
Q 024705          118 PKGRIVEIYGREASGKTTLALHVIKEAQK-LGGYCAYLDVEN  158 (264)
Q Consensus       118 ~~G~~~~I~G~~GsGKTtl~~~l~~~~~~-~g~~v~~~~~e~  158 (264)
                      .+|.++.|+|.|||||||++..+...+.. .+..+++++.+.
T Consensus        22 ~kg~vIwltGlsGsGKTTia~~L~~~l~~~~~~~~~~ldgD~   63 (208)
T d1m7ga_          22 QRGLTIWLTGLSASGKSTLAVELEHQLVRDRRVHAYRLDGDN   63 (208)
T ss_dssp             SSCEEEEEECSTTSSHHHHHHHHHHHHHHHHCCCEEEECHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHHHhcCceEEEEcchH
Confidence            67899999999999999999999887754 456788887654

>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=97.18  E-value=9.9e-05  Score=59.39  Aligned_cols=22  Identities=36%  Similarity=0.502  Sum_probs=20.0

Q ss_pred             EEEEecCCCChHHHHHHHHHHH
Q 024705          123 VEIYGREASGKTTLALHVIKEA  144 (264)
Q Consensus       123 ~~I~G~~GsGKTtl~~~l~~~~  144 (264)
                      ++++||||+||||++..++..+
T Consensus        38 ~Ll~GPpG~GKTtla~~la~~~   59 (239)
T d1ixsb2          38 LLLFGPPGLGKTTLAHVIAHEL   59 (239)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            7799999999999999998765

>d1byia_ c.37.1.10 (A:) Dethiobiotin synthetase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Dethiobiotin synthetase
species: Escherichia coli [TaxId: 562]

Probab=97.16  E-value=0.0002  Score=56.25  Aligned_cols=37  Identities=19%  Similarity=0.168  Sum_probs=33.4

Q ss_pred             cEEEEEecC-CCChHHHHHHHHHHHhhcCCeEEEEecC
Q 024705          121 RIVEIYGRE-ASGKTTLALHVIKEAQKLGGYCAYLDVE  157 (264)
Q Consensus       121 ~~~~I~G~~-GsGKTtl~~~l~~~~~~~g~~v~~~~~e  157 (264)
                      ..+.|+|.. |+||||++..++..++++|.+|++++.+
T Consensus         2 ~~~~i~gt~~GVGKTtvs~~La~aLa~~G~rVl~id~d   39 (224)
T d1byia_           2 KRYFVTGTDTEVGKTVASCALLQAAKAAGYRTAGYKPV   39 (224)
T ss_dssp             EEEEEEESSTTSCHHHHHHHHHHHHHHTTCCEEEECSE
T ss_pred             ceEEEEECCCCccHHHHHHHHHHHHHHCCCeEEEECcc
Confidence            357899995 9999999999999999999999999854

>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=97.14  E-value=0.0004  Score=58.40  Aligned_cols=53  Identities=23%  Similarity=0.209  Sum_probs=38.4

Q ss_pred             HHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHHhh--cCCeEEEEecCCCCC
Q 024705          109 DLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQK--LGGYCAYLDVENALD  161 (264)
Q Consensus       109 D~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~--~g~~v~~~~~e~~~~  161 (264)
                      ...+|..+-...-+++|+|++||||||++..+...+..  .+.+|..++.|.-..
T Consensus        69 ~~fl~~~~~k~P~iIGIaG~sgSGKSTla~~L~~lL~~~~~~~~v~~Is~D~F~~  123 (308)
T d1sq5a_          69 EQFLGTNGQRIPYIISIAGSVAVGKSTTARVLQALLSRWPEHRRVELITTDGFLH  123 (308)
T ss_dssp             HHHHTCC-CCCCEEEEEEECTTSSHHHHHHHHHHHHTTSTTCCCEEEEEGGGGBC
T ss_pred             HHHhcccCCCCCEEEEEeCCCCCCCcHHHHHHHHHHhhhcCCCceEEEeeeeeEC
Confidence            44554223334468999999999999999999887764  356788888876543

>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=97.14  E-value=0.00022  Score=59.11  Aligned_cols=38  Identities=18%  Similarity=0.371  Sum_probs=34.7

Q ss_pred             EEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCC
Q 024705          122 IVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENA  159 (264)
Q Consensus       122 ~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~  159 (264)
                      .+.|.|.-|+||||++.+++..++..|.+|+.+|.|..
T Consensus         4 ~IaisgKGGVGKTT~a~NLA~~LA~~G~rVLlID~DpQ   41 (289)
T d2afhe1           4 QCAIYGKGGIGKSTTTQNLVAALAEMGKKVMIVGCDPK   41 (289)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHHHHHTTCCEEEEEECSS
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHCCCCEEEEecCCC
Confidence            46679999999999999999999999999999999864

>d1ofha_ c.37.1.20 (A:) HslU {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: HslU
species: Haemophilus influenzae [TaxId: 727]

Probab=97.12  E-value=0.00012  Score=61.68  Aligned_cols=33  Identities=21%  Similarity=0.258  Sum_probs=25.0

Q ss_pred             cEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEec
Q 024705          121 RIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDV  156 (264)
Q Consensus       121 ~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~  156 (264)
                      ..++++||||+|||.+|.+++..+   +.+.+.++.
T Consensus        50 ~~iLl~GPpG~GKT~lAkalA~~~---~~~~~~i~~   82 (309)
T d1ofha_          50 KNILMIGPTGVGKTEIARRLAKLA---NAPFIKVEA   82 (309)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHH---TCCEEEEEG
T ss_pred             ceEEEECCCCCCHHHHHHHHhhcc---ccchhcccc
Confidence            346789999999999999998865   344555553

>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=97.11  E-value=0.00027  Score=56.20  Aligned_cols=40  Identities=28%  Similarity=0.395  Sum_probs=35.2

Q ss_pred             CcEEEEE-ecCCCChHHHHHHHHHHHhhcCCeEEEEecCCC
Q 024705          120 GRIVEIY-GREASGKTTLALHVIKEAQKLGGYCAYLDVENA  159 (264)
Q Consensus       120 G~~~~I~-G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~  159 (264)
                      |+++.++ +..|+||||++.+++..++..|.+|+++|.+..
T Consensus         2 ~~vIav~~~kGGvGKTtia~nLA~~la~~g~~VlliD~D~~   42 (237)
T d1g3qa_           2 GRIISIVSGKGGTGKTTVTANLSVALGDRGRKVLAVDGDLT   42 (237)
T ss_dssp             CEEEEEECSSTTSSHHHHHHHHHHHHHHTTCCEEEEECCTT
T ss_pred             CeEEEEECCCCCCcHHHHHHHHHHHHHhCCCCEEEEeCCCC
Confidence            5667777 669999999999999999999999999998754

>d1yrba1 c.37.1.10 (A:1-244) ATP(GTP)-binding protein PAB0955 {Pyrococcus abyssi [TaxId: 29292]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: ATP(GTP)-binding protein PAB0955
species: Pyrococcus abyssi [TaxId: 29292]

Probab=97.09  E-value=0.00029  Score=56.23  Aligned_cols=34  Identities=32%  Similarity=0.318  Sum_probs=27.4

Q ss_pred             EEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEec
Q 024705          122 IVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDV  156 (264)
Q Consensus       122 ~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~  156 (264)
                      +++|.|++|||||||+..+..... .++.++.+..
T Consensus         2 vi~v~G~~GsGKTTLl~~ll~~~~-~~~~~~ivn~   35 (244)
T d1yrba1           2 IVVFVGTAGSGKTTLTGEFGRYLE-DNYKVAYVNL   35 (244)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHT-TTSCEEEEEC
T ss_pred             EEEEEcCCCCcHHHHHHHHHHHHh-hCCeEEEEec
Confidence            588999999999999999987653 5666777754

>d1zina1 c.37.1.1 (A:1-125,A:161-217) Adenylate kinase {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=97.06  E-value=0.00016  Score=55.36  Aligned_cols=22  Identities=23%  Similarity=0.326  Sum_probs=19.7

Q ss_pred             EEEEecCCCChHHHHHHHHHHH
Q 024705          123 VEIYGREASGKTTLALHVIKEA  144 (264)
Q Consensus       123 ~~I~G~~GsGKTtl~~~l~~~~  144 (264)
                      ++|.|||||||||.+..++...
T Consensus         3 I~i~G~pGSGKsT~a~~La~~~   24 (182)
T d1zina1           3 LVLMGLPGAGKGTQAEKIVAAY   24 (182)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHH
Confidence            6799999999999999888765

>d1ukza_ c.37.1.1 (A:) Uridylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Uridylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=97.04  E-value=0.00019  Score=55.87  Aligned_cols=34  Identities=18%  Similarity=0.254  Sum_probs=26.7

Q ss_pred             CCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEec
Q 024705          118 PKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDV  156 (264)
Q Consensus       118 ~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~  156 (264)
                      ++-.+++|.|||||||||++..++...     +..|++.
T Consensus         6 ~~~~iI~i~GppGSGKsT~a~~La~~~-----g~~~is~   39 (196)
T d1ukza_           6 DQVSVIFVLGGPGAGKGTQCEKLVKDY-----SFVHLSA   39 (196)
T ss_dssp             TTCEEEEEECSTTSSHHHHHHHHHHHS-----SCEEEEH
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHHh-----CCeEEeh
Confidence            345789999999999999999997744     3456664

>d1teva_ c.37.1.1 (A:) UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: UMP/CMP kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.03  E-value=0.00018  Score=55.75  Aligned_cols=23  Identities=22%  Similarity=0.411  Sum_probs=20.5

Q ss_pred             EEEEEecCCCChHHHHHHHHHHH
Q 024705          122 IVEIYGREASGKTTLALHVIKEA  144 (264)
Q Consensus       122 ~~~I~G~~GsGKTtl~~~l~~~~  144 (264)
                      ++.|.|||||||||.|..++...
T Consensus         3 iI~i~GppGSGKsT~a~~La~~~   25 (194)
T d1teva_           3 VVFVLGGPGAGKGTQCARIVEKY   25 (194)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            57899999999999999988754

>d1zaka1 c.37.1.1 (A:3-127,A:159-222) Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Maize (Zea mays) [TaxId: 4577]

Probab=97.03  E-value=0.00018  Score=55.73  Aligned_cols=23  Identities=35%  Similarity=0.248  Sum_probs=19.9

Q ss_pred             EEEEEecCCCChHHHHHHHHHHH
Q 024705          122 IVEIYGREASGKTTLALHVIKEA  144 (264)
Q Consensus       122 ~~~I~G~~GsGKTtl~~~l~~~~  144 (264)
                      .++|.|||||||||++..++...
T Consensus         5 ~I~i~GppGsGKsT~a~~La~~~   27 (189)
T d1zaka1           5 KVMISGAPASGKGTQCELIKTKY   27 (189)
T ss_dssp             CEEEEESTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            47799999999999998887755

>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=97.02  E-value=0.00024  Score=56.04  Aligned_cols=37  Identities=16%  Similarity=0.310  Sum_probs=28.3

Q ss_pred             EEEEEecCCCChHHHHHHHHHHHhhc-----CCeEEEEecCC
Q 024705          122 IVEIYGREASGKTTLALHVIKEAQKL-----GGYCAYLDVEN  158 (264)
Q Consensus       122 ~~~I~G~~GsGKTtl~~~l~~~~~~~-----g~~v~~~~~e~  158 (264)
                      +++|+|++||||||++..++..+...     +..+..++.|.
T Consensus         4 iIgI~G~~gSGKSTla~~L~~~l~~~~~~~~~~~~~vi~~D~   45 (213)
T d1uj2a_           4 LIGVSGGTASGKSSVCAKIVQLLGQNEVDYRQKQVVILSQDS   45 (213)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHTTGGGSCGGGCSEEEEEGGG
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhchhccccCCCceEEEeccc
Confidence            68899999999999999998776432     23566777653

>d1a7ja_ c.37.1.6 (A:) Phosphoribulokinase {Rhodobacter sphaeroides [TaxId: 1063]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Phosphoribulokinase
species: Rhodobacter sphaeroides [TaxId: 1063]

Probab=97.01  E-value=0.00018  Score=59.92  Aligned_cols=38  Identities=13%  Similarity=0.204  Sum_probs=30.5

Q ss_pred             EEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCC
Q 024705          122 IVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENA  159 (264)
Q Consensus       122 ~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~  159 (264)
                      +++|+|++||||||++..+...+...+-++++++.|.-
T Consensus         6 IIgIaG~SGSGKTTva~~l~~i~~~~~v~~~iI~~Dsf   43 (288)
T d1a7ja_           6 IISVTGSSGAGTSTVKHTFDQIFRREGVKAVSIEGDAF   43 (288)
T ss_dssp             EEEEESCC---CCTHHHHHHHHHHHHTCCEEEEEGGGG
T ss_pred             EEEEECCCCCcHHHHHHHHHHHHhhcCCCeEEEeCCCC
Confidence            89999999999999999998888777888888987754

>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=97.00  E-value=0.0019  Score=53.08  Aligned_cols=44  Identities=16%  Similarity=0.209  Sum_probs=31.5

Q ss_pred             CCCcEEEEEecCCCChHHHHHHHHHHHhh----cCCeEEEEecCCCCC
Q 024705          118 PKGRIVEIYGREASGKTTLALHVIKEAQK----LGGYCAYLDVENALD  161 (264)
Q Consensus       118 ~~G~~~~I~G~~GsGKTtl~~~l~~~~~~----~g~~v~~~~~e~~~~  161 (264)
                      ....++.|+|..|.||||||..+......    .-..++|++......
T Consensus        42 ~~~~~v~I~GmgGiGKTtLA~~v~~~~~~~~~~~f~~~~Wv~vs~~~~   89 (277)
T d2a5yb3          42 LDSFFLFLHGRAGSGKSVIASQALSKSDQLIGINYDSIVWLKDSGTAP   89 (277)
T ss_dssp             SSSEEEEEECSTTSSHHHHHHHHHHHCSSTBTTTBSEEEEEECCCCST
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHHhhhhhhhhcCceEEEEEecCCCC
Confidence            34678999999999999999998775321    134577887544433

>d1ckea_ c.37.1.1 (A:) CMP kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: CMP kinase
species: Escherichia coli [TaxId: 562]

Probab=97.00  E-value=0.0002  Score=56.37  Aligned_cols=23  Identities=26%  Similarity=0.413  Sum_probs=21.3

Q ss_pred             EEEEEecCCCChHHHHHHHHHHH
Q 024705          122 IVEIYGREASGKTTLALHVIKEA  144 (264)
Q Consensus       122 ~~~I~G~~GsGKTtl~~~l~~~~  144 (264)
                      ++.|.|||||||||.+..++...
T Consensus         5 iI~I~GppGSGKgT~ak~La~~~   27 (225)
T d1ckea_           5 VITIDGPSGAGKGTLCKAMAEAL   27 (225)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            78999999999999999999866

>d1qvra3 c.37.1.20 (A:536-850) ClpB, AAA+ modules {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpB, AAA+ modules
species: Thermus thermophilus [TaxId: 274]

Probab=97.00  E-value=0.00042  Score=58.49  Aligned_cols=40  Identities=18%  Similarity=0.087  Sum_probs=31.2

Q ss_pred             CCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCC
Q 024705          119 KGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVEN  158 (264)
Q Consensus       119 ~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~  158 (264)
                      +...++++||+|+|||.+|..++..+...+.+.+.++..+
T Consensus        52 p~~~~lf~Gp~G~GKt~lak~la~~l~~~~~~~~~~~~~~   91 (315)
T d1qvra3          52 PIGSFLFLGPTGVGKTELAKTLAATLFDTEEAMIRIDMTE   91 (315)
T ss_dssp             CSEEEEEBSCSSSSHHHHHHHHHHHHHSSGGGEEEECTTT
T ss_pred             CceEEEEECCCcchHHHHHHHHHHHhcCCCcceEEEeccc
Confidence            3446789999999999999999998865556666666543

>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=96.97  E-value=0.00043  Score=54.88  Aligned_cols=39  Identities=23%  Similarity=0.343  Sum_probs=33.7

Q ss_pred             EEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCC
Q 024705          122 IVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENAL  160 (264)
Q Consensus       122 ~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~  160 (264)
                      +.+..|..|+||||++.+++..++..|.+|+++|.+...
T Consensus         4 Iav~s~KGGvGKTtia~nlA~~la~~g~~VlliD~D~~~   42 (232)
T d1hyqa_           4 ITVASGKGGTGKTTITANLGVALAQLGHDVTIVDADITM   42 (232)
T ss_dssp             EEEEESSSCSCHHHHHHHHHHHHHHTTCCEEEEECCCSS
T ss_pred             EEEECCCCCChHHHHHHHHHHHHHhCCCCEEEEeCCCCC
Confidence            344558899999999999999999999999999988654

>d1s96a_ c.37.1.1 (A:) Guanylate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Escherichia coli [TaxId: 562]

Probab=96.97  E-value=0.00025  Score=56.14  Aligned_cols=26  Identities=19%  Similarity=0.394  Sum_probs=22.8

Q ss_pred             CCcEEEEEecCCCChHHHHHHHHHHH
Q 024705          119 KGRIVEIYGREASGKTTLALHVIKEA  144 (264)
Q Consensus       119 ~G~~~~I~G~~GsGKTtl~~~l~~~~  144 (264)
                      .|.+++|+||+|+||||+...++...
T Consensus         1 ~G~livi~GPSG~GK~tl~~~L~~~~   26 (205)
T d1s96a_           1 QGTLYIVSAPSGAGKSSLIQALLKTQ   26 (205)
T ss_dssp             CCCEEEEECCTTSCHHHHHHHHHHHS
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHhhC
Confidence            48999999999999999988877653

>d1s3ga1 c.37.1.1 (A:1-125,A:161-217) Adenylate kinase {Bacillus globisporus [TaxId: 1459]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Bacillus globisporus [TaxId: 1459]

Probab=96.96  E-value=0.00023  Score=54.68  Aligned_cols=22  Identities=23%  Similarity=0.369  Sum_probs=19.9

Q ss_pred             EEEEecCCCChHHHHHHHHHHH
Q 024705          123 VEIYGREASGKTTLALHVIKEA  144 (264)
Q Consensus       123 ~~I~G~~GsGKTtl~~~l~~~~  144 (264)
                      ++|.|||||||||.+..++...
T Consensus         3 I~i~G~pGSGKsT~a~~La~~~   24 (182)
T d1s3ga1           3 IVLMGLPGAGKGTQADRIVEKY   24 (182)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHH
Confidence            6789999999999999998865

>d2cdna1 c.37.1.1 (A:1-181) Adenylate kinase {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=96.95  E-value=0.00022  Score=54.70  Aligned_cols=22  Identities=27%  Similarity=0.407  Sum_probs=19.9

Q ss_pred             EEEEecCCCChHHHHHHHHHHH
Q 024705          123 VEIYGREASGKTTLALHVIKEA  144 (264)
Q Consensus       123 ~~I~G~~GsGKTtl~~~l~~~~  144 (264)
                      ++|.|||||||||.+..++...
T Consensus         3 I~i~G~pGsGKsT~a~~La~~~   24 (181)
T d2cdna1           3 VLLLGPPGAGKGTQAVKLAEKL   24 (181)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHH
Confidence            6789999999999999998765

>d1iqpa2 c.37.1.20 (A:2-232) Replication factor C {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=96.94  E-value=0.00022  Score=56.98  Aligned_cols=24  Identities=33%  Similarity=0.321  Sum_probs=21.5

Q ss_pred             EEEEEecCCCChHHHHHHHHHHHh
Q 024705          122 IVEIYGREASGKTTLALHVIKEAQ  145 (264)
Q Consensus       122 ~~~I~G~~GsGKTtl~~~l~~~~~  145 (264)
                      .++|+||||+||||++..++..+.
T Consensus        47 ~lll~Gp~G~GKTtla~~iak~l~   70 (231)
T d1iqpa2          47 HLLFAGPPGVGKTTAALALARELF   70 (231)
T ss_dssp             EEEEESCTTSSHHHHHHHHHHHHH
T ss_pred             eEEEECCCCCcHHHHHHHHHHHHH
Confidence            478999999999999999998764

>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=96.90  E-value=0.00025  Score=54.02  Aligned_cols=31  Identities=19%  Similarity=0.416  Sum_probs=24.1

Q ss_pred             EEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecC
Q 024705          122 IVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVE  157 (264)
Q Consensus       122 ~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e  157 (264)
                      .++|.|+|||||||++..++..+   |  .-|++.+
T Consensus         4 ~Iil~G~~GsGKSTia~~LA~~L---g--~~~id~D   34 (170)
T d1e6ca_           4 PIFMVGARGCGMTTVGRELARAL---G--YEFVDTD   34 (170)
T ss_dssp             CEEEESCTTSSHHHHHHHHHHHH---T--CEEEEHH
T ss_pred             CEEEECCCCCCHHHHHHHHHHHh---C--CCEEehh
Confidence            46688999999999999998765   3  3366654

>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=96.87  E-value=0.00075  Score=56.03  Aligned_cols=42  Identities=12%  Similarity=0.192  Sum_probs=32.1

Q ss_pred             CCCcEEEEEecCCCChHHHHHHHHHHHhhc---CCeEEEEecCCC
Q 024705          118 PKGRIVEIYGREASGKTTLALHVIKEAQKL---GGYCAYLDVENA  159 (264)
Q Consensus       118 ~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~---g~~v~~~~~e~~  159 (264)
                      ...=+++|+|++||||||++..+...+...   ...|..++.|.-
T Consensus        25 ~~P~iIGi~G~qGSGKSTl~~~l~~~L~~~~~~~~~v~~iS~Ddf   69 (286)
T d1odfa_          25 KCPLFIFFSGPQGSGKSFTSIQIYNHLMEKYGGEKSIGYASIDDF   69 (286)
T ss_dssp             CSCEEEEEECCTTSSHHHHHHHHHHHHHHHHGGGSCEEEEEGGGG
T ss_pred             CCCEEEEeECCCCCCHHHHHHHHHHHHHHHhCCCcceEeeccCCC
Confidence            344688999999999999999887776542   346788887664

>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=96.85  E-value=0.00085  Score=53.99  Aligned_cols=44  Identities=23%  Similarity=0.289  Sum_probs=32.1

Q ss_pred             HHHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEec
Q 024705          106 LKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDV  156 (264)
Q Consensus       106 ~~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~  156 (264)
                      .+|+++..  .  .+..++|+||+|+|||+|+..++...   +....|++.
T Consensus        19 ~el~~l~~--~--~~~~i~i~G~~G~GKTsLl~~~~~~~---~~~~~~i~~   62 (283)
T d2fnaa2          19 KEIEKLKG--L--RAPITLVLGLRRTGKSSIIKIGINEL---NLPYIYLDL   62 (283)
T ss_dssp             HHHHHHHH--T--CSSEEEEEESTTSSHHHHHHHHHHHH---TCCEEEEEG
T ss_pred             HHHHHHHh--c--cCCEEEEEcCCCCcHHHHHHHHHHHC---CCCeEEEEe
Confidence            34566554  2  46789999999999999999887654   445666654

>d1e4va1 c.37.1.1 (A:1-121,A:157-214) Adenylate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Escherichia coli [TaxId: 562]

Probab=96.84  E-value=0.00032  Score=53.66  Aligned_cols=22  Identities=23%  Similarity=0.395  Sum_probs=19.3

Q ss_pred             EEEEecCCCChHHHHHHHHHHH
Q 024705          123 VEIYGREASGKTTLALHVIKEA  144 (264)
Q Consensus       123 ~~I~G~~GsGKTtl~~~l~~~~  144 (264)
                      ++|.|||||||||.+..++...
T Consensus         3 I~i~G~pGSGKsT~~~~La~~~   24 (179)
T d1e4va1           3 IILLGAPVAGKGTQAQFIMEKY   24 (179)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            6789999999999999888754

>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=96.84  E-value=0.00032  Score=52.99  Aligned_cols=30  Identities=33%  Similarity=0.475  Sum_probs=23.9

Q ss_pred             EEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecC
Q 024705          123 VEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVE  157 (264)
Q Consensus       123 ~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e  157 (264)
                      ++|.|+|||||||++..++..+   |  .-|++.+
T Consensus         3 I~liG~~GsGKsTi~k~La~~l---~--~~~~d~d   32 (161)
T d1viaa_           3 IVFIGFMGSGKSTLARALAKDL---D--LVFLDSD   32 (161)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHH---T--CEEEEHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHh---C--CCEEecC
Confidence            6777999999999999998876   3  3466654

>d1q3ta_ c.37.1.1 (A:) CMP kinase {Streptococcus pneumoniae [TaxId: 1313]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: CMP kinase
species: Streptococcus pneumoniae [TaxId: 1313]

Probab=96.83  E-value=0.00034  Score=55.26  Aligned_cols=23  Identities=35%  Similarity=0.450  Sum_probs=20.3

Q ss_pred             EEEEEecCCCChHHHHHHHHHHH
Q 024705          122 IVEIYGREASGKTTLALHVIKEA  144 (264)
Q Consensus       122 ~~~I~G~~GsGKTtl~~~l~~~~  144 (264)
                      ++.|.|||||||||.|..++..+
T Consensus         5 ~IaIdGp~GsGKgT~ak~La~~l   27 (223)
T d1q3ta_           5 QIAIDGPASSGKSTVAKIIAKDF   27 (223)
T ss_dssp             EEEEECSSCSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            46688999999999999999876

>d1qvra2 c.37.1.20 (A:149-535) ClpB, AAA+ modules {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpB, AAA+ modules
species: Thermus thermophilus [TaxId: 274]

Probab=96.82  E-value=0.0029  Score=54.61  Aligned_cols=111  Identities=14%  Similarity=0.138  Sum_probs=50.6

Q ss_pred             CCCcEEEEEecCCCChHHHHHHHHHHHhhc-------CCeEEEEecCCCCCHHHHHHcCCCccceeEeCCCCHHHHH-HH
Q 024705          118 PKGRIVEIYGREASGKTTLALHVIKEAQKL-------GGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLL-SV  189 (264)
Q Consensus       118 ~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~-------g~~v~~~~~e~~~~~~~~~~~g~~~~~l~~~~~~~~ee~~-~~  189 (264)
                      ......+++|+||+|||+++..++..+...       +..+..++...-..       |...       .-..++-+ ..
T Consensus        41 ~~k~n~llvG~~GvGKtaiv~~la~~i~~~~vp~~l~~~~i~~ld~~~l~a-------g~~~-------~g~~e~r~~~i  106 (387)
T d1qvra2          41 RTKNNPVLIGEPGVGKTAIVEGLAQRIVKGDVPEGLKGKRIVSLQMGSLLA-------GAKY-------RGEFEERLKAV  106 (387)
T ss_dssp             SSCCCCEEEECTTSCHHHHHHHHHHHHHHTCSCTTSTTCEEEEECC-------------------------CHHHHHHHH
T ss_pred             CCCCCCeEECCCCCCHHHHHHHHHHHHHhCCCCHHHcCceEEEeeHhhhhc-------ccCc-------chhHHHHHHHH
Confidence            344667899999999999998888776542       23343333211100       0000       01223333 33


Q ss_pred             HHHHhhcCCccEEEEcCccccccccccCCCcCCCCcHHHHHHHHHHHHHHHHHHhccCcEEEEEcc
Q 024705          190 VDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQ  255 (264)
Q Consensus       190 i~~~~~~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r~i~~~L~~l~~~l~~~g~tVi~i~h  255 (264)
                      +..+....+.-+++||.+..++......+   +       -.++..|+-..   .+-.+.+|..+.
T Consensus       107 ~~~~~~~~~~~ilfide~h~l~~~g~~~g---~-------~d~a~~Lkp~L---~rg~~~~I~~tT  159 (387)
T d1qvra2         107 IQEVVQSQGEVILFIDELHTVVGAGKAEG---A-------VDAGNMLKPAL---ARGELRLIGATT  159 (387)
T ss_dssp             HHHHHTTCSSEEEEECCC-----------------------------HHHH---HTTCCCEEEEEC
T ss_pred             HHHhccCCCceEEEeccHHHHhcCCCCCC---c-------ccHHHHHHHHH---hCCCcceeeecC
Confidence            33333333456789999999984211111   0       11234554443   666777776664

>d1akya1 c.37.1.1 (A:3-130,A:169-220) Adenylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.82  E-value=0.00033  Score=53.79  Aligned_cols=22  Identities=23%  Similarity=0.285  Sum_probs=19.3

Q ss_pred             EEEEecCCCChHHHHHHHHHHH
Q 024705          123 VEIYGREASGKTTLALHVIKEA  144 (264)
Q Consensus       123 ~~I~G~~GsGKTtl~~~l~~~~  144 (264)
                      ++|.|||||||||++..++...
T Consensus         5 Ivl~G~pGSGKtT~a~~La~~~   26 (180)
T d1akya1           5 MVLIGPPGAGKGTQAPNLQERF   26 (180)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            5688999999999999998754

>d1sxjd2 c.37.1.20 (D:26-262) Replication factor C2 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C2
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.81  E-value=0.00058  Score=54.28  Aligned_cols=38  Identities=26%  Similarity=0.260  Sum_probs=27.8

Q ss_pred             cHHHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHHh
Q 024705          105 SLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQ  145 (264)
Q Consensus       105 ~~~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~  145 (264)
                      +..|-.++. .+-.+  .++|+||||+||||++..++..+.
T Consensus        21 ~~~l~~~i~-~~~~~--~lll~Gp~G~GKTtl~~~i~~~l~   58 (237)
T d1sxjd2          21 VTVLKKTLK-SANLP--HMLFYGPPGTGKTSTILALTKELY   58 (237)
T ss_dssp             HHHHHHHTT-CTTCC--CEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             HHHHHHHHH-cCCCC--eEEEECCCCCChHHHHHHHHHHHc
Confidence            345666665 33222  278999999999999999998764

>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=96.79  E-value=0.00037  Score=52.72  Aligned_cols=30  Identities=30%  Similarity=0.448  Sum_probs=22.6

Q ss_pred             EEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecC
Q 024705          123 VEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVE  157 (264)
Q Consensus       123 ~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e  157 (264)
                      ++|.|+|||||||++..++..+   |.  -|++.+
T Consensus         4 IvliG~~G~GKSTig~~La~~l---~~--~fiD~D   33 (165)
T d2iyva1           4 AVLVGLPGSGKSTIGRRLAKAL---GV--GLLDTD   33 (165)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHH---TC--CEEEHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHh---CC--CeEeec
Confidence            4466999999999999998765   33  366654

>d1sxjb2 c.37.1.20 (B:7-230) Replication factor C4 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C4
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.75  E-value=0.00038  Score=55.27  Aligned_cols=24  Identities=29%  Similarity=0.210  Sum_probs=21.4

Q ss_pred             EEEEecCCCChHHHHHHHHHHHhh
Q 024705          123 VEIYGREASGKTTLALHVIKEAQK  146 (264)
Q Consensus       123 ~~I~G~~GsGKTtl~~~l~~~~~~  146 (264)
                      ++++||||+||||++..++..+..
T Consensus        39 ~ll~Gp~G~GKTt~a~~la~~l~~   62 (224)
T d1sxjb2          39 MIISGMPGIGKTTSVHCLAHELLG   62 (224)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHHG
T ss_pred             EEEECCCCCCchhhHHHHHHHHhc
Confidence            789999999999999999987653

>d2c78a3 c.37.1.8 (A:9-212) Elongation factor Tu (EF-Tu), N-terminal (G) domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor Tu (EF-Tu), N-terminal (G) domain
species: Thermus thermophilus [TaxId: 274]

Probab=96.73  E-value=0.0019  Score=50.74  Aligned_cols=90  Identities=14%  Similarity=0.045  Sum_probs=51.1

Q ss_pred             EEEEEecCCCChHHHHHHHHHHHhhc--CCeEEEEecCCCCCHHHHHHcCCCcc---------ceeEeCCCCHHHHHHHH
Q 024705          122 IVEIYGREASGKTTLALHVIKEAQKL--GGYCAYLDVENALDPSLAEAMGIDAE---------NLLIAQPDSAENLLSVV  190 (264)
Q Consensus       122 ~~~I~G~~GsGKTtl~~~l~~~~~~~--g~~v~~~~~e~~~~~~~~~~~g~~~~---------~l~~~~~~~~ee~~~~i  190 (264)
                      .++|.|..++|||||+-++.......  .+.+.+.........++.+.+-++..         ++.+.+...-.++...+
T Consensus         5 ni~iiGhvd~GKSTL~~~Ll~~~g~~~~~~~~~~~~~~d~~~eE~~rgiTi~~~~~~~~~~~~~i~iiDtPGh~df~~~~   84 (204)
T d2c78a3           5 NVGTIGHVDHGKTTLTAALTYVAAAENPNVEVKDYGDIDKAPEERARGITINTAHVEYETAKRHYSHVDCPGHADYIKNM   84 (204)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHHHSCTTSCCCCHHHHSCSHHHHHHTCCCSCEEEEEECSSCEEEEEECCCSGGGHHHH
T ss_pred             EEEEEeCCCCcHHHHHHHHHHHhhhccCCcchhhhhhcccchHHhcCCeEEEeeEEEEEeCCeEEEEEeCCCchhhHHHH
Confidence            47899999999999998887654322  12221111111112234443333322         33444444445666666


Q ss_pred             HHHhhcCCccEEEEcCccccc
Q 024705          191 DTLTKSGSIDVIVVDSVAALI  211 (264)
Q Consensus       191 ~~~~~~~~~~~vvIDsl~~~~  211 (264)
                      .+.+......++|||.-.++.
T Consensus        85 ~~~~~~aD~avlVvda~~Gv~  105 (204)
T d2c78a3          85 ITGAAQMDGAILVVSAADGPM  105 (204)
T ss_dssp             HHHHTTCSSEEEEEETTTCCC
T ss_pred             HHHHHHCCEEEEEEECCCCCc
Confidence            555566678899999766554

>d1gsia_ c.37.1.1 (A:) Thymidylate kinase {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=96.70  E-value=0.00094  Score=52.00  Aligned_cols=36  Identities=25%  Similarity=0.317  Sum_probs=31.3

Q ss_pred             EEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecC
Q 024705          122 IVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVE  157 (264)
Q Consensus       122 ~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e  157 (264)
                      +|.|.|..||||||++..+...+...|..|.++...
T Consensus         2 lI~ieG~dGsGKST~~~~L~~~l~~~g~~v~~~~~P   37 (208)
T d1gsia_           2 LIAIEGVDGAGKRTLVEKLSGAFRAAGRSVATLAFP   37 (208)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEESS
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHCCCCEEEEecC
Confidence            588999999999999999998888888888887654

>d2ak3a1 c.37.1.1 (A:0-124,A:162-225) Adenylate kinase {Cow (Bos taurus), mitochondrial izozyme-3 [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Cow (Bos taurus), mitochondrial izozyme-3 [TaxId: 9913]

Probab=96.69  E-value=0.00068  Score=52.62  Aligned_cols=31  Identities=26%  Similarity=0.244  Sum_probs=23.9

Q ss_pred             cEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEec
Q 024705          121 RIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDV  156 (264)
Q Consensus       121 ~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~  156 (264)
                      =-++|.|||||||||++..++...   |  ..+++.
T Consensus         7 mrIiliG~PGSGKtT~a~~La~~~---g--~~~is~   37 (189)
T d2ak3a1           7 LRAAIMGAPGSGKGTVSSRITKHF---E--LKHLSS   37 (189)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHB---C--CEEEEH
T ss_pred             eeEEEECCCCCCHHHHHHHHHHHH---C--CeEEcH
Confidence            346788999999999999988743   3  556665

>d1g6oa_ c.37.1.11 (A:) Hexameric traffic ATPase, HP0525 {Helicobacter pylori [TaxId: 210]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Hexameric traffic ATPase, HP0525
species: Helicobacter pylori [TaxId: 210]

Probab=96.64  E-value=0.0012  Score=55.72  Aligned_cols=84  Identities=13%  Similarity=0.141  Sum_probs=46.8

Q ss_pred             CCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCHHHHHHcCCCccceeEeCCCCHHHHHHHHHHHhhc
Q 024705          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTKS  196 (264)
Q Consensus       117 l~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~~~~~~~g~~~~~l~~~~~~~~ee~~~~i~~~~~~  196 (264)
                      +..+..++|+|++||||||++..++..+ +...+++.+.........    .....-.+......+..++   ++..++ 
T Consensus       163 v~~~~nili~G~tgSGKTT~l~al~~~i-~~~~rivtiEd~~El~l~----~~~~~~~~~~~~~~~~~~l---l~~~lR-  233 (323)
T d1g6oa_         163 IAIGKNVIVCGGTGSGKTTYIKSIMEFI-PKEERIISIEDTEEIVFK----HHKNYTQLFFGGNITSADC---LKSCLR-  233 (323)
T ss_dssp             HHHTCCEEEEESTTSSHHHHHHHHGGGS-CTTCCEEEEESSCCCCCS----SCSSEEEEECBTTBCHHHH---HHHHTT-
T ss_pred             HHhCCCEEEEeeccccchHHHHHHhhhc-ccccceeeccchhhhhcc----cccccceeccccchhHHHH---HHHHhc-
Confidence            3445668999999999999988777544 567777777432221100    0000001111112344444   333332 


Q ss_pred             CCccEEEEcCccc
Q 024705          197 GSIDVIVVDSVAA  209 (264)
Q Consensus       197 ~~~~~vvIDsl~~  209 (264)
                      ..|+.+++..+..
T Consensus       234 ~~pd~iivgEiR~  246 (323)
T d1g6oa_         234 MRPDRIILGELRS  246 (323)
T ss_dssp             SCCSEEEESCCCS
T ss_pred             cCCCcccCCccCc
Confidence            5899999987653

>d2bv3a2 c.37.1.8 (A:7-282) Elongation factor G (EF-G), N-terminal (G) domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor G (EF-G), N-terminal (G) domain
species: Thermus thermophilus [TaxId: 274]

Probab=96.62  E-value=0.0015  Score=53.82  Aligned_cols=113  Identities=18%  Similarity=0.202  Sum_probs=60.0

Q ss_pred             cEEEEEecCCCChHHHHHHHHHHHhhcCC--eE----EEEecCCCCCHHHHHHcCCCc---------cceeEeCCCCHHH
Q 024705          121 RIVEIYGREASGKTTLALHVIKEAQKLGG--YC----AYLDVENALDPSLAEAMGIDA---------ENLLIAQPDSAEN  185 (264)
Q Consensus       121 ~~~~I~G~~GsGKTtl~~~l~~~~~~~g~--~v----~~~~~e~~~~~~~~~~~g~~~---------~~l~~~~~~~~ee  185 (264)
                      +.+.|.|..|+|||||+-.++...-....  ++    ...+.+.   .++.+.+.+..         ..+.+.+...-.+
T Consensus         7 Rni~i~gh~~~GKTtL~e~ll~~~g~~~~~g~v~~~~~~~D~~~---~E~~r~~si~~~~~~~~~~~~~~n~iDtPG~~d   83 (276)
T d2bv3a2           7 RNIGIAAHIDAGKTTTTERILYYTGRIHKIGEVHEGAATMDFME---QERERGITITAAVTTCFWKDHRINIIDAPGHVD   83 (276)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHHHHTSSCC----------------------CCCCCCCSEEEEEETTEEEEEECCCSSSS
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHhcCccccccceecCceEEeccH---HHHhcCCccccceeeeccCCeEEEEecCCchhh
Confidence            36899999999999999999876542111  11    1111111   12222222222         2344444444444


Q ss_pred             HHHHHHHHhhcCCccEEEEcCccccccccccCCCcCCCCcHHHHHHHHHHHHHHHHHHhccCcE-EEEEcccch
Q 024705          186 LLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTL-IIFLNQVKV  258 (264)
Q Consensus       186 ~~~~i~~~~~~~~~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r~i~~~L~~l~~~l~~~g~t-Vi~i~h~~~  258 (264)
                      +...+...+..-...++|||.......               |    +..+.+.+   ++++++ ++++|.+-+
T Consensus        84 F~~e~~~~l~~~D~avlVvda~~Gv~~---------------~----T~~~w~~a---~~~~lP~i~fINKmDr  135 (276)
T d2bv3a2          84 FTIEVERSMRVLDGAIVVFDSSQGVEP---------------Q----SETVWRQA---EKYKVPRIAFANKMDK  135 (276)
T ss_dssp             CSTTHHHHHHHCCEEEEEEETTTSSCH---------------H----HHHHHHHH---HTTTCCEEEEEECTTS
T ss_pred             hHHHHHHHHHhhhheEEeccccCCcch---------------h----HHHHHHHH---HHcCCCEEEEEecccc
Confidence            444444444445778999998887763               1    12344444   777877 446676543

>d2eyqa3 c.37.1.19 (A:546-778) Transcription-repair coupling factor, TRCF {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Transcription-repair coupling factor, TRCF
species: Escherichia coli [TaxId: 562]

Probab=96.61  E-value=0.0044  Score=49.67  Aligned_cols=72  Identities=15%  Similarity=0.039  Sum_probs=48.6

Q ss_pred             CCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCHH----HHHHcCCCccceeEe-CCCCHHHHHHHH
Q 024705          119 KGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPS----LAEAMGIDAENLLIA-QPDSAENLLSVV  190 (264)
Q Consensus       119 ~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~~----~~~~~g~~~~~l~~~-~~~~~ee~~~~i  190 (264)
                      .....+|.|..|||||-.+...+..+...|..++++.-+....+.    ..++++.-..++.+. ...+..+-....
T Consensus        75 ~~~~~LL~GdvGsGKT~V~~~a~~~~~~~g~qv~~l~Pt~~La~Q~~~~~~~~~~~~~~~v~~l~~~~~~~~~~~~~  151 (233)
T d2eyqa3          75 LAMDRLVCGDVGFGKTEVAMRAAFLAVDNHKQVAVLVPTTLLAQQHYDNFRDRFANWPVRIEMISRFRSAKEQTQIL  151 (233)
T ss_dssp             SCCEEEEECCCCTTTHHHHHHHHHHHHTTTCEEEEECSSHHHHHHHHHHHHHHSTTTTCCEEEESTTSCHHHHHHHH
T ss_pred             CccCeEEEcCCCCCcHHHHHHHHHHHHHcCCceEEEccHHHhHHHHHHHHHHHHhhCCCEEEeccCcccchhHHHHH
Confidence            345789999999999999999999999999999998866554431    233444433444443 344444433333

>d1g5ta_ c.37.1.11 (A:) ATP:corrinoid adenosyltransferase CobA {Salmonella typhimurium [TaxId: 90371]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: ATP:corrinoid adenosyltransferase CobA
species: Salmonella typhimurium [TaxId: 90371]

Probab=96.58  E-value=0.0072  Score=45.31  Aligned_cols=93  Identities=19%  Similarity=0.305  Sum_probs=58.5

Q ss_pred             CCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCH----HHHHHcCCCccce---eEeCCCCHH-------
Q 024705          119 KGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP----SLAEAMGIDAENL---LIAQPDSAE-------  184 (264)
Q Consensus       119 ~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~----~~~~~~g~~~~~l---~~~~~~~~e-------  184 (264)
                      +|-+.+.+| +|=||||-|+-++..++..|.+|+++.+--....    ...+..++.....   ......+.+       
T Consensus         2 kG~i~vytG-~GKGKTTAAlG~alRA~G~G~rV~ivQFlKg~~~~ge~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~a~   80 (157)
T d1g5ta_           2 RGIIIVFTG-NGKGKTTAAFGTAARAVGHGKNVGVVQFIKGTWPNGERNLLEPHGVEFQVMATGFTWETQNREADTAACM   80 (157)
T ss_dssp             CCCEEEEES-SSSCHHHHHHHHHHHHHHTTCCEEEEESSCCSSCCHHHHHHGGGTCEEEECCTTCCCCGGGHHHHHHHHH
T ss_pred             CcEEEEEeC-CCCCcHHHHHHHHHHHhcCCCEEEEEEEecCCcccchhhhhcccCcEEEEecCCCcccCCChHHHHHHHH
Confidence            455555554 7999999999999999999999999987654322    2222233322110   011111112       


Q ss_pred             HHHHHHHHHhhcCCccEEEEcCcccccc
Q 024705          185 NLLSVVDTLTKSGSIDVIVVDSVAALIP  212 (264)
Q Consensus       185 e~~~~i~~~~~~~~~~~vvIDsl~~~~~  212 (264)
                      +..+..+..+.++.+++||+|.++....
T Consensus        81 ~~~~~a~~~~~~~~~dllILDEi~~Ai~  108 (157)
T d1g5ta_          81 AVWQHGKRMLADPLLDMVVLDELTYMVA  108 (157)
T ss_dssp             HHHHHHHHHTTCTTCSEEEEETHHHHHH
T ss_pred             HHHHHHHHHhhcCccCEEeHHHHHHHHH
Confidence            2233445556678899999999998773

>d1a1va1 c.37.1.14 (A:190-325) HCV helicase domain {Human hepatitis C virus (HCV), different isolates [TaxId: 11103]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RNA helicase
domain: HCV helicase domain
species: Human hepatitis C virus (HCV), different isolates [TaxId: 11103]

Probab=96.55  E-value=0.0021  Score=46.63  Aligned_cols=35  Identities=17%  Similarity=0.110  Sum_probs=26.2

Q ss_pred             CCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEec
Q 024705          119 KGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDV  156 (264)
Q Consensus       119 ~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~  156 (264)
                      .-+..+|.+|.|+|||+.+..++   ...|.+++++..
T Consensus         7 ~~~~~ll~apTGsGKT~~~~~~~---~~~~~~vli~~P   41 (136)
T d1a1va1           7 SFQVAHLHAPTGSGKSTKVPAAY---AAQGYKVLVLNP   41 (136)
T ss_dssp             SCEEEEEECCTTSCTTTHHHHHH---HTTTCCEEEEES
T ss_pred             CCCEEEEEeCCCCCHHHHHHHHH---HHcCCcEEEEcC
Confidence            34678899999999998765443   356778888764

>d1r6bx3 c.37.1.20 (X:437-751) ClpA, an Hsp100 chaperone, AAA+ modules {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpA, an Hsp100 chaperone, AAA+ modules
species: Escherichia coli [TaxId: 562]

Probab=96.49  E-value=0.002  Score=54.05  Aligned_cols=34  Identities=21%  Similarity=0.177  Sum_probs=26.8

Q ss_pred             CcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEec
Q 024705          120 GRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDV  156 (264)
Q Consensus       120 G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~  156 (264)
                      ...++++||+|+|||.|+..++..+   +.+.+.+++
T Consensus        52 ~~~~lf~Gp~GvGKT~lak~la~~l---~~~~i~~d~   85 (315)
T d1r6bx3          52 VGSFLFAGPTGVGKTEVTVQLSKAL---GIELLRFDM   85 (315)
T ss_dssp             SEEEEEECSTTSSHHHHHHHHHHHH---TCEEEEEEG
T ss_pred             ceEEEEECCCcchhHHHHHHHHhhc---cCCeeEecc
Confidence            3468899999999999999998865   455666654

>d1gkya_ c.37.1.1 (A:) Guanylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.47  E-value=0.00075  Score=52.13  Aligned_cols=23  Identities=30%  Similarity=0.400  Sum_probs=19.9

Q ss_pred             EEEEEecCCCChHHHHHHHHHHH
Q 024705          122 IVEIYGREASGKTTLALHVIKEA  144 (264)
Q Consensus       122 ~~~I~G~~GsGKTtl~~~l~~~~  144 (264)
                      .++|+||+||||||++..++...
T Consensus         3 pIvl~GpsG~GK~tl~~~L~~~~   25 (186)
T d1gkya_           3 PIVISGPSGTGKSTLLKKLFAEY   25 (186)
T ss_dssp             CEEEECCTTSSHHHHHHHHHHHC
T ss_pred             eEEEECCCCCCHHHHHHHHHHhC
Confidence            47899999999999999887653

>d1nija1 c.37.1.10 (A:2-223) Hypothetical protein YjiA, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Hypothetical protein YjiA, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=96.45  E-value=0.0011  Score=52.93  Aligned_cols=35  Identities=31%  Similarity=0.375  Sum_probs=29.2

Q ss_pred             EEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCC
Q 024705          122 IVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVEN  158 (264)
Q Consensus       122 ~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~  158 (264)
                      +++|+|.-|||||||+..++..  ..+.+++++..|.
T Consensus         5 v~iitGFLGaGKTTll~~lL~~--~~~~riaVI~Ne~   39 (222)
T d1nija1           5 VTLLTGFLGAGKTTLLRHILNE--QHGYKIAVIENEF   39 (222)
T ss_dssp             EEEEEESSSSSCHHHHHHHHHS--CCCCCEEEECSSC
T ss_pred             EEEEeeCCCCCHHHHHHHHHhc--CCCCcEEEEEecc
Confidence            6899999999999999988774  4577888887664

>d1lvga_ c.37.1.1 (A:) Guanylate kinase {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=96.44  E-value=0.00085  Score=52.04  Aligned_cols=23  Identities=30%  Similarity=0.429  Sum_probs=20.0

Q ss_pred             EEEEEecCCCChHHHHHHHHHHH
Q 024705          122 IVEIYGREASGKTTLALHVIKEA  144 (264)
Q Consensus       122 ~~~I~G~~GsGKTtl~~~l~~~~  144 (264)
                      .++|+||+||||||++..++...
T Consensus         2 pIvl~GPsGsGK~tl~~~L~~~~   24 (190)
T d1lvga_           2 PVVLSGPSGAGKSTLLKKLFQEH   24 (190)
T ss_dssp             CEEEECCTTSSHHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHhC
Confidence            37899999999999998887764

>d1wb1a4 c.37.1.8 (A:1-179) Elongation factor SelB, N-terminal domain {Methanococcus maripaludis [TaxId: 39152]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor SelB, N-terminal domain
species: Methanococcus maripaludis [TaxId: 39152]

Probab=96.42  E-value=0.002  Score=49.18  Aligned_cols=21  Identities=33%  Similarity=0.469  Sum_probs=18.3

Q ss_pred             EEEEEecCCCChHHHHHHHHH
Q 024705          122 IVEIYGREASGKTTLALHVIK  142 (264)
Q Consensus       122 ~~~I~G~~GsGKTtl~~~l~~  142 (264)
                      .+.|.|++++|||||+..+..
T Consensus         7 nIaiiG~~naGKSTL~n~L~~   27 (179)
T d1wb1a4           7 NLGIFGHIDHGKTTLSKVLTE   27 (179)
T ss_dssp             EEEEEECTTSSHHHHHHHHHT
T ss_pred             EEEEEeCCCCcHHHHHHHHHH
Confidence            388999999999999988763

>d1pjra1 c.37.1.19 (A:1-318) DEXX box DNA helicase {Bacillus stearothermophilus, PcrA [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: DEXX box DNA helicase
species: Bacillus stearothermophilus, PcrA [TaxId: 1422]

Probab=96.35  E-value=0.0017  Score=53.88  Aligned_cols=37  Identities=22%  Similarity=0.082  Sum_probs=27.2

Q ss_pred             EEEEEecCCCChHHHHHHHHHHHhhcC----CeEEEEecCC
Q 024705          122 IVEIYGREASGKTTLALHVIKEAQKLG----GYCAYLDVEN  158 (264)
Q Consensus       122 ~~~I~G~~GsGKTtl~~~l~~~~~~~g----~~v~~~~~e~  158 (264)
                      .++|.|+|||||||.+..-+..+...+    .+++++.+..
T Consensus        26 ~~lV~g~aGSGKTt~l~~ri~~ll~~~~~~p~~il~lt~t~   66 (318)
T d1pjra1          26 PLLIMAGAGSGKTRVLTHRIAYLMAEKHVAPWNILAITFTN   66 (318)
T ss_dssp             CEEEEECTTSCHHHHHHHHHHHHHHTTCCCGGGEEEEESSH
T ss_pred             CEEEEecCCccHHHHHHHHHHHHHHcCCCCHHHeEeEeccH
Confidence            377889999999998877666555433    4688887654

>d1kgda_ c.37.1.1 (A:) Guanylate kinase-like domain of Cask {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase-like domain of Cask
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.31  E-value=0.0013  Score=50.62  Aligned_cols=24  Identities=13%  Similarity=0.344  Sum_probs=20.5

Q ss_pred             CcEEEEEecCCCChHHHHHHHHHH
Q 024705          120 GRIVEIYGREASGKTTLALHVIKE  143 (264)
Q Consensus       120 G~~~~I~G~~GsGKTtl~~~l~~~  143 (264)
                      ..+++|.||+|+||||++..++..
T Consensus         3 ~k~ivl~Gpsg~GK~tl~~~L~~~   26 (178)
T d1kgda_           3 RKTLVLLGAHGVGRRHIKNTLITK   26 (178)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCcEEEECCCCCCHHHHHHHHHHh
Confidence            357999999999999999887754

>d1um8a_ c.37.1.20 (A:) ClpX {Helicobacter pylori [TaxId: 210]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpX
species: Helicobacter pylori [TaxId: 210]

Probab=96.30  E-value=0.0073  Score=51.58  Aligned_cols=80  Identities=19%  Similarity=0.250  Sum_probs=42.2

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCCHHHHHHcCCCccceeEeCCCCHHHHHHHHHH---
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDT---  192 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~~~~~~~~g~~~~~l~~~~~~~~ee~~~~i~~---  192 (264)
                      ..+++. +++.||+|+|||-++..++..+   +.+.+-++...-...      |+.-       .+....+...+..   
T Consensus        65 ~~p~~n-iLfiGPTGvGKTElAk~LA~~~---~~~~ir~D~s~~~e~------gyvg-------~dv~~~i~~l~~~~~~  127 (364)
T d1um8a_          65 ELSKSN-ILLIGPTGSGKTLMAQTLAKHL---DIPIAISDATSLTEA------GYVG-------EDVENILTRLLQASDW  127 (364)
T ss_dssp             TCCCCC-EEEECCTTSSHHHHHHHHHHHT---TCCEEEEEGGGCC---------------------CTHHHHHHHHHTTT
T ss_pred             cCCCcc-eeeeCCCCccHHHHHHHHHhhc---ccceeehhhhhcccc------hhhH-------hhhccchhhhhhhchh
Confidence            456665 6688999999999999998753   444444443221111      1111       1111112222211   


Q ss_pred             HhhcCCccEEEEcCcccccc
Q 024705          193 LTKSGSIDVIVVDSVAALIP  212 (264)
Q Consensus       193 ~~~~~~~~~vvIDsl~~~~~  212 (264)
                      .+...+..+|++|.+....+
T Consensus       128 ~v~~~~~~iv~lDEieK~~~  147 (364)
T d1um8a_         128 NVQKAQKGIVFIDEIDKISR  147 (364)
T ss_dssp             CHHHHTTSEEEEETGGGC--
T ss_pred             HHHHhhcccchhhhhhhhcc
Confidence            13334667899999888764

>d1u0la2 c.37.1.8 (A:69-293) Probable GTPase EngC (YjeQ), C-terminal domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngC (YjeQ), C-terminal domain
species: Thermotoga maritima [TaxId: 2336]

Probab=96.29  E-value=0.0015  Score=52.23  Aligned_cols=35  Identities=26%  Similarity=0.321  Sum_probs=28.3

Q ss_pred             ccCcHHHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHH
Q 024705          102 STGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIK  142 (264)
Q Consensus       102 ~tG~~~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~  142 (264)
                      ..|++.|-..+.      |..+++.|+||+|||||...+..
T Consensus        83 ~~g~~~L~~~l~------~kt~~~~G~SGVGKSTLiN~L~~  117 (225)
T d1u0la2          83 GMGIEELKEYLK------GKISTMAGLSGVGKSSLLNAINP  117 (225)
T ss_dssp             CTTHHHHHHHHS------SSEEEEECSTTSSHHHHHHHHST
T ss_pred             chhHhhHHHHhc------CCeEEEECCCCCCHHHHHHhhcc
Confidence            356777777775      67899999999999999887754

>d1e9ra_ c.37.1.11 (A:) Bacterial conjugative coupling protein TrwB {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Bacterial conjugative coupling protein TrwB
species: Escherichia coli [TaxId: 562]

Probab=96.29  E-value=0.002  Score=55.85  Aligned_cols=38  Identities=18%  Similarity=0.232  Sum_probs=33.0

Q ss_pred             cEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCC
Q 024705          121 RIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVEN  158 (264)
Q Consensus       121 ~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~  158 (264)
                      .-++|.|++|+|||+++..++.++...|..++++|...
T Consensus        51 ~H~~I~G~tGsGKT~~l~~li~~~~~~g~~~iiiD~kg   88 (433)
T d1e9ra_          51 RHLLVNGATGTGKSVLLRELAYTGLLRGDRMVIVDPNG   88 (433)
T ss_dssp             GCEEEEECTTSSHHHHHHHHHHHHHHTTCEEEEEEETT
T ss_pred             ceEEEEeCCCCcHHHHHHHHHHHHHhCCCCEEEEeCCh
Confidence            34899999999999999999999888899998888643

>d1htwa_ c.37.1.18 (A:) Hypothetical protein HI0065 {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: YjeE-like
domain: Hypothetical protein HI0065
species: Haemophilus influenzae [TaxId: 727]

Probab=96.26  E-value=0.0013  Score=49.57  Aligned_cols=29  Identities=28%  Similarity=0.327  Sum_probs=26.3

Q ss_pred             CCCCcEEEEEecCCCChHHHHHHHHHHHh
Q 024705          117 LPKGRIVEIYGREASGKTTLALHVIKEAQ  145 (264)
Q Consensus       117 l~~G~~~~I~G~~GsGKTtl~~~l~~~~~  145 (264)
                      .++|.++.+.|+=|+|||||+..++..+.
T Consensus        30 ~~~g~ii~L~G~LGaGKTtfvr~~~~~lg   58 (158)
T d1htwa_          30 TEKAIMVYLNGDLGAGKTTLTRGMLQGIG   58 (158)
T ss_dssp             CSSCEEEEEECSTTSSHHHHHHHHHHHTT
T ss_pred             CCCCeEEEEecCCCccHHHHHHHHHhhcc
Confidence            46899999999999999999999998764

>d1r8sa_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARF1 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARF1 [TaxId: 9606]

Probab=96.23  E-value=0.0013  Score=48.44  Aligned_cols=21  Identities=29%  Similarity=0.415  Sum_probs=18.9

Q ss_pred             EEEEecCCCChHHHHHHHHHH
Q 024705          123 VEIYGREASGKTTLALHVIKE  143 (264)
Q Consensus       123 ~~I~G~~GsGKTtl~~~l~~~  143 (264)
                      ++|.|++|+|||||+..+..+
T Consensus         3 ivlvG~~~vGKSsLi~~l~~~   23 (160)
T d1r8sa_           3 ILMVGLDAAGKTTILYKLKLG   23 (160)
T ss_dssp             EEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHhcC
Confidence            679999999999999998765

>d1uaaa1 c.37.1.19 (A:2-307) DEXX box DNA helicase {Escherichia coli, RepD [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: DEXX box DNA helicase
species: Escherichia coli, RepD [TaxId: 562]

Probab=96.19  E-value=0.0017  Score=53.28  Aligned_cols=37  Identities=19%  Similarity=0.114  Sum_probs=27.0

Q ss_pred             EEEEEecCCCChHHHHHHHHHHHhhc----CCeEEEEecCC
Q 024705          122 IVEIYGREASGKTTLALHVIKEAQKL----GGYCAYLDVEN  158 (264)
Q Consensus       122 ~~~I~G~~GsGKTtl~~~l~~~~~~~----g~~v~~~~~e~  158 (264)
                      ..+|.|+|||||||.+..-+..+...    ..+++++++..
T Consensus        16 ~~lI~g~aGTGKTt~l~~rv~~ll~~~~~~~~~ILvlt~tn   56 (306)
T d1uaaa1          16 PCLVLAGAGSGKTRVITNKIAHLIRGCGYQARHIAAVTFTN   56 (306)
T ss_dssp             EEEECCCTTSCHHHHHHHHHHHHHHHHCCCGGGEEEEESSH
T ss_pred             CEEEEeeCCccHHHHHHHHHHHHHHhcCCChhHEEEEeCcH
Confidence            36788999999999887766555432    24788888653

>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=96.13  E-value=0.0014  Score=50.40  Aligned_cols=20  Identities=40%  Similarity=0.494  Sum_probs=17.2

Q ss_pred             cEEEEEecCCCChHHHHHHH
Q 024705          121 RIVEIYGREASGKTTLALHV  140 (264)
Q Consensus       121 ~~~~I~G~~GsGKTtl~~~l  140 (264)
                      -+++|+|++||||||++..+
T Consensus         4 ~IIgitG~~gSGKstva~~l   23 (191)
T d1uf9a_           4 IIIGITGNIGSGKSTVAALL   23 (191)
T ss_dssp             EEEEEEECTTSCHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHH
Confidence            36889999999999988765

>d2dy1a2 c.37.1.8 (A:8-274) Elongation factor G (EF-G), N-terminal (G) domain {Thermus thermophilus, EF-G-2 [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor G (EF-G), N-terminal (G) domain
species: Thermus thermophilus, EF-G-2 [TaxId: 274]

Probab=96.05  E-value=0.0067  Score=49.56  Aligned_cols=89  Identities=12%  Similarity=0.197  Sum_probs=50.5

Q ss_pred             EEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCC---CCCH-HHHHHcCCCcc---------ceeEeCCCCHHHHHH
Q 024705          122 IVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVEN---ALDP-SLAEAMGIDAE---------NLLIAQPDSAENLLS  188 (264)
Q Consensus       122 ~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~---~~~~-~~~~~~g~~~~---------~l~~~~~~~~ee~~~  188 (264)
                      .+.|.|..|+|||||+-+++...-.....- -+....   ...+ ++.+.+.+...         .+.+.+.+.-.++..
T Consensus         4 Nv~iiGh~~~GKTtL~e~ll~~~g~~~~~g-~v~~g~~~~D~~~~E~~r~~ti~~~~~~~~~~~~~~n~iDtPGh~dF~~   82 (267)
T d2dy1a2           4 TVALVGHAGSGKTTLTEALLYKTGAKERRG-RVEEGTTTTDYTPEAKLHRTTVRTGVAPLLFRGHRVFLLDAPGYGDFVG   82 (267)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHTTSSSSCC-CGGGTCCSSCCSHHHHHTTSCCSCEEEEEEETTEEEEEEECCCSGGGHH
T ss_pred             EEEEEcCCCCcHHHHHHHHHHHcCCchhhc-cchhccccccchHHHHHhCCeEEeecccccccccceeEEccCchhhhhh
Confidence            578999999999999998876542111100 000000   1111 33333333321         344555555556666


Q ss_pred             HHHHHhhcCCccEEEEcCccccc
Q 024705          189 VVDTLTKSGSIDVIVVDSVAALI  211 (264)
Q Consensus       189 ~i~~~~~~~~~~~vvIDsl~~~~  211 (264)
                      .+...+......++|||......
T Consensus        83 e~~~al~~~D~avlvvda~~Gv~  105 (267)
T d2dy1a2          83 EIRGALEAADAALVAVSAEAGVQ  105 (267)
T ss_dssp             HHHHHHHHCSEEEEEEETTTCSC
T ss_pred             hhhhhhcccCceEEEeeccCCcc
Confidence            55555555678899999877665

>d1tuea_ c.37.1.20 (A:) Replication protein E1 helicase domain {Human papillomavirus type 18 [TaxId: 333761]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication protein E1 helicase domain
species: Human papillomavirus type 18 [TaxId: 333761]

Probab=96.00  E-value=0.0025  Score=49.89  Aligned_cols=60  Identities=18%  Similarity=0.208  Sum_probs=42.0

Q ss_pred             CCccccccccccCCCCCCccccCcHHHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHH
Q 024705           82 GKESMLSLKRFFGSRRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEA  144 (264)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~i~tG~~~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~  144 (264)
                      +.+.+-.+..+.+-...+.++- +..|-.++.  |.|+-..++|+|||++|||+|+..++..+
T Consensus        18 ~~g~w~~I~~~l~~q~i~~~~F-l~~l~~~l~--~~PKkn~i~~~GP~~TGKS~f~~sl~~~l   77 (205)
T d1tuea_          18 EGGDWRPIVQFLRYQQIEFITF-LGALKSFLK--GTPKKNCLVFCGPANTGKSYFGMSFIHFI   77 (205)
T ss_dssp             SCCCSHHHHHHHHHTTCCHHHH-HHHHHHHHH--TCTTCSEEEEESCGGGCHHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHhcCccHHHH-HHHHHHHHc--CCCCceEEEEECCCCccHHHHHHHHHHHh
Confidence            3344433433333344555543 466767786  78999999999999999999999988765

>d1gkub1 c.37.1.16 (B:1-250) Helicase-like "domain" of reverse gyrase {Archaeon Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Helicase-like "domain" of reverse gyrase
domain: Helicase-like "domain" of reverse gyrase
species: Archaeon Archaeoglobus fulgidus [TaxId: 2234]

Probab=95.96  E-value=0.0021  Score=51.26  Aligned_cols=43  Identities=16%  Similarity=0.074  Sum_probs=34.0

Q ss_pred             HHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEec
Q 024705          108 LDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDV  156 (264)
Q Consensus       108 LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~  156 (264)
                      ++.++.      |+.+++.+|+|+|||+.+...+......|.+++|+.-
T Consensus        52 i~~~l~------g~~~~i~apTGsGKT~~~~~~~~~~~~~~~rvliv~P   94 (237)
T d1gkub1          52 AKRILR------KESFAATAPTGVGKTSFGLAMSLFLALKGKRCYVIFP   94 (237)
T ss_dssp             HHHHHT------TCCEECCCCBTSCSHHHHHHHHHHHHTTSCCEEEEES
T ss_pred             HHHHHC------CCCEEEEecCCChHHHHHHHHHHHHHHhcCeEEEEec
Confidence            556664      6778899999999999877777666677888998873

>d1kkma_ c.91.1.2 (A:) HPr kinase HprK C-terminal domain {Lactobacillus casei [TaxId: 1582]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: HPr kinase HprK C-terminal domain
domain: HPr kinase HprK C-terminal domain
species: Lactobacillus casei [TaxId: 1582]

Probab=95.84  E-value=0.0026  Score=48.75  Aligned_cols=23  Identities=35%  Similarity=0.460  Sum_probs=19.9

Q ss_pred             CcEEEEEecCCCChHHHHHHHHH
Q 024705          120 GRIVEIYGREASGKTTLALHVIK  142 (264)
Q Consensus       120 G~~~~I~G~~GsGKTtl~~~l~~  142 (264)
                      |.-++|.|++|+||||+++.++.
T Consensus        14 g~gvl~~G~sG~GKStlal~l~~   36 (176)
T d1kkma_          14 GLGVLITGDSGVGKSETALELVQ   36 (176)
T ss_dssp             TEEEEEECCTTSCHHHHHHHHHH
T ss_pred             CEEEEEEeCCCCCHHHHHHHHHH
Confidence            56699999999999999987664

>d1knxa2 c.91.1.2 (A:133-309) HPr kinase HprK C-terminal domain {Mycoplasma pneumoniae [TaxId: 2104]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: HPr kinase HprK C-terminal domain
domain: HPr kinase HprK C-terminal domain
species: Mycoplasma pneumoniae [TaxId: 2104]

Probab=95.84  E-value=0.0026  Score=48.83  Aligned_cols=24  Identities=38%  Similarity=0.440  Sum_probs=20.5

Q ss_pred             CCcEEEEEecCCCChHHHHHHHHH
Q 024705          119 KGRIVEIYGREASGKTTLALHVIK  142 (264)
Q Consensus       119 ~G~~~~I~G~~GsGKTtl~~~l~~  142 (264)
                      .|.-++|.|++|+||||+++.++.
T Consensus        14 ~g~gvli~G~sG~GKS~lal~l~~   37 (177)
T d1knxa2          14 FGVGVLLTGRSGIGKSECALDLIN   37 (177)
T ss_dssp             TTEEEEEEESSSSSHHHHHHHHHT
T ss_pred             CCEEEEEEcCCCCCHHHHHHHHHH
Confidence            356699999999999999988764

>d1ofux_ c.37.1.22 (X:) Hypothetical protein PA3008 {Pseudomonas aeruginosa [TaxId: 287]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Bacterial cell division inhibitor SulA
domain: Hypothetical protein PA3008
species: Pseudomonas aeruginosa [TaxId: 287]

Probab=95.79  E-value=0.18  Score=35.49  Aligned_cols=110  Identities=13%  Similarity=0.133  Sum_probs=79.5

Q ss_pred             EEEEEecCC-CChHHHHHHHHHHHhhc--CCeEEEEecCCCCCHHHHHHcCCCccceeEeCCCCHHHHHHHHHHHhhcCC
Q 024705          122 IVEIYGREA-SGKTTLALHVIKEAQKL--GGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTKSGS  198 (264)
Q Consensus       122 ~~~I~G~~G-sGKTtl~~~l~~~~~~~--g~~v~~~~~e~~~~~~~~~~~g~~~~~l~~~~~~~~ee~~~~i~~~~~~~~  198 (264)
                      ++++.++.. .|=..|+.-+...+...  +..+++|+-............|++++++.+++..+..+....+++.++.+.
T Consensus         4 ~~el~~~~~~~~~l~LL~P~L~~l~~~~~~rwi~wI~Pp~~p~a~~L~~~Gi~~~rll~v~~~~~~d~lwa~EqaL~sg~   83 (119)
T d1ofux_           4 FSELSLSGLPGHCLTLLAPILRELSEEQDARWLTLIAPPASLTHEWLRRAGLNRERILLLQAKDNAAALALSCEALRLGR   83 (119)
T ss_dssp             EEEEEEESCHHHHHHHHHHHHHHHTTCSSSSEEEEESCCTTSCHHHHHHTTCCTTSEEEECCSSHHHHHHHHHHHHHHTC
T ss_pred             cceecccCCcHHHHHHHHHHHHHHHhcCCCcEEEEEcCCCccCHHHHHHcCCCCCeEEEEeCCChHHHHHHHHHHHhcCC
Confidence            455555544 44455666666656533  457999998777777777889999999999999999999999999999888


Q ss_pred             ccEEEEcCccccccccccCCCcCCCCcHHHHHHHHHHHHHHHHHHhccCcEEEEE
Q 024705          199 IDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFL  253 (264)
Q Consensus       199 ~~~vvIDsl~~~~~~~~~~~~~~~~~~~~q~r~i~~~L~~l~~~l~~~g~tVi~i  253 (264)
                      +..|+... ..+.                     ...++++...+++.+++.+++
T Consensus        84 ~~aVl~w~-~~l~---------------------~~~~RRLqlAA~~g~t~~~ll  116 (119)
T d1ofux_          84 SHTVVSWL-EPLS---------------------RAARKQLSRAAQLGQAQSLNI  116 (119)
T ss_dssp             EEEEEECC-SSCC---------------------HHHHHHHHHHHHHHTCEEEEE
T ss_pred             ccEEEEcC-CCCC---------------------hHHHHHHHHHHHhcCCEEEEE
Confidence            88888652 1111                     134566666667778888775

>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=95.78  E-value=0.0028  Score=48.73  Aligned_cols=20  Identities=25%  Similarity=0.522  Sum_probs=18.4

Q ss_pred             EEEEecCCCChHHHHHHHHH
Q 024705          123 VEIYGREASGKTTLALHVIK  142 (264)
Q Consensus       123 ~~I~G~~GsGKTtl~~~l~~  142 (264)
                      ++|.|+||+|||||...+..
T Consensus        26 I~lvG~~n~GKSTLin~L~g   45 (195)
T d1svia_          26 IALAGRSNVGKSSFINSLIN   45 (195)
T ss_dssp             EEEEEBTTSSHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHhcC
Confidence            99999999999999988864

>d1tmka_ c.37.1.1 (A:) Thymidylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=95.77  E-value=0.0029  Score=49.90  Aligned_cols=27  Identities=33%  Similarity=0.493  Sum_probs=23.9

Q ss_pred             CCcEEEEEecCCCChHHHHHHHHHHHh
Q 024705          119 KGRIVEIYGREASGKTTLALHVIKEAQ  145 (264)
Q Consensus       119 ~G~~~~I~G~~GsGKTtl~~~l~~~~~  145 (264)
                      +|.++.|-|+-||||||++..++..+.
T Consensus         2 kGk~I~iEG~DGsGKST~~~~L~~~L~   28 (214)
T d1tmka_           2 RGKLILIEGLDRTGKTTQCNILYKKLQ   28 (214)
T ss_dssp             CCCEEEEEESTTSSHHHHHHHHHHHTT
T ss_pred             CeEEEEEECCCCCcHHHHHHHHHHHHH
Confidence            789999999999999999988877654

>d2gjsa1 c.37.1.8 (A:91-258) Rad {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rad
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.76  E-value=0.009  Score=44.67  Aligned_cols=20  Identities=30%  Similarity=0.282  Sum_probs=17.7

Q ss_pred             EEEEecCCCChHHHHHHHHH
Q 024705          123 VEIYGREASGKTTLALHVIK  142 (264)
Q Consensus       123 ~~I~G~~GsGKTtl~~~l~~  142 (264)
                      +++.|++|+|||+|+..+..
T Consensus         4 i~lvG~~~vGKTsLi~~~~~   23 (168)
T d2gjsa1           4 VLLLGAPGVGKSALARIFGG   23 (168)
T ss_dssp             EEEECCTTSSHHHHHHHHHT
T ss_pred             EEEECCCCcCHHHHHHHHhC
Confidence            67899999999999988764

>d1w1wa_ c.37.1.12 (A:) Smc head domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Smc head domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=95.76  E-value=0.003  Score=54.11  Aligned_cols=24  Identities=21%  Similarity=0.318  Sum_probs=20.3

Q ss_pred             CCcEEEEEecCCCChHHHHHHHHH
Q 024705          119 KGRIVEIYGREASGKTTLALHVIK  142 (264)
Q Consensus       119 ~G~~~~I~G~~GsGKTtl~~~l~~  142 (264)
                      .+.+++|+||||||||+++-.+..
T Consensus        24 ~~~l~~i~G~NGsGKS~ileAi~~   47 (427)
T d1w1wa_          24 ESNFTSIIGPNGSGKSNMMDAISF   47 (427)
T ss_dssp             TCSEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHH
Confidence            355899999999999999887754

>d1w36d1 c.37.1.19 (D:2-360) Exodeoxyribonuclease V alpha chain (RecD) {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Exodeoxyribonuclease V alpha chain (RecD)
species: Escherichia coli [TaxId: 562]

Probab=95.75  E-value=0.0055  Score=52.31  Aligned_cols=36  Identities=22%  Similarity=0.176  Sum_probs=27.3

Q ss_pred             CcEEEEEecCCCChHHHHHHHHHHHhh----cCCeEEEEe
Q 024705          120 GRIVEIYGREASGKTTLALHVIKEAQK----LGGYCAYLD  155 (264)
Q Consensus       120 G~~~~I~G~~GsGKTtl~~~l~~~~~~----~g~~v~~~~  155 (264)
                      +.+++|.||||+||||++..++..+..    .+.+++...
T Consensus       163 ~~~~vI~G~pGTGKTt~i~~~l~~l~~~~~~~~~~I~l~A  202 (359)
T d1w36d1         163 RRISVISGGPGTGKTTTVAKLLAALIQMADGERCRIRLAA  202 (359)
T ss_dssp             BSEEEEECCTTSTHHHHHHHHHHHHHHTCSSCCCCEEEEB
T ss_pred             CCeEEEEcCCCCCceehHHHHHHHHHHHHhccCCeEEEec
Confidence            679999999999999998877666543    344566555

>d2qtvb1 c.37.1.8 (B:24-189) SAR1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: SAR1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=95.71  E-value=0.0028  Score=46.41  Aligned_cols=21  Identities=29%  Similarity=0.406  Sum_probs=18.5

Q ss_pred             EEEEecCCCChHHHHHHHHHH
Q 024705          123 VEIYGREASGKTTLALHVIKE  143 (264)
Q Consensus       123 ~~I~G~~GsGKTtl~~~l~~~  143 (264)
                      +++.|+||+|||||+..+...
T Consensus         3 I~liG~~nvGKSSLln~l~~~   23 (166)
T d2qtvb1           3 LLFLGLDNAGKTTLLHMLKND   23 (166)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            579999999999999988763

>d1qhla_ c.37.1.12 (A:) Cell division protein MukB {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Cell division protein MukB
species: Escherichia coli [TaxId: 562]

Probab=95.66  E-value=0.00039  Score=53.19  Aligned_cols=23  Identities=17%  Similarity=0.348  Sum_probs=19.7

Q ss_pred             EEEEEecCCCChHHHHHHHHHHH
Q 024705          122 IVEIYGREASGKTTLALHVIKEA  144 (264)
Q Consensus       122 ~~~I~G~~GsGKTtl~~~l~~~~  144 (264)
                      +++|+|||||||||++-.+...+
T Consensus        26 ~tvi~G~NGsGKStil~Ai~~~L   48 (222)
T d1qhla_          26 VTTLSGGNGAGKSTTMAAFVTAL   48 (222)
T ss_dssp             HHHHHSCCSHHHHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHHh
Confidence            57799999999999988887655

>d1ko7a2 c.91.1.2 (A:130-298) HPr kinase HprK C-terminal domain {Staphylococcus xylosus [TaxId: 1288]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: HPr kinase HprK C-terminal domain
domain: HPr kinase HprK C-terminal domain
species: Staphylococcus xylosus [TaxId: 1288]

Probab=95.65  E-value=0.0036  Score=47.67  Aligned_cols=25  Identities=40%  Similarity=0.428  Sum_probs=20.8

Q ss_pred             CCcEEEEEecCCCChHHHHHHHHHH
Q 024705          119 KGRIVEIYGREASGKTTLALHVIKE  143 (264)
Q Consensus       119 ~G~~~~I~G~~GsGKTtl~~~l~~~  143 (264)
                      .|.-++|.|++|+||||+++.++..
T Consensus        14 ~g~gvli~G~sg~GKS~la~~l~~~   38 (169)
T d1ko7a2          14 YGVGVLITGDSGIGKSETALELIKR   38 (169)
T ss_dssp             TTEEEEEEESTTSSHHHHHHHHHHT
T ss_pred             CCEEEEEEeCCCCCHHHHHHHHHHc
Confidence            3566999999999999999887653

>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=95.64  E-value=0.0031  Score=46.56  Aligned_cols=21  Identities=29%  Similarity=0.436  Sum_probs=18.8

Q ss_pred             EEEEecCCCChHHHHHHHHHH
Q 024705          123 VEIYGREASGKTTLALHVIKE  143 (264)
Q Consensus       123 ~~I~G~~GsGKTtl~~~l~~~  143 (264)
                      ++|+|++|+|||||+..+...
T Consensus         8 I~ivG~~~vGKSSLi~~~~~~   28 (169)
T d1upta_           8 ILILGLDGAGKTTILYRLQVG   28 (169)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            789999999999999988764

>d2p6ra3 c.37.1.19 (A:1-202) Hel308 helicase {Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Hel308 helicase
species: Archaeoglobus fulgidus [TaxId: 2234]

Probab=95.60  E-value=0.0027  Score=49.35  Aligned_cols=45  Identities=22%  Similarity=0.238  Sum_probs=32.1

Q ss_pred             HHHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEec
Q 024705          106 LKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDV  156 (264)
Q Consensus       106 ~~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~  156 (264)
                      ..++.++.      |..+++.+|+|+|||+.+...+......+++++|+.-
T Consensus        32 ~ai~~l~~------~~~~il~apTGsGKT~~a~l~i~~~~~~~~~vl~l~P   76 (202)
T d2p6ra3          32 EAVEKVFS------GKNLLLAMPTAAGKTLLAEMAMVREAIKGGKSLYVVP   76 (202)
T ss_dssp             HHHHHHTT------CSCEEEECSSHHHHHHHHHHHHHHHHHTTCCEEEEES
T ss_pred             HHHHHHHc------CCCEEEEcCCCCchhHHHHHHHHHHhhccCcceeecc
Confidence            44666665      3457899999999999775555555566778888863

>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=95.54  E-value=0.0029  Score=47.50  Aligned_cols=25  Identities=28%  Similarity=0.292  Sum_probs=20.3

Q ss_pred             CCCcEEEEEecCCCChHHHHHHHHH
Q 024705          118 PKGRIVEIYGREASGKTTLALHVIK  142 (264)
Q Consensus       118 ~~G~~~~I~G~~GsGKTtl~~~l~~  142 (264)
                      .+.--++|.|++|+|||||+..+..
T Consensus        11 ~k~~kI~lvG~~~vGKTsLl~~l~~   35 (186)
T d1f6ba_          11 KKTGKLVFLGLDNAGKTTLLHMLKD   35 (186)
T ss_dssp             TCCEEEEEEEETTSSHHHHHHHHSC
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhC
Confidence            3445588999999999999988754

>d1e69a_ c.37.1.12 (A:) Smc head domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Smc head domain
species: Thermotoga maritima [TaxId: 2336]

Probab=95.43  E-value=0.0034  Score=51.63  Aligned_cols=22  Identities=27%  Similarity=0.403  Sum_probs=18.7

Q ss_pred             cEEEEEecCCCChHHHHHHHHH
Q 024705          121 RIVEIYGREASGKTTLALHVIK  142 (264)
Q Consensus       121 ~~~~I~G~~GsGKTtl~~~l~~  142 (264)
                      .+++|+||||||||+++.++..
T Consensus        25 ~lnvlvG~NgsGKS~iL~Ai~~   46 (308)
T d1e69a_          25 RVTAIVGPNGSGKSNIIDAIKW   46 (308)
T ss_dssp             SEEEEECCTTTCSTHHHHHHHH
T ss_pred             CeEEEECCCCCcHHHHHHHHHH
Confidence            3899999999999999766644

>d1g41a_ c.37.1.20 (A:) HslU {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: HslU
species: Haemophilus influenzae [TaxId: 727]

Probab=95.42  E-value=0.0035  Score=55.08  Aligned_cols=33  Identities=21%  Similarity=0.241  Sum_probs=25.3

Q ss_pred             CcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEe
Q 024705          120 GRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLD  155 (264)
Q Consensus       120 G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~  155 (264)
                      .+.+++.||+|||||.+|..++..+   +-+.+..+
T Consensus        49 ksNILliGPTGvGKTlLAr~LAk~l---~VPFv~~d   81 (443)
T d1g41a_          49 PKNILMIGPTGVGKTEIARRLAKLA---NAPFIKVE   81 (443)
T ss_dssp             CCCEEEECCTTSSHHHHHHHHHHHT---TCCEEEEE
T ss_pred             cccEEEECCCCCCHHHHHHHHHHHh---CCCEEEee
Confidence            3479999999999999999998754   44444443

>d1gm5a3 c.37.1.19 (A:286-549) RecG helicase domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: RecG helicase domain
species: Thermotoga maritima [TaxId: 2336]

Probab=95.37  E-value=0.018  Score=46.77  Aligned_cols=41  Identities=24%  Similarity=0.190  Sum_probs=34.8

Q ss_pred             cEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCCCC
Q 024705          121 RIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALD  161 (264)
Q Consensus       121 ~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~~~  161 (264)
                      ...+|.|..|||||-.+...+..+...|..++++.-++...
T Consensus       105 m~rLL~GdvGSGKT~Va~~a~~~~~~~g~q~~~m~Pt~~La  145 (264)
T d1gm5a3         105 MNRLLQGDVGSGKTVVAQLAILDNYEAGFQTAFMVPTSILA  145 (264)
T ss_dssp             CCCEEECCSSSSHHHHHHHHHHHHHHHTSCEEEECSCHHHH
T ss_pred             ceeeeeccccccccHHHHHHHHHHHhcccceeEEeehHhhh
Confidence            35789999999999999999999999999999987555433

>d1zj6a1 c.37.1.8 (A:2-178) ADP-ribosylation factor {Human (Homo sapiens), ARL5A [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL5A [TaxId: 9606]

Probab=95.35  E-value=0.0043  Score=46.51  Aligned_cols=22  Identities=32%  Similarity=0.372  Sum_probs=19.2

Q ss_pred             cEEEEEecCCCChHHHHHHHHH
Q 024705          121 RIVEIYGREASGKTTLALHVIK  142 (264)
Q Consensus       121 ~~~~I~G~~GsGKTtl~~~l~~  142 (264)
                      --+++.|.+|+|||||+.++..
T Consensus        16 ~kI~vvG~~~~GKSsLi~rl~~   37 (177)
T d1zj6a1          16 HKVIIVGLDNAGKTTILYQFSM   37 (177)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHT
T ss_pred             EEEEEECCCCCCHHHHHHHHhc
Confidence            3488999999999999988865

>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=95.28  E-value=0.0031  Score=48.48  Aligned_cols=25  Identities=40%  Similarity=0.260  Sum_probs=21.0

Q ss_pred             CCcEEEEEecCCCChHHHHHHHHHH
Q 024705          119 KGRIVEIYGREASGKTTLALHVIKE  143 (264)
Q Consensus       119 ~G~~~~I~G~~GsGKTtl~~~l~~~  143 (264)
                      ++-+++|.|+.||||||++..++..
T Consensus         8 kp~~I~ieG~~GsGKTTl~~~L~~~   32 (197)
T d2vp4a1           8 QPFTVLIEGNIGSGKTTYLNHFEKY   32 (197)
T ss_dssp             CCEEEEEECSTTSCHHHHHHTTGGG
T ss_pred             CceEEEEECCCCCCHHHHHHHHHHH
Confidence            4458999999999999998887653

>d1jjva_ c.37.1.1 (A:) Dephospho-CoA kinase {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Dephospho-CoA kinase
species: Haemophilus influenzae [TaxId: 727]

Probab=95.26  E-value=0.0047  Score=48.17  Aligned_cols=19  Identities=47%  Similarity=0.497  Sum_probs=16.3

Q ss_pred             EEEEEecCCCChHHHHHHH
Q 024705          122 IVEIYGREASGKTTLALHV  140 (264)
Q Consensus       122 ~~~I~G~~GsGKTtl~~~l  140 (264)
                      +++|+|+.||||||++..+
T Consensus         4 iIgITG~igSGKStv~~~l   22 (205)
T d1jjva_           4 IVGLTGGIGSGKTTIANLF   22 (205)
T ss_dssp             EEEEECSTTSCHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            6789999999999977654

>d2fh5b1 c.37.1.8 (B:63-269) Signal recognition particle receptor beta-subunit {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Signal recognition particle receptor beta-subunit
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=95.23  E-value=0.0056  Score=47.44  Aligned_cols=22  Identities=32%  Similarity=0.335  Sum_probs=19.5

Q ss_pred             EEEEEecCCCChHHHHHHHHHH
Q 024705          122 IVEIYGREASGKTTLALHVIKE  143 (264)
Q Consensus       122 ~~~I~G~~GsGKTtl~~~l~~~  143 (264)
                      .|+|.|++|+|||||+..+...
T Consensus         2 ~V~ivG~~~~GKTsLl~~l~~~   23 (207)
T d2fh5b1           2 AVLFVGLCDSGKTLLFVRLLTG   23 (207)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHcC
Confidence            5899999999999999988763

>d1mkya1 c.37.1.8 (A:2-172) Probable GTPase Der, N-terminal and middle domains {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase Der, N-terminal and middle domains
species: Thermotoga maritima [TaxId: 2336]

Probab=95.22  E-value=0.0048  Score=46.27  Aligned_cols=21  Identities=43%  Similarity=0.534  Sum_probs=18.6

Q ss_pred             EEEEEecCCCChHHHHHHHHH
Q 024705          122 IVEIYGREASGKTTLALHVIK  142 (264)
Q Consensus       122 ~~~I~G~~GsGKTtl~~~l~~  142 (264)
                      .++|.|++|+|||||+..+..
T Consensus         2 ~V~liG~~n~GKSsLi~~L~~   22 (171)
T d1mkya1           2 TVLIVGRPNVGKSTLFNKLVK   22 (171)
T ss_dssp             EEEEECCTTSSHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHhC
Confidence            478999999999999998864

>d1t9ha2 c.37.1.8 (A:68-298) Probable GTPase EngC (YjeQ), C-terminal domain {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngC (YjeQ), C-terminal domain
species: Bacillus subtilis [TaxId: 1423]

Probab=95.22  E-value=0.0018  Score=51.92  Aligned_cols=35  Identities=14%  Similarity=0.169  Sum_probs=26.3

Q ss_pred             cCcHHHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHH
Q 024705          103 TGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKE  143 (264)
Q Consensus       103 tG~~~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~  143 (264)
                      .|+.+|-..+.      |..+++.|++|+|||||...+...
T Consensus        86 ~gl~~L~~~l~------~~~~vl~G~SGVGKSSLiN~L~~~  120 (231)
T d1t9ha2          86 DSLADIIPHFQ------DKTTVFAGQSGVGKSSLLNAISPE  120 (231)
T ss_dssp             TTCTTTGGGGT------TSEEEEEESHHHHHHHHHHHHCC-
T ss_pred             hHHHHHHHhhc------cceEEEECCCCccHHHHHHhhccH
Confidence            46666655554      567889999999999998887654

>d1vhta_ c.37.1.1 (A:) Dephospho-CoA kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Dephospho-CoA kinase
species: Escherichia coli [TaxId: 562]

Probab=95.20  E-value=0.0056  Score=47.81  Aligned_cols=19  Identities=42%  Similarity=0.496  Sum_probs=16.7

Q ss_pred             EEEEEecCCCChHHHHHHH
Q 024705          122 IVEIYGREASGKTTLALHV  140 (264)
Q Consensus       122 ~~~I~G~~GsGKTtl~~~l  140 (264)
                      +++|+|.+||||||++..+
T Consensus         5 iIgitG~igSGKStv~~~l   23 (208)
T d1vhta_           5 IVALTGGIGSGKSTVANAF   23 (208)
T ss_dssp             EEEEECCTTSCHHHHHHHH
T ss_pred             EEEEECCCcCCHHHHHHHH
Confidence            6889999999999988654

>d1ksha_ c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus musculus), ARL2 [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Mouse (Mus musculus), ARL2 [TaxId: 10090]

Probab=95.20  E-value=0.0047  Score=45.96  Aligned_cols=20  Identities=25%  Similarity=0.343  Sum_probs=17.8

Q ss_pred             EEEEecCCCChHHHHHHHHH
Q 024705          123 VEIYGREASGKTTLALHVIK  142 (264)
Q Consensus       123 ~~I~G~~GsGKTtl~~~l~~  142 (264)
                      ++|.|++|+|||||+..+..
T Consensus         5 i~ivG~~~~GKTsLi~~l~~   24 (165)
T d1ksha_           5 LLMLGLDNAGKTTILKKFNG   24 (165)
T ss_dssp             EEEECSTTSSHHHHHHHHTT
T ss_pred             EEEECCCCCCHHHHHHHHcC
Confidence            78999999999999988754

>d1z2aa1 c.37.1.8 (A:8-171) Rab23 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab23
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=95.16  E-value=0.0056  Score=45.62  Aligned_cols=21  Identities=24%  Similarity=0.370  Sum_probs=18.7

Q ss_pred             EEEEecCCCChHHHHHHHHHH
Q 024705          123 VEIYGREASGKTTLALHVIKE  143 (264)
Q Consensus       123 ~~I~G~~GsGKTtl~~~l~~~  143 (264)
                      +++.|++|+|||||+..+..+
T Consensus         5 v~liG~~~vGKSsLi~rl~~~   25 (164)
T d1z2aa1           5 MVVVGNGAVGKSSMIQRYCKG   25 (164)
T ss_dssp             EEEECSTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            679999999999999988763

>d1zd9a1 c.37.1.8 (A:18-181) ADP-ribosylation factor {Human (Homo sapiens), ARL8A [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL8A [TaxId: 9606]

Probab=95.13  E-value=0.0058  Score=45.52  Aligned_cols=21  Identities=29%  Similarity=0.366  Sum_probs=18.4

Q ss_pred             EEEEecCCCChHHHHHHHHHH
Q 024705          123 VEIYGREASGKTTLALHVIKE  143 (264)
Q Consensus       123 ~~I~G~~GsGKTtl~~~l~~~  143 (264)
                      +++.|++|+|||||+.++...
T Consensus         5 i~i~G~~~~GKTsLl~~l~~~   25 (164)
T d1zd9a1           5 LTLVGLQYSGKTTFVNVIASG   25 (164)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHcC
Confidence            678999999999999988653

>d1nrjb_ c.37.1.8 (B:) Signal recognition particle receptor beta-subunit {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Signal recognition particle receptor beta-subunit
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=95.07  E-value=0.0064  Score=46.81  Aligned_cols=22  Identities=32%  Similarity=0.412  Sum_probs=19.3

Q ss_pred             EEEEEecCCCChHHHHHHHHHH
Q 024705          122 IVEIYGREASGKTTLALHVIKE  143 (264)
Q Consensus       122 ~~~I~G~~GsGKTtl~~~l~~~  143 (264)
                      .++|.|+||+|||||...+..+
T Consensus         5 ~V~lvG~~n~GKTSLln~l~~~   26 (209)
T d1nrjb_           5 SIIIAGPQNSGKTSLLTLLTTD   26 (209)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            5789999999999999888753

>d1ky3a_ c.37.1.8 (A:) Rab-related protein ypt7p {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-related protein ypt7p
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=94.96  E-value=0.0068  Score=45.48  Aligned_cols=20  Identities=35%  Similarity=0.489  Sum_probs=18.3

Q ss_pred             EEEEecCCCChHHHHHHHHH
Q 024705          123 VEIYGREASGKTTLALHVIK  142 (264)
Q Consensus       123 ~~I~G~~GsGKTtl~~~l~~  142 (264)
                      +++.|++|+|||||+..+..
T Consensus         5 i~~vG~~~vGKSsLi~~~~~   24 (175)
T d1ky3a_           5 VIILGDSGVGKTSLMHRYVN   24 (175)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHc
Confidence            68999999999999999875

>d2a5ja1 c.37.1.8 (A:9-181) Rab2b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab2b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.94  E-value=0.0068  Score=45.59  Aligned_cols=21  Identities=29%  Similarity=0.401  Sum_probs=18.6

Q ss_pred             EEEEecCCCChHHHHHHHHHH
Q 024705          123 VEIYGREASGKTTLALHVIKE  143 (264)
Q Consensus       123 ~~I~G~~GsGKTtl~~~l~~~  143 (264)
                      +++.|++|+|||+|+..++..
T Consensus         6 ivvvG~~~vGKTsli~r~~~~   26 (173)
T d2a5ja1           6 YIIIGDTGVGKSCLLLQFTDK   26 (173)
T ss_dssp             EEEESSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHhcC
Confidence            679999999999999988754

>d2cxxa1 c.37.1.8 (A:2-185) GTP-binding protein engB {Pyrococcus horikoshii [TaxId: 53953]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein engB
species: Pyrococcus horikoshii [TaxId: 53953]

Probab=94.94  E-value=0.0067  Score=45.74  Aligned_cols=21  Identities=29%  Similarity=0.422  Sum_probs=18.1

Q ss_pred             EEEEEecCCCChHHHHHHHHH
Q 024705          122 IVEIYGREASGKTTLALHVIK  142 (264)
Q Consensus       122 ~~~I~G~~GsGKTtl~~~l~~  142 (264)
                      -++|.|+||+|||||...+..
T Consensus         2 ~I~lvG~~nvGKSsLin~l~~   22 (184)
T d2cxxa1           2 TIIFAGRSNVGKSTLIYRLTG   22 (184)
T ss_dssp             EEEEEEBTTSSHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhC
Confidence            378999999999999888753

>d1p5zb_ c.37.1.1 (B:) Deoxycytidine kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxycytidine kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.92  E-value=0.0035  Score=49.52  Aligned_cols=26  Identities=23%  Similarity=0.267  Sum_probs=22.5

Q ss_pred             CCcEEEEEecCCCChHHHHHHHHHHH
Q 024705          119 KGRIVEIYGREASGKTTLALHVIKEA  144 (264)
Q Consensus       119 ~G~~~~I~G~~GsGKTtl~~~l~~~~  144 (264)
                      ++.++.|-|+.||||||++..++..+
T Consensus         1 ~~k~I~ieG~dGsGKST~~~~L~~~l   26 (241)
T d1p5zb_           1 RIKKISIEGNIAAGKSTFVNILKQLC   26 (241)
T ss_dssp             CCEEEEEECSTTSSHHHHHTTTGGGC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHH
Confidence            46789999999999999998887754

>d1fzqa_ c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus musculus), ARL3 [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Mouse (Mus musculus), ARL3 [TaxId: 10090]

Probab=94.92  E-value=0.01  Score=44.48  Aligned_cols=27  Identities=22%  Similarity=0.281  Sum_probs=20.7

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHHH
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVIK  142 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~~  142 (264)
                      .-.+.--+++.|++|+|||||+..+..
T Consensus        12 ~~~~~~kI~vvG~~~vGKSsLi~~l~~   38 (176)
T d1fzqa_          12 APDQEVRILLLGLDNAGKTTLLKQLAS   38 (176)
T ss_dssp             CCSSCEEEEEEESTTSSHHHHHHHHCC
T ss_pred             CCCCEEEEEEECCCCCCHHHHHHHHhc
Confidence            334444588999999999999987743

>d1g7sa4 c.37.1.8 (A:1-227) Initiation factor IF2/eIF5b, N-terminal (G) domain {Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Initiation factor IF2/eIF5b, N-terminal (G) domain
species: Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]

Probab=94.91  E-value=0.0035  Score=49.82  Aligned_cols=23  Identities=43%  Similarity=0.541  Sum_probs=20.0

Q ss_pred             EEEEEecCCCChHHHHHHHHHHH
Q 024705          122 IVEIYGREASGKTTLALHVIKEA  144 (264)
Q Consensus       122 ~~~I~G~~GsGKTtl~~~l~~~~  144 (264)
                      ++.|.|.+.+|||||+..+....
T Consensus         7 ~IaIiGh~d~GKSTL~~~L~~~~   29 (227)
T d1g7sa4           7 IVSVLGHVDHGKTTLLDHIRGSA   29 (227)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEEeCCCccHHHHHHHHHhhc
Confidence            48899999999999998887654

>d1ctqa_ c.37.1.8 (A:) cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: cH-p21 Ras protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.89  E-value=0.0076  Score=44.91  Aligned_cols=21  Identities=24%  Similarity=0.561  Sum_probs=19.0

Q ss_pred             EEEEecCCCChHHHHHHHHHH
Q 024705          123 VEIYGREASGKTTLALHVIKE  143 (264)
Q Consensus       123 ~~I~G~~GsGKTtl~~~l~~~  143 (264)
                      +++.|++|+|||+|+.++...
T Consensus         6 i~viG~~~vGKTsli~~l~~~   26 (166)
T d1ctqa_           6 LVVVGAGGVGKSALTIQLIQN   26 (166)
T ss_dssp             EEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            789999999999999998764

>d1kaoa_ c.37.1.8 (A:) Rap2a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rap2a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.85  E-value=0.0076  Score=44.90  Aligned_cols=21  Identities=24%  Similarity=0.504  Sum_probs=18.9

Q ss_pred             EEEEecCCCChHHHHHHHHHH
Q 024705          123 VEIYGREASGKTTLALHVIKE  143 (264)
Q Consensus       123 ~~I~G~~GsGKTtl~~~l~~~  143 (264)
                      +++.|++|+|||+|+..++..
T Consensus         6 i~lvG~~~vGKTsLi~r~~~~   26 (167)
T d1kaoa_           6 VVVLGSGGVGKSALTVQFVTG   26 (167)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            789999999999999998764

>d1g8pa_ c.37.1.20 (A:) ATPase subunit of magnesium chelatase, BchI {Rhodobacter capsulatus [TaxId: 1061]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ATPase subunit of magnesium chelatase, BchI
species: Rhodobacter capsulatus [TaxId: 1061]

Probab=94.81  E-value=0.0044  Score=52.01  Aligned_cols=23  Identities=22%  Similarity=0.281  Sum_probs=20.1

Q ss_pred             EEEEEecCCCChHHHHHHHHHHH
Q 024705          122 IVEIYGREASGKTTLALHVIKEA  144 (264)
Q Consensus       122 ~~~I~G~~GsGKTtl~~~l~~~~  144 (264)
                      -++|.||||+||||++..++.-+
T Consensus        30 ~vLl~G~pG~GKT~lar~~~~iL   52 (333)
T d1g8pa_          30 GVLVFGDRGTGKSTAVRALAALL   52 (333)
T ss_dssp             CEEEECCGGGCTTHHHHHHHHHS
T ss_pred             eEEEECCCCccHHHHHHHHHHhC
Confidence            48999999999999999988643

>d2erya1 c.37.1.8 (A:10-180) r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: r-Ras2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.80  E-value=0.0083  Score=44.94  Aligned_cols=22  Identities=23%  Similarity=0.457  Sum_probs=19.4

Q ss_pred             EEEEEecCCCChHHHHHHHHHH
Q 024705          122 IVEIYGREASGKTTLALHVIKE  143 (264)
Q Consensus       122 ~~~I~G~~GsGKTtl~~~l~~~  143 (264)
                      -++|.|.+|+|||+|+..++..
T Consensus         7 Ki~lvG~~~vGKTsLi~r~~~~   28 (171)
T d2erya1           7 RLVVVGGGGVGKSALTIQFIQS   28 (171)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            3789999999999999998764

>d2f9la1 c.37.1.8 (A:8-182) Rab11b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab11b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.75  E-value=0.0081  Score=45.22  Aligned_cols=21  Identities=24%  Similarity=0.411  Sum_probs=18.7

Q ss_pred             EEEEecCCCChHHHHHHHHHH
Q 024705          123 VEIYGREASGKTTLALHVIKE  143 (264)
Q Consensus       123 ~~I~G~~GsGKTtl~~~l~~~  143 (264)
                      +++.|++|+|||||+..+...
T Consensus         7 i~vvG~~~vGKTsLi~~~~~~   27 (175)
T d2f9la1           7 VVLIGDSGVGKSNLLSRFTRN   27 (175)
T ss_dssp             EEEESSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            789999999999999988763

>d2f7sa1 c.37.1.8 (A:5-190) Rab27b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab27b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.75  E-value=0.0076  Score=45.79  Aligned_cols=20  Identities=25%  Similarity=0.321  Sum_probs=17.9

Q ss_pred             EEEEecCCCChHHHHHHHHH
Q 024705          123 VEIYGREASGKTTLALHVIK  142 (264)
Q Consensus       123 ~~I~G~~GsGKTtl~~~l~~  142 (264)
                      ++|.|++|+|||||+..++.
T Consensus         8 i~ivG~~~vGKTsLi~~l~~   27 (186)
T d2f7sa1           8 LLALGDSGVGKTTFLYRYTD   27 (186)
T ss_dssp             EEEESCTTSSHHHHHHHHHC
T ss_pred             EEEECCCCcCHHHHHHHHhc
Confidence            78999999999999988764

>d2gj8a1 c.37.1.8 (A:216-376) Probable tRNA modification GTPase TrmE (MnmE), G domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable tRNA modification GTPase TrmE (MnmE), G domain
species: Escherichia coli [TaxId: 562]

Probab=94.74  E-value=0.0093  Score=43.90  Aligned_cols=21  Identities=33%  Similarity=0.390  Sum_probs=18.2

Q ss_pred             EEEEEecCCCChHHHHHHHHH
Q 024705          122 IVEIYGREASGKTTLALHVIK  142 (264)
Q Consensus       122 ~~~I~G~~GsGKTtl~~~l~~  142 (264)
                      -+++.|++++|||||+.++..
T Consensus         3 kI~lvG~~nvGKSsLin~l~~   23 (161)
T d2gj8a1           3 KVVIAGRPNAGKSSLLNALAG   23 (161)
T ss_dssp             EEEEEESTTSSHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHhC
Confidence            478999999999999887763

>d1z0fa1 c.37.1.8 (A:8-173) Rab14 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab14
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.72  E-value=0.0086  Score=44.60  Aligned_cols=21  Identities=24%  Similarity=0.289  Sum_probs=18.8

Q ss_pred             EEEEecCCCChHHHHHHHHHH
Q 024705          123 VEIYGREASGKTTLALHVIKE  143 (264)
Q Consensus       123 ~~I~G~~GsGKTtl~~~l~~~  143 (264)
                      ++|.|.+|+|||+|+.++...
T Consensus         7 ivlvG~~~vGKTsli~~~~~~   27 (166)
T d1z0fa1           7 YIIIGDMGVGKSCLLHQFTEK   27 (166)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            789999999999999998764

>d3raba_ c.37.1.8 (A:) Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab3a
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=94.70  E-value=0.0087  Score=44.75  Aligned_cols=21  Identities=24%  Similarity=0.466  Sum_probs=18.9

Q ss_pred             EEEEecCCCChHHHHHHHHHH
Q 024705          123 VEIYGREASGKTTLALHVIKE  143 (264)
Q Consensus       123 ~~I~G~~GsGKTtl~~~l~~~  143 (264)
                      +++.|++|+|||||+..++.+
T Consensus         8 i~vvG~~~vGKTsLi~~l~~~   28 (169)
T d3raba_           8 ILIIGNSSVGKTSFLFRYADD   28 (169)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHcC
Confidence            789999999999999988764

>d1xtqa1 c.37.1.8 (A:3-169) GTP-binding protein RheB {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein RheB
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.69  E-value=0.0092  Score=44.42  Aligned_cols=22  Identities=23%  Similarity=0.536  Sum_probs=19.1

Q ss_pred             EEEEEecCCCChHHHHHHHHHH
Q 024705          122 IVEIYGREASGKTTLALHVIKE  143 (264)
Q Consensus       122 ~~~I~G~~GsGKTtl~~~l~~~  143 (264)
                      -++|.|++|+|||+|+..++..
T Consensus         6 Kv~liG~~~vGKTsLl~~~~~~   27 (167)
T d1xtqa1           6 KIAILGYRSVGKSSLTIQFVEG   27 (167)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3789999999999999998764

>d2erxa1 c.37.1.8 (A:6-176) di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: di-Ras2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.64  E-value=0.0086  Score=44.75  Aligned_cols=21  Identities=33%  Similarity=0.689  Sum_probs=18.4

Q ss_pred             EEEEecCCCChHHHHHHHHHH
Q 024705          123 VEIYGREASGKTTLALHVIKE  143 (264)
Q Consensus       123 ~~I~G~~GsGKTtl~~~l~~~  143 (264)
                      +++.|.+|+|||||+..++..
T Consensus         5 i~viG~~~vGKTsLi~r~~~~   25 (171)
T d2erxa1           5 VAVFGAGGVGKSSLVLRFVKG   25 (171)
T ss_dssp             EEEECCTTSSHHHHHHHHHTC
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            679999999999999888753

>d2ew1a1 c.37.1.8 (A:4-174) Rab30 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab30
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.64  E-value=0.0096  Score=44.57  Aligned_cols=21  Identities=24%  Similarity=0.385  Sum_probs=18.9

Q ss_pred             EEEEecCCCChHHHHHHHHHH
Q 024705          123 VEIYGREASGKTTLALHVIKE  143 (264)
Q Consensus       123 ~~I~G~~GsGKTtl~~~l~~~  143 (264)
                      +++.|++|+|||+|+..++..
T Consensus         8 i~lvG~~~vGKTsLi~~l~~~   28 (171)
T d2ew1a1           8 IVLIGNAGVGKTCLVRRFTQG   28 (171)
T ss_dssp             EEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            789999999999999998864

>d1g16a_ c.37.1.8 (A:) Rab-related protein Sec4 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-related protein Sec4
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=94.59  E-value=0.01  Score=44.15  Aligned_cols=21  Identities=19%  Similarity=0.501  Sum_probs=18.5

Q ss_pred             EEEEecCCCChHHHHHHHHHH
Q 024705          123 VEIYGREASGKTTLALHVIKE  143 (264)
Q Consensus       123 ~~I~G~~GsGKTtl~~~l~~~  143 (264)
                      +++.|++|+|||||+.+++..
T Consensus         5 i~vvG~~~vGKTSli~~l~~~   25 (166)
T d1g16a_           5 ILLIGDSGVGKSCLLVRFVED   25 (166)
T ss_dssp             EEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            679999999999999988753

>d1lnza2 c.37.1.8 (A:158-342) Obg GTP-binding protein middle domain {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Obg GTP-binding protein middle domain
species: Bacillus subtilis [TaxId: 1423]

Probab=94.59  E-value=0.0062  Score=46.19  Aligned_cols=19  Identities=37%  Similarity=0.377  Sum_probs=16.9

Q ss_pred             EEEEecCCCChHHHHHHHH
Q 024705          123 VEIYGREASGKTTLALHVI  141 (264)
Q Consensus       123 ~~I~G~~GsGKTtl~~~l~  141 (264)
                      |.|.|+|++|||||+..+.
T Consensus         4 VaiiG~~nvGKSSLin~L~   22 (185)
T d1lnza2           4 VGLVGFPSVGKSTLLSVVS   22 (185)
T ss_dssp             EEEESSTTSSHHHHHHHSE
T ss_pred             EEEECCCCCCHHHHHHHHh
Confidence            7899999999999987764

>d1z08a1 c.37.1.8 (A:17-183) Rab21 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab21
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.58  E-value=0.0099  Score=44.29  Aligned_cols=21  Identities=33%  Similarity=0.515  Sum_probs=18.7

Q ss_pred             EEEEecCCCChHHHHHHHHHH
Q 024705          123 VEIYGREASGKTTLALHVIKE  143 (264)
Q Consensus       123 ~~I~G~~GsGKTtl~~~l~~~  143 (264)
                      ++|.|.+|+|||+|+..+..+
T Consensus         6 ivlvG~~~vGKTsLi~r~~~~   26 (167)
T d1z08a1           6 VVLLGEGCVGKTSLVLRYCEN   26 (167)
T ss_dssp             EEEECCTTSCHHHHHHHHHHC
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            689999999999999988763

>d1wmsa_ c.37.1.8 (A:) Rab9a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab9a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.57  E-value=0.0097  Score=44.66  Aligned_cols=21  Identities=24%  Similarity=0.401  Sum_probs=19.0

Q ss_pred             EEEEecCCCChHHHHHHHHHH
Q 024705          123 VEIYGREASGKTTLALHVIKE  143 (264)
Q Consensus       123 ~~I~G~~GsGKTtl~~~l~~~  143 (264)
                      +++.|++|+|||+|+.++...
T Consensus         9 I~vvG~~~vGKSSli~~~~~~   29 (174)
T d1wmsa_           9 VILLGDGGVGKSSLMNRYVTN   29 (174)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            789999999999999988763

>d2bmea1 c.37.1.8 (A:6-179) Rab4a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab4a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.57  E-value=0.01  Score=44.50  Aligned_cols=21  Identities=24%  Similarity=0.445  Sum_probs=18.9

Q ss_pred             EEEEecCCCChHHHHHHHHHH
Q 024705          123 VEIYGREASGKTTLALHVIKE  143 (264)
Q Consensus       123 ~~I~G~~GsGKTtl~~~l~~~  143 (264)
                      +++.|.+|+|||+|+.++...
T Consensus         8 I~lvG~~~vGKTsll~~~~~~   28 (174)
T d2bmea1           8 FLVIGNAGTGKSCLLHQFIEK   28 (174)
T ss_dssp             EEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            789999999999999998764

>d1r2qa_ c.37.1.8 (A:) Rab5a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab5a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.54  E-value=0.01  Score=44.40  Aligned_cols=21  Identities=33%  Similarity=0.610  Sum_probs=18.8

Q ss_pred             EEEEecCCCChHHHHHHHHHH
Q 024705          123 VEIYGREASGKTTLALHVIKE  143 (264)
Q Consensus       123 ~~I~G~~GsGKTtl~~~l~~~  143 (264)
                      +++.|.+|+|||+|+.++...
T Consensus         9 i~vvG~~~vGKTsLi~~l~~~   29 (170)
T d1r2qa_           9 LVLLGESAVGKSSLVLRFVKG   29 (170)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            679999999999999998864

>d2atva1 c.37.1.8 (A:5-172) Ras-like estrogen-regulated growth inhibitor, RERG {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-like estrogen-regulated growth inhibitor, RERG
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.51  E-value=0.01  Score=44.34  Aligned_cols=21  Identities=29%  Similarity=0.703  Sum_probs=18.9

Q ss_pred             EEEEecCCCChHHHHHHHHHH
Q 024705          123 VEIYGREASGKTTLALHVIKE  143 (264)
Q Consensus       123 ~~I~G~~GsGKTtl~~~l~~~  143 (264)
                      +++.|++|+|||+|+..++..
T Consensus         5 i~lvG~~~vGKTsli~r~~~~   25 (168)
T d2atva1           5 LAIFGRAGVGKSALVVRFLTK   25 (168)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            679999999999999998864

>d1z06a1 c.37.1.8 (A:32-196) Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-33b
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=94.50  E-value=0.01  Score=43.91  Aligned_cols=21  Identities=24%  Similarity=0.363  Sum_probs=19.0

Q ss_pred             EEEEecCCCChHHHHHHHHHH
Q 024705          123 VEIYGREASGKTTLALHVIKE  143 (264)
Q Consensus       123 ~~I~G~~GsGKTtl~~~l~~~  143 (264)
                      +++.|++|+|||+|+.+++..
T Consensus         5 v~liG~~~vGKTsLl~~~~~~   25 (165)
T d1z06a1           5 IIVIGDSNVGKTCLTYRFCAG   25 (165)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            689999999999999998864

>d2fn4a1 c.37.1.8 (A:24-196) r-Ras {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: r-Ras
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.48  E-value=0.011  Score=44.42  Aligned_cols=21  Identities=24%  Similarity=0.517  Sum_probs=18.8

Q ss_pred             EEEEecCCCChHHHHHHHHHH
Q 024705          123 VEIYGREASGKTTLALHVIKE  143 (264)
Q Consensus       123 ~~I~G~~GsGKTtl~~~l~~~  143 (264)
                      ++|.|.+|+|||+|+..++.+
T Consensus         9 v~lvG~~~vGKTsLi~r~~~~   29 (173)
T d2fn4a1           9 LVVVGGGGVGKSALTIQFIQS   29 (173)
T ss_dssp             EEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            789999999999999988764

>d1vg8a_ c.37.1.8 (A:) Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab7
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=94.45  E-value=0.011  Score=44.87  Aligned_cols=20  Identities=35%  Similarity=0.481  Sum_probs=18.2

Q ss_pred             EEEEecCCCChHHHHHHHHH
Q 024705          123 VEIYGREASGKTTLALHVIK  142 (264)
Q Consensus       123 ~~I~G~~GsGKTtl~~~l~~  142 (264)
                      +++.|.+|+|||||+..+..
T Consensus         5 v~vvG~~~vGKSSLi~~l~~   24 (184)
T d1vg8a_           5 VIILGDSGVGKTSLMNQYVN   24 (184)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            68999999999999998875

>d1egaa1 c.37.1.8 (A:4-182) GTPase Era, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Era, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=94.43  E-value=0.011  Score=44.26  Aligned_cols=21  Identities=33%  Similarity=0.544  Sum_probs=18.7

Q ss_pred             EEEEEecCCCChHHHHHHHHH
Q 024705          122 IVEIYGREASGKTTLALHVIK  142 (264)
Q Consensus       122 ~~~I~G~~GsGKTtl~~~l~~  142 (264)
                      +|+|.|.+|+|||||...+..
T Consensus         7 ~I~iiG~~nvGKSSLin~L~~   27 (179)
T d1egaa1           7 FIAIVGRPNVGKSTLLNKLLG   27 (179)
T ss_dssp             EEEEECSSSSSHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHhC
Confidence            478999999999999988874

>d1yzqa1 c.37.1.8 (A:14-177) Rab6 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab6
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.43  E-value=0.012  Score=43.66  Aligned_cols=21  Identities=24%  Similarity=0.464  Sum_probs=18.7

Q ss_pred             EEEEecCCCChHHHHHHHHHH
Q 024705          123 VEIYGREASGKTTLALHVIKE  143 (264)
Q Consensus       123 ~~I~G~~GsGKTtl~~~l~~~  143 (264)
                      +++.|.+|+|||+|+..+..+
T Consensus         3 v~vvG~~~vGKTsLi~r~~~~   23 (164)
T d1yzqa1           3 LVFLGEQSVGKTSLITRFMYD   23 (164)
T ss_dssp             EEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            678999999999999998764

>d1kmqa_ c.37.1.8 (A:) RhoA {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoA
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.43  E-value=0.011  Score=44.39  Aligned_cols=21  Identities=38%  Similarity=0.447  Sum_probs=18.6

Q ss_pred             EEEEecCCCChHHHHHHHHHH
Q 024705          123 VEIYGREASGKTTLALHVIKE  143 (264)
Q Consensus       123 ~~I~G~~GsGKTtl~~~l~~~  143 (264)
                      +++.|++|+|||+|+.+++..
T Consensus         5 ivvvG~~~vGKTsLi~~~~~~   25 (177)
T d1kmqa_           5 LVIVGDGACGKTCLLIVNSKD   25 (177)
T ss_dssp             EEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            678899999999999988764

>d1wf3a1 c.37.1.8 (A:3-180) GTPase Era, N-terminal domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Era, N-terminal domain
species: Thermus thermophilus [TaxId: 274]

Probab=94.41  E-value=0.011  Score=44.44  Aligned_cols=21  Identities=33%  Similarity=0.526  Sum_probs=18.8

Q ss_pred             EEEEEecCCCChHHHHHHHHH
Q 024705          122 IVEIYGREASGKTTLALHVIK  142 (264)
Q Consensus       122 ~~~I~G~~GsGKTtl~~~l~~  142 (264)
                      .++|.|.+|+|||||+..+..
T Consensus         7 ~I~lvG~~~~GKSSLin~l~~   27 (178)
T d1wf3a1           7 FVAIVGKPNVGKSTLLNNLLG   27 (178)
T ss_dssp             EEEEECSTTSSHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHhC
Confidence            689999999999999988764

>d2bcgy1 c.37.1.8 (Y:3-196) GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Ytp1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=94.38  E-value=0.012  Score=45.19  Aligned_cols=21  Identities=24%  Similarity=0.436  Sum_probs=18.9

Q ss_pred             EEEEecCCCChHHHHHHHHHH
Q 024705          123 VEIYGREASGKTTLALHVIKE  143 (264)
Q Consensus       123 ~~I~G~~GsGKTtl~~~l~~~  143 (264)
                      ++|.|++|+|||||+.++...
T Consensus         9 ivvvG~~~vGKTsli~~l~~~   29 (194)
T d2bcgy1           9 LLLIGNSGVGKSCLLLRFSDD   29 (194)
T ss_dssp             EEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCcCHHHHHHHHhhC
Confidence            789999999999999998764

>d1z0ja1 c.37.1.8 (A:2-168) Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-22a
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=94.37  E-value=0.012  Score=43.90  Aligned_cols=21  Identities=19%  Similarity=0.490  Sum_probs=18.6

Q ss_pred             EEEEecCCCChHHHHHHHHHH
Q 024705          123 VEIYGREASGKTTLALHVIKE  143 (264)
Q Consensus       123 ~~I~G~~GsGKTtl~~~l~~~  143 (264)
                      ++|.|.+|+|||+|+..+...
T Consensus         7 i~lvG~~~vGKTsli~rl~~~   27 (167)
T d1z0ja1           7 VCLLGDTGVGKSSIMWRFVED   27 (167)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            678999999999999998763

>d1d2ea3 c.37.1.8 (A:55-250) Elongation factor Tu (EF-Tu), N-terminal (G) domain {Cow (Bos taurus), mitochondrial [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor Tu (EF-Tu), N-terminal (G) domain
species: Cow (Bos taurus), mitochondrial [TaxId: 9913]

Probab=94.34  E-value=0.022  Score=44.10  Aligned_cols=24  Identities=33%  Similarity=0.311  Sum_probs=20.1

Q ss_pred             EEEEEecCCCChHHHHHHHHHHHh
Q 024705          122 IVEIYGREASGKTTLALHVIKEAQ  145 (264)
Q Consensus       122 ~~~I~G~~GsGKTtl~~~l~~~~~  145 (264)
                      .+++.|...+|||||+-.+...+.
T Consensus         5 ni~iiGHvd~GKSTL~~~l~~~~~   28 (196)
T d1d2ea3           5 NVGTIGHVDHGKTTLTAAITKILA   28 (196)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHHHH
T ss_pred             EEEEEeCCCCcHHHHHHHHHHHHH
Confidence            478999999999999988876543

>d1u0ja_ c.37.1.20 (A:) Rep 40 protein helicase domain {Adeno-associated virus 2, AAV2 [TaxId: 10804]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Rep 40 protein helicase domain
species: Adeno-associated virus 2, AAV2 [TaxId: 10804]

Probab=94.29  E-value=0.023  Score=46.26  Aligned_cols=37  Identities=16%  Similarity=0.163  Sum_probs=30.6

Q ss_pred             HHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHH
Q 024705          107 KLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEA  144 (264)
Q Consensus       107 ~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~  144 (264)
                      .|=.+|. |+.++-..+.++||+++|||+|+..++..+
T Consensus        92 ~l~~~L~-~~~~k~n~~~l~G~~~tGKS~f~~~i~~~l  128 (267)
T d1u0ja_          92 VFLGWAT-KKFGKRNTIWLFGPATTGKTNIAEAIAHTV  128 (267)
T ss_dssp             HHHHHHT-TCSTTCCEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             HHHHHHc-CCCCccEEEEEEcCCCCCHHHHHHHHHHHh
Confidence            3555676 788999999999999999999988877654

>d1ek0a_ c.37.1.8 (A:) Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ypt51
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=94.28  E-value=0.012  Score=43.81  Aligned_cols=21  Identities=24%  Similarity=0.566  Sum_probs=18.8

Q ss_pred             EEEEecCCCChHHHHHHHHHH
Q 024705          123 VEIYGREASGKTTLALHVIKE  143 (264)
Q Consensus       123 ~~I~G~~GsGKTtl~~~l~~~  143 (264)
                      +++.|++|+|||+|+.++...
T Consensus         6 i~vvG~~~vGKTsLi~~~~~~   26 (170)
T d1ek0a_           6 LVLLGEAAVGKSSIVLRFVSN   26 (170)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            678999999999999998764

>d1deka_ c.37.1.1 (A:) Deoxynucleoside monophosphate kinase {Bacteriophage T4 [TaxId: 10665]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxynucleoside monophosphate kinase
species: Bacteriophage T4 [TaxId: 10665]

Probab=94.26  E-value=0.014  Score=46.21  Aligned_cols=21  Identities=29%  Similarity=0.403  Sum_probs=18.3

Q ss_pred             EEEEEecCCCChHHHHHHHHH
Q 024705          122 IVEIYGREASGKTTLALHVIK  142 (264)
Q Consensus       122 ~~~I~G~~GsGKTtl~~~l~~  142 (264)
                      +++|+|+.||||||++..++.
T Consensus         3 iIgiTG~igSGKsTva~~l~e   23 (241)
T d1deka_           3 LIFLSGVKRSGKDTTADFIMS   23 (241)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            689999999999998877654

>d1wp9a1 c.37.1.19 (A:1-200) putative ATP-dependent RNA helicase PF2015 {Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: putative ATP-dependent RNA helicase PF2015
species: Pyrococcus furiosus [TaxId: 2261]

Probab=94.25  E-value=0.024  Score=43.28  Aligned_cols=34  Identities=26%  Similarity=0.239  Sum_probs=25.4

Q ss_pred             EEEEecCCCChHHHHHHHHHHHh-hcCCeEEEEec
Q 024705          123 VEIYGREASGKTTLALHVIKEAQ-KLGGYCAYLDV  156 (264)
Q Consensus       123 ~~I~G~~GsGKTtl~~~l~~~~~-~~g~~v~~~~~  156 (264)
                      +++.+|.|+|||..+..++.... ..+++++|+.-
T Consensus        26 ~lv~~pTGsGKT~i~~~~~~~~~~~~~~~il~i~P   60 (200)
T d1wp9a1          26 CLIVLPTGLGKTLIAMMIAEYRLTKYGGKVLMLAP   60 (200)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHHHHHSCSCEEEECS
T ss_pred             eEEEeCCCCcHHHHHHHHHHHHHHhcCCcEEEEcC
Confidence            67889999999987666655443 45777888864

>d1e0sa_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARF6 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARF6 [TaxId: 9606]

Probab=94.21  E-value=0.0079  Score=45.16  Aligned_cols=21  Identities=29%  Similarity=0.407  Sum_probs=18.2

Q ss_pred             EEEEEecCCCChHHHHHHHHH
Q 024705          122 IVEIYGREASGKTTLALHVIK  142 (264)
Q Consensus       122 ~~~I~G~~GsGKTtl~~~l~~  142 (264)
                      -+++.|++|+|||||+..++.
T Consensus        14 kIvlvG~~~vGKTSli~rl~~   34 (173)
T d1e0sa_          14 RILMLGLDAAGKTTILYKLKL   34 (173)
T ss_dssp             EEEEEEETTSSHHHHHHHTTC
T ss_pred             EEEEECCCCCCHHHHHHHHhc
Confidence            378999999999999988764

>d2g6ba1 c.37.1.8 (A:58-227) Rab26 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab26
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.20  E-value=0.013  Score=43.71  Aligned_cols=21  Identities=29%  Similarity=0.379  Sum_probs=18.9

Q ss_pred             EEEEecCCCChHHHHHHHHHH
Q 024705          123 VEIYGREASGKTTLALHVIKE  143 (264)
Q Consensus       123 ~~I~G~~GsGKTtl~~~l~~~  143 (264)
                      +++.|++|+|||+|+.++...
T Consensus         9 i~vvG~~~vGKTsli~~~~~~   29 (170)
T d2g6ba1           9 VMLVGDSGVGKTCLLVRFKDG   29 (170)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            789999999999999988764

>d1moza_ c.37.1.8 (A:) ADP-ribosylation factor {Baker's yeast (Saccharomyces cerevisiae), ARL1 [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Baker's yeast (Saccharomyces cerevisiae), ARL1 [TaxId: 4932]

Probab=94.19  E-value=0.0091  Score=45.13  Aligned_cols=26  Identities=31%  Similarity=0.402  Sum_probs=21.2

Q ss_pred             CCCCCcEEEEEecCCCChHHHHHHHH
Q 024705          116 GLPKGRIVEIYGREASGKTTLALHVI  141 (264)
Q Consensus       116 Gl~~G~~~~I~G~~GsGKTtl~~~l~  141 (264)
                      |-.+.--+++.|++|+|||||..++.
T Consensus        13 ~~~k~~KI~lvG~~~vGKTsLi~~l~   38 (182)
T d1moza_          13 GSNKELRILILGLDGAGKTTILYRLQ   38 (182)
T ss_dssp             TCSSCEEEEEEEETTSSHHHHHHHTC
T ss_pred             CCCceEEEEEECCCCCCHHHHHHHHh
Confidence            45555668899999999999998764

>d1c1ya_ c.37.1.8 (A:) Rap1A {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rap1A
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.06  E-value=0.015  Score=43.30  Aligned_cols=21  Identities=19%  Similarity=0.501  Sum_probs=18.9

Q ss_pred             EEEEecCCCChHHHHHHHHHH
Q 024705          123 VEIYGREASGKTTLALHVIKE  143 (264)
Q Consensus       123 ~~I~G~~GsGKTtl~~~l~~~  143 (264)
                      +++.|.+|+|||+|+..+...
T Consensus         6 ivvvG~~~vGKTsli~r~~~~   26 (167)
T d1c1ya_           6 LVVLGSGGVGKSALTVQFVQG   26 (167)
T ss_dssp             EEEECSTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHHcC
Confidence            689999999999999998764

>d1udxa2 c.37.1.8 (A:157-336) Obg GTP-binding protein middle domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Obg GTP-binding protein middle domain
species: Thermus thermophilus [TaxId: 274]

Probab=93.95  E-value=0.0098  Score=44.86  Aligned_cols=19  Identities=26%  Similarity=0.422  Sum_probs=17.2

Q ss_pred             EEEEecCCCChHHHHHHHH
Q 024705          123 VEIYGREASGKTTLALHVI  141 (264)
Q Consensus       123 ~~I~G~~GsGKTtl~~~l~  141 (264)
                      +.|.|++++|||||+..+.
T Consensus         4 VaivG~~nvGKSTLin~L~   22 (180)
T d1udxa2           4 VGLVGYPNAGKSSLLAAMT   22 (180)
T ss_dssp             EEEECCGGGCHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHh
Confidence            7899999999999988875

>d1u8za_ c.37.1.8 (A:) Ras-related protein RalA {Cotton-top tamarin (Saguinus oedipus) [TaxId: 9490]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-related protein RalA
species: Cotton-top tamarin (Saguinus oedipus) [TaxId: 9490]

Probab=93.93  E-value=0.016  Score=43.23  Aligned_cols=20  Identities=30%  Similarity=0.491  Sum_probs=18.1

Q ss_pred             EEEEecCCCChHHHHHHHHH
Q 024705          123 VEIYGREASGKTTLALHVIK  142 (264)
Q Consensus       123 ~~I~G~~GsGKTtl~~~l~~  142 (264)
                      +++.|.+|+|||+|+..+..
T Consensus         7 ivlvG~~~vGKTsli~~~~~   26 (168)
T d1u8za_           7 VIMVGSGGVGKSALTLQFMY   26 (168)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            67999999999999998875

>d1x3sa1 c.37.1.8 (A:2-178) Rab18 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab18
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.90  E-value=0.016  Score=43.51  Aligned_cols=21  Identities=29%  Similarity=0.528  Sum_probs=18.8

Q ss_pred             EEEEecCCCChHHHHHHHHHH
Q 024705          123 VEIYGREASGKTTLALHVIKE  143 (264)
Q Consensus       123 ~~I~G~~GsGKTtl~~~l~~~  143 (264)
                      +++.|.+|+|||+|+..+..+
T Consensus        10 i~vvG~~~vGKTsli~~l~~~   30 (177)
T d1x3sa1          10 ILIIGESGVGKSSLLLRFTDD   30 (177)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            789999999999999988763

>d1x1ra1 c.37.1.8 (A:10-178) Ras-related protein M-Ras (XRas) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-related protein M-Ras (XRas)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=93.89  E-value=0.017  Score=43.22  Aligned_cols=21  Identities=19%  Similarity=0.496  Sum_probs=18.6

Q ss_pred             EEEEecCCCChHHHHHHHHHH
Q 024705          123 VEIYGREASGKTTLALHVIKE  143 (264)
Q Consensus       123 ~~I~G~~GsGKTtl~~~l~~~  143 (264)
                      +++.|++|+|||+|+..++..
T Consensus         7 i~lvG~~~vGKTsll~~~~~~   27 (169)
T d1x1ra1           7 LVVVGDGGVGKSALTIQFFQK   27 (169)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            678899999999999998764

>d1mkya2 c.37.1.8 (A:173-358) Probable GTPase Der, N-terminal and middle domains {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase Der, N-terminal and middle domains
species: Thermotoga maritima [TaxId: 2336]

Probab=93.85  E-value=0.016  Score=43.75  Aligned_cols=21  Identities=38%  Similarity=0.510  Sum_probs=18.3

Q ss_pred             EEEEEecCCCChHHHHHHHHH
Q 024705          122 IVEIYGREASGKTTLALHVIK  142 (264)
Q Consensus       122 ~~~I~G~~GsGKTtl~~~l~~  142 (264)
                      -++|.|++|+|||||+..+..
T Consensus        10 kV~iiG~~~~GKSTLin~l~~   30 (186)
T d1mkya2          10 KVAIVGRPNVGKSTLFNAILN   30 (186)
T ss_dssp             EEEEECSTTSSHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHC
Confidence            378999999999999988764

>d1n0ua2 c.37.1.8 (A:3-343) Elongation factor 2 (eEF-2), N-terminal (G) domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor 2 (eEF-2), N-terminal (G) domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=93.80  E-value=0.07  Score=44.79  Aligned_cols=24  Identities=25%  Similarity=0.393  Sum_probs=20.8

Q ss_pred             cEEEEEecCCCChHHHHHHHHHHH
Q 024705          121 RIVEIYGREASGKTTLALHVIKEA  144 (264)
Q Consensus       121 ~~~~I~G~~GsGKTtl~~~l~~~~  144 (264)
                      +.+.|.|..++|||||+-.+....
T Consensus        18 RNI~iiGhvd~GKTTL~d~Ll~~~   41 (341)
T d1n0ua2          18 RNMSVIAHVDHGKSTLTDSLVQRA   41 (341)
T ss_dssp             EEEEEECCGGGTHHHHHHHHHHHH
T ss_pred             cEEEEEeCCCCcHHHHHHHHHHHC
Confidence            459999999999999999887654

>d1puia_ c.37.1.8 (A:) Probable GTPase EngB {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngB
species: Escherichia coli [TaxId: 562]

Probab=93.78  E-value=0.0087  Score=44.86  Aligned_cols=20  Identities=25%  Similarity=0.336  Sum_probs=17.5

Q ss_pred             EEEEEecCCCChHHHHHHHH
Q 024705          122 IVEIYGREASGKTTLALHVI  141 (264)
Q Consensus       122 ~~~I~G~~GsGKTtl~~~l~  141 (264)
                      -++|+|+|++|||||+..+.
T Consensus        18 ~I~lvG~~NvGKSSL~n~L~   37 (188)
T d1puia_          18 EVAFAGRSNAGKSSALNTLT   37 (188)
T ss_dssp             EEEEEECTTSSHHHHHTTTC
T ss_pred             EEEEECCCCCCHHHHHHHHh
Confidence            48899999999999987764

>d2ngra_ c.37.1.8 (A:) CDC42 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: CDC42
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.77  E-value=0.018  Score=43.86  Aligned_cols=22  Identities=27%  Similarity=0.351  Sum_probs=19.1

Q ss_pred             EEEEecCCCChHHHHHHHHHHH
Q 024705          123 VEIYGREASGKTTLALHVIKEA  144 (264)
Q Consensus       123 ~~I~G~~GsGKTtl~~~l~~~~  144 (264)
                      +++.|++|+|||+|+.+++..-
T Consensus         6 vvllG~~~vGKTSli~r~~~~~   27 (191)
T d2ngra_           6 CVVVGDGAVGKTCLLISYTTNK   27 (191)
T ss_dssp             EEEEESTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            6789999999999999987643

>d1m7ba_ c.37.1.8 (A:) RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoE (RND3)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=93.74  E-value=0.019  Score=43.42  Aligned_cols=21  Identities=29%  Similarity=0.423  Sum_probs=18.9

Q ss_pred             EEEEecCCCChHHHHHHHHHH
Q 024705          123 VEIYGREASGKTTLALHVIKE  143 (264)
Q Consensus       123 ~~I~G~~GsGKTtl~~~l~~~  143 (264)
                      +++.|.+|+|||+|+..++..
T Consensus         5 ivliG~~~vGKTsli~r~~~~   25 (179)
T d1m7ba_           5 IVVVGDSQCGKTALLHVFAKD   25 (179)
T ss_dssp             EEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            679999999999999988774

>d1mh1a_ c.37.1.8 (A:) Rac {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rac
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.70  E-value=0.018  Score=43.50  Aligned_cols=22  Identities=27%  Similarity=0.326  Sum_probs=19.6

Q ss_pred             EEEEEecCCCChHHHHHHHHHH
Q 024705          122 IVEIYGREASGKTTLALHVIKE  143 (264)
Q Consensus       122 ~~~I~G~~GsGKTtl~~~l~~~  143 (264)
                      -++|.|.+|+|||+|+.+++..
T Consensus         7 KivviG~~~vGKTsli~~~~~~   28 (183)
T d1mh1a_           7 KCVVVGDGAVGKTCLLISYTTN   28 (183)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            4889999999999999998864

>d1zcba2 c.37.1.8 (A:47-75,A:202-372) Transducin (alpha subunit) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=93.69  E-value=0.016  Score=44.05  Aligned_cols=19  Identities=26%  Similarity=0.412  Sum_probs=17.4

Q ss_pred             EEEEecCCCChHHHHHHHH
Q 024705          123 VEIYGREASGKTTLALHVI  141 (264)
Q Consensus       123 ~~I~G~~GsGKTtl~~~l~  141 (264)
                      +++.|.+|+|||+|+.++.
T Consensus         5 ivllG~~~vGKTsll~r~~   23 (200)
T d1zcba2           5 ILLLGAGESGKSTFLKQMR   23 (200)
T ss_dssp             EEEECSTTSSHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHh
Confidence            6899999999999999983

>d2atxa1 c.37.1.8 (A:9-193) RhoQ {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoQ
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.64  E-value=0.02  Score=43.44  Aligned_cols=21  Identities=29%  Similarity=0.411  Sum_probs=18.9

Q ss_pred             EEEEecCCCChHHHHHHHHHH
Q 024705          123 VEIYGREASGKTTLALHVIKE  143 (264)
Q Consensus       123 ~~I~G~~GsGKTtl~~~l~~~  143 (264)
                      ++|.|.+|+|||+|+..++..
T Consensus        12 i~lvG~~~vGKTsLi~r~~~~   32 (185)
T d2atxa1          12 CVVVGDGAVGKTCLLMSYAND   32 (185)
T ss_dssp             EEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHhhC
Confidence            789999999999999988764

>d2g3ya1 c.37.1.8 (A:73-244) GTP-binding protein GEM {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein GEM
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.64  E-value=0.018  Score=43.12  Aligned_cols=20  Identities=35%  Similarity=0.418  Sum_probs=17.9

Q ss_pred             EEEEecCCCChHHHHHHHHH
Q 024705          123 VEIYGREASGKTTLALHVIK  142 (264)
Q Consensus       123 ~~I~G~~GsGKTtl~~~l~~  142 (264)
                      +++.|.+|+|||+|+..+..
T Consensus         6 v~lvG~~~vGKTsLi~~~~~   25 (172)
T d2g3ya1           6 VVLIGEQGVGKSTLANIFAG   25 (172)
T ss_dssp             EEEECCTTSSHHHHHHHHHC
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            68999999999999988764

>d1i2ma_ c.37.1.8 (A:) Ran {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ran
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.63  E-value=0.0094  Score=44.72  Aligned_cols=22  Identities=23%  Similarity=0.374  Sum_probs=17.3

Q ss_pred             EEEEecCCCChHHHHHHHHHHH
Q 024705          123 VEIYGREASGKTTLALHVIKEA  144 (264)
Q Consensus       123 ~~I~G~~GsGKTtl~~~l~~~~  144 (264)
                      +++.|++|+|||+|+.+++..-
T Consensus         6 i~vvG~~~vGKTsli~~~~~~~   27 (170)
T d1i2ma_           6 LVLVGDGGTGKTTFVKRHLTGE   27 (170)
T ss_dssp             EEEEECTTSSHHHHHHTTC---
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            6789999999999998876643

>d2ocpa1 c.37.1.1 (A:37-277) Deoxyguanosine kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxyguanosine kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.56  E-value=0.023  Score=44.75  Aligned_cols=25  Identities=32%  Similarity=0.335  Sum_probs=21.8

Q ss_pred             cEEEEEecCCCChHHHHHHHHHHHh
Q 024705          121 RIVEIYGREASGKTTLALHVIKEAQ  145 (264)
Q Consensus       121 ~~~~I~G~~GsGKTtl~~~l~~~~~  145 (264)
                      .+++|-|.-||||||++..++..+.
T Consensus         3 k~IviEG~~GsGKST~~~~L~~~l~   27 (241)
T d2ocpa1           3 RRLSIEGNIAVGKSTFVKLLTKTYP   27 (241)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHHCT
T ss_pred             eEEEEECCCCCcHHHHHHHHHHHHh
Confidence            5899999999999999998887653

>d1osna_ c.37.1.1 (A:) Thymidine kinase {Varicella-zoster virus [TaxId: 10335]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidine kinase
species: Varicella-zoster virus [TaxId: 10335]

Probab=93.51  E-value=0.017  Score=48.57  Aligned_cols=33  Identities=18%  Similarity=0.119  Sum_probs=28.6

Q ss_pred             EEEEecCCCChHHHHHHHHHHHhhcCCeEEEEe
Q 024705          123 VEIYGREASGKTTLALHVIKEAQKLGGYCAYLD  155 (264)
Q Consensus       123 ~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~  155 (264)
                      |.|-|+-|+||||++..++..+...+.++.++.
T Consensus         8 I~IEG~iGsGKSTl~~~L~~~l~~~g~~v~~~~   40 (331)
T d1osna_           8 IYLDGAYGIGKTTAAEEFLHHFAITPNRILLIG   40 (331)
T ss_dssp             EEEEESSSSCTTHHHHHHHHTTTTSGGGEEEEC
T ss_pred             EEEECCCCCCHHHHHHHHHHHHhhcCCceEEEe
Confidence            789999999999999999887777777787775

>d1ny5a2 c.37.1.20 (A:138-384) Transcriptional activator sigm54 (NtrC1), C-terminal domain {Aquifex aeolicus [TaxId: 63363]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Transcriptional activator sigm54 (NtrC1), C-terminal domain
species: Aquifex aeolicus [TaxId: 63363]

Probab=93.50  E-value=0.03  Score=44.85  Aligned_cols=41  Identities=22%  Similarity=0.156  Sum_probs=29.0

Q ss_pred             CCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEecCCC
Q 024705          119 KGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENA  159 (264)
Q Consensus       119 ~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~e~~  159 (264)
                      ...-++|.|++|+||+++|..+...........+.++....
T Consensus        22 ~~~pvlI~Ge~GtGK~~~A~~ih~~s~~~~~~~~~~~~~~~   62 (247)
T d1ny5a2          22 AECPVLITGESGVGKEVVARLIHKLSDRSKEPFVALNVASI   62 (247)
T ss_dssp             CCSCEEEECSTTSSHHHHHHHHHHHSTTTTSCEEEEETTTS
T ss_pred             CCCCEEEECCCCcCHHHHHHHHHHhcCCcccccccchhhhh
Confidence            34458999999999999998887654444555555655433

>d2fu5c1 c.37.1.8 (C:3-175) Rab8a {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab8a
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=93.45  E-value=0.012  Score=44.20  Aligned_cols=21  Identities=19%  Similarity=0.387  Sum_probs=8.4

Q ss_pred             EEEEecCCCChHHHHHHHHHH
Q 024705          123 VEIYGREASGKTTLALHVIKE  143 (264)
Q Consensus       123 ~~I~G~~GsGKTtl~~~l~~~  143 (264)
                      +++.|.+|+|||||+..++.+
T Consensus         9 i~vvG~~~vGKTsLi~~l~~~   29 (173)
T d2fu5c1           9 LLLIGDSGVGKTCVLFRFSED   29 (173)
T ss_dssp             EEEECCCCC------------
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            789999999999999888764

>d1xzpa2 c.37.1.8 (A:212-371) TrmE GTPase domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: TrmE GTPase domain
species: Thermotoga maritima [TaxId: 2336]

Probab=93.30  E-value=0.0072  Score=44.50  Aligned_cols=21  Identities=33%  Similarity=0.529  Sum_probs=18.8

Q ss_pred             EEEEecCCCChHHHHHHHHHH
Q 024705          123 VEIYGREASGKTTLALHVIKE  143 (264)
Q Consensus       123 ~~I~G~~GsGKTtl~~~l~~~  143 (264)
                      +++.|+|++|||||...+...
T Consensus         3 I~liG~~n~GKSSLin~l~g~   23 (160)
T d1xzpa2           3 MVIVGKPNVGKSTLLNRLLNE   23 (160)
T ss_dssp             EEEECCHHHHTCHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            689999999999999998764

>d1azta2 c.37.1.8 (A:35-65,A:202-391) Transducin (alpha subunit) {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Cow (Bos taurus) [TaxId: 9913]

Probab=93.26  E-value=0.025  Score=44.35  Aligned_cols=21  Identities=24%  Similarity=0.308  Sum_probs=18.7

Q ss_pred             EEEEecCCCChHHHHHHHHHH
Q 024705          123 VEIYGREASGKTTLALHVIKE  143 (264)
Q Consensus       123 ~~I~G~~GsGKTtl~~~l~~~  143 (264)
                      +++.|.+|+|||||+.++...
T Consensus         9 illlG~~~vGKTsll~~~~~~   29 (221)
T d1azta2           9 LLLLGAGESGKSTIVKQMRIL   29 (221)
T ss_dssp             EEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHhcC
Confidence            789999999999999998654

>d2bmja1 c.37.1.8 (A:66-240) Centaurin gamma 1, G domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Centaurin gamma 1, G domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.21  E-value=0.025  Score=42.60  Aligned_cols=21  Identities=24%  Similarity=0.460  Sum_probs=18.8

Q ss_pred             EEEEecCCCChHHHHHHHHHH
Q 024705          123 VEIYGREASGKTTLALHVIKE  143 (264)
Q Consensus       123 ~~I~G~~GsGKTtl~~~l~~~  143 (264)
                      +++.|++|+|||+|+.++...
T Consensus         8 i~vlG~~~vGKTsLi~~~~~~   28 (175)
T d2bmja1           8 LGVLGDARSGKSSLIHRFLTG   28 (175)
T ss_dssp             EEEECCTTTTHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            789999999999999988764

>d2bcjq2 c.37.1.8 (Q:38-66,Q:184-354) Transducin (alpha subunit) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=93.00  E-value=0.031  Score=42.21  Aligned_cols=21  Identities=24%  Similarity=0.289  Sum_probs=18.8

Q ss_pred             EEEEecCCCChHHHHHHHHHH
Q 024705          123 VEIYGREASGKTTLALHVIKE  143 (264)
Q Consensus       123 ~~I~G~~GsGKTtl~~~l~~~  143 (264)
                      +++.|.+|+|||+|+.++...
T Consensus         5 iv~lG~~~vGKTsll~r~~~~   25 (200)
T d2bcjq2           5 LLLLGTGESGKSTFIKQMRII   25 (200)
T ss_dssp             EEEEESTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            689999999999999998654

>d1h65a_ c.37.1.8 (A:) Chloroplast protein translocon GTPase Toc34 {Garden pea (Pisum sativum) [TaxId: 3888]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Chloroplast protein translocon GTPase Toc34
species: Garden pea (Pisum sativum) [TaxId: 3888]

Probab=92.39  E-value=0.035  Score=44.68  Aligned_cols=22  Identities=23%  Similarity=0.434  Sum_probs=19.0

Q ss_pred             EEEEEecCCCChHHHHHHHHHH
Q 024705          122 IVEIYGREASGKTTLALHVIKE  143 (264)
Q Consensus       122 ~~~I~G~~GsGKTtl~~~l~~~  143 (264)
                      .++|.|++|+|||||...+...
T Consensus        34 ~I~LvG~tg~GKSSliN~ilg~   55 (257)
T d1h65a_          34 TILVMGKGGVGKSSTVNSIIGE   55 (257)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCCcHHHHHHHHhCC
Confidence            4889999999999998888753

>d1svsa1 c.37.1.8 (A:32-60,A:182-347) Transducin (alpha subunit) {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=92.29  E-value=0.042  Score=41.21  Aligned_cols=22  Identities=23%  Similarity=0.288  Sum_probs=19.3

Q ss_pred             EEEEecCCCChHHHHHHHHHHH
Q 024705          123 VEIYGREASGKTTLALHVIKEA  144 (264)
Q Consensus       123 ~~I~G~~GsGKTtl~~~l~~~~  144 (264)
                      +++.|..|+|||+|+.++...-
T Consensus         5 ivllG~~~vGKTsl~~r~~~~~   26 (195)
T d1svsa1           5 LLLLGAGESGKSTIVKQMKIIH   26 (195)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHhhCC
Confidence            6899999999999999987654

>d1g8fa3 c.37.1.15 (A:390-511) ATP sulfurylase C-terminal domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ATP sulfurylase C-terminal domain
domain: ATP sulfurylase C-terminal domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=91.89  E-value=0.091  Score=37.18  Aligned_cols=40  Identities=10%  Similarity=0.192  Sum_probs=31.7

Q ss_pred             CCCcEEEEEecCCCChHHHHHHHHHHHhh-cC-CeEEEEecC
Q 024705          118 PKGRIVEIYGREASGKTTLALHVIKEAQK-LG-GYCAYLDVE  157 (264)
Q Consensus       118 ~~G~~~~I~G~~GsGKTtl~~~l~~~~~~-~g-~~v~~~~~e  157 (264)
                      .+|-.+.+.|-+|+||+|++..+...+.. .| .++-.++.+
T Consensus         4 kqgf~i~~tg~~~~gk~~ia~al~~~l~q~~G~R~vtll~~~   45 (122)
T d1g8fa3           4 KQGFSIVLGNSLTVSREQLSIALLSTFLQFGGGRYYKIFEHN   45 (122)
T ss_dssp             GCCEEEEECTTCCSCHHHHHHHHHHHHTTSCSCCCEEECCCT
T ss_pred             ccceEEEEeCCCCCCHHHHHHHHHHHHHHhcCCcceEEecCC
Confidence            35777899999999999999999888876 44 456666555

>d2fz4a1 c.37.1.19 (A:24-229) DNA repair protein RAD25 {Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: DNA repair protein RAD25
species: Archaeoglobus fulgidus [TaxId: 2234]

Probab=90.04  E-value=0.14  Score=39.30  Aligned_cols=42  Identities=24%  Similarity=0.102  Sum_probs=28.9

Q ss_pred             HHHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEec
Q 024705          106 LKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDV  156 (264)
Q Consensus       106 ~~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~~  156 (264)
                      ..++.++. +     .-.+|.+|+|+|||..+..++.   ..+.+++++..
T Consensus        77 eav~~~~~-~-----~~~ll~~~tG~GKT~~a~~~~~---~~~~~~Liv~p  118 (206)
T d2fz4a1          77 KALERWLV-D-----KRGCIVLPTGSGKTHVAMAAIN---ELSTPTLIVVP  118 (206)
T ss_dssp             HHHHHHTT-T-----SEEEEEESSSTTHHHHHHHHHH---HSCSCEEEEES
T ss_pred             HHHHHHHh-C-----CCcEEEeCCCCCceehHHhHHH---HhcCceeEEEc
Confidence            44566664 2     2356889999999987776654   34677888764

>d1f60a3 c.37.1.8 (A:2-240) Elongation factor eEF-1alpha, N-terminal (G) domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor eEF-1alpha, N-terminal (G) domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=89.92  E-value=0.087  Score=41.82  Aligned_cols=90  Identities=17%  Similarity=0.176  Sum_probs=48.6

Q ss_pred             EEEEEecCCCChHHHHHHHHHHHh---------------hcCCeEEEEecCCC-CCHHHHHHcCCCc---------ccee
Q 024705          122 IVEIYGREASGKTTLALHVIKEAQ---------------KLGGYCAYLDVENA-LDPSLAEAMGIDA---------ENLL  176 (264)
Q Consensus       122 ~~~I~G~~GsGKTtl~~~l~~~~~---------------~~g~~v~~~~~e~~-~~~~~~~~~g~~~---------~~l~  176 (264)
                      .+++.|-.++|||||+-.++...-               ..++...-+..-.. ...++.+.+.++.         .++.
T Consensus         8 Ni~iiGHvD~GKsTl~~~ll~~~g~i~~~~~~~~~~~~~~~~~~~~~~~~~~D~~~~Er~rGiTi~~~~~~~~~~~~~i~   87 (239)
T d1f60a3           8 NVVVIGHVDSGKSTTTGHLIYKCGGIDKRTIEKFEKEAAELGKGSFKYAWVLDKLKAERERGITIDIALWKFETPKYQVT   87 (239)
T ss_dssp             EEEEEECTTSCHHHHHHHHHHHHSCSSHHHHHHHHHHGGGGSSSCCCHHHHHHHHHHHHHTTCCCSCSCEEEECSSEEEE
T ss_pred             EEEEEeCCCCCHHHHHHHHHHHcCCccHHHHHHHHHHHHHhcCCccceeeecccchhhhcceeccccceeEeccCCEEEE
Confidence            578999999999999988875431               11111100000000 0002222222222         1345


Q ss_pred             EeCCCCHHHHHHHHHHHhhcCCccEEEEcCccccc
Q 024705          177 IAQPDSAENLLSVVDTLTKSGSIDVIVVDSVAALI  211 (264)
Q Consensus       177 ~~~~~~~ee~~~~i~~~~~~~~~~~vvIDsl~~~~  211 (264)
                      +.+...-.++...+.+-.......++|||.....+
T Consensus        88 iiDtPGH~df~~~~~~g~~~~D~ailvvda~~G~~  122 (239)
T d1f60a3          88 VIDAPGHRDFIKNMITGTSQADCAILIIAGGVGEF  122 (239)
T ss_dssp             EEECCCCTTHHHHHHHSSSCCSEEEEEEECSHHHH
T ss_pred             EEECCCcHHHHHHHHHHHHHhCEEEEEEECCCCcc
Confidence            55555556777666665555667788899776654

>d1p6xa_ c.37.1.1 (A:) Thymidine kinase {Equine herpesvirus type 4 [TaxId: 10331]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidine kinase
species: Equine herpesvirus type 4 [TaxId: 10331]

Probab=89.78  E-value=0.096  Score=43.75  Aligned_cols=33  Identities=21%  Similarity=0.215  Sum_probs=24.8

Q ss_pred             EEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEe
Q 024705          122 IVEIYGREASGKTTLALHVIKEAQKLGGYCAYLD  155 (264)
Q Consensus       122 ~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~  155 (264)
                      .|.|-|+-|+||||++..++..... ++.+.++.
T Consensus         8 rI~iEG~iGsGKSTl~~~L~~~l~~-~~~v~~~~   40 (333)
T d1p6xa_           8 RIYLDGVYGIGKSTTGRVMASAASG-GSPTLYFP   40 (333)
T ss_dssp             EEEEECSTTSSHHHHHHHHHSGGGC-SSCEEEEC
T ss_pred             EEEEECCccCCHHHHHHHHHHHhcc-CCCeEEEe
Confidence            4778999999999999888776543 44566653

>d1j3ba1 c.91.1.1 (A:212-529) Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase) {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: PEP carboxykinase C-terminal domain
domain: Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase)
species: Thermus thermophilus [TaxId: 274]

Probab=89.41  E-value=0.093  Score=43.45  Aligned_cols=20  Identities=35%  Similarity=0.669  Sum_probs=17.6

Q ss_pred             CCcEEEEEecCCCChHHHHH
Q 024705          119 KGRIVEIYGREASGKTTLAL  138 (264)
Q Consensus       119 ~G~~~~I~G~~GsGKTtl~~  138 (264)
                      .|++.++.|.+|+|||||..
T Consensus        13 ~~~valffGLSGTGKTTLs~   32 (318)
T d1j3ba1          13 EGDVAVFFGLSGTGKTTLST   32 (318)
T ss_dssp             TCCEEEEEECTTSCHHHHTC
T ss_pred             CCCEEEEEccCCCCcccccc
Confidence            47899999999999999653

>d2olra1 c.91.1.1 (A:228-540) Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase) {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: PEP carboxykinase C-terminal domain
domain: Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase)
species: Escherichia coli [TaxId: 562]

Probab=89.16  E-value=0.1  Score=43.06  Aligned_cols=20  Identities=40%  Similarity=0.715  Sum_probs=17.9

Q ss_pred             CCCcEEEEEecCCCChHHHH
Q 024705          118 PKGRIVEIYGREASGKTTLA  137 (264)
Q Consensus       118 ~~G~~~~I~G~~GsGKTtl~  137 (264)
                      ..|++.++.|-+|+|||||.
T Consensus        12 ~~~~~alfFGLSGTGKTTLs   31 (313)
T d2olra1          12 EKGDVAVFFGLSGTGKTTLS   31 (313)
T ss_dssp             TTSCEEEEECSTTSSHHHHH
T ss_pred             CCCCEEEEEccCCCCcccce
Confidence            46899999999999999965

>d2qn6a3 c.37.1.8 (A:2-206) Initiation factor eIF2 gamma subunit, N-terminal (G) domain {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: G proteins
domain: Initiation factor eIF2 gamma subunit, N-terminal (G) domain
species: Sulfolobus solfataricus [TaxId: 2287]

Probab=89.01  E-value=2.5  Score=31.65  Aligned_cols=22  Identities=27%  Similarity=0.338  Sum_probs=18.9

Q ss_pred             cEEEEEecCCCChHHHHHHHHH
Q 024705          121 RIVEIYGREASGKTTLALHVIK  142 (264)
Q Consensus       121 ~~~~I~G~~GsGKTtl~~~l~~  142 (264)
                      =.+.|.|...+|||||+-.+..
T Consensus         9 ini~iiGhVd~GKSTL~~~L~~   30 (205)
T d2qn6a3           9 VNIGVVGHVDHGKTTLVQAITG   30 (205)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHS
T ss_pred             eEEEEEEccCCcHHHHHHHHHh
Confidence            3589999999999999988863

>d1tq4a_ c.37.1.8 (A:) Interferon-inducible GTPase {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Interferon-inducible GTPase
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=88.77  E-value=0.11  Score=44.46  Aligned_cols=20  Identities=25%  Similarity=0.388  Sum_probs=18.1

Q ss_pred             EEEEecCCCChHHHHHHHHH
Q 024705          123 VEIYGREASGKTTLALHVIK  142 (264)
Q Consensus       123 ~~I~G~~GsGKTtl~~~l~~  142 (264)
                      +.|.|++|+|||||...+..
T Consensus        59 Iai~G~~n~GKSSLiNaL~G   78 (400)
T d1tq4a_          59 VAVTGETGSGKSSFINTLRG   78 (400)
T ss_dssp             EEEEECTTSSHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHhC
Confidence            89999999999999888864

>d1kk1a3 c.37.1.8 (A:6-200) Initiation factor eIF2 gamma subunit, N-terminal (G) domain {Archaeon Pyrococcus abyssi [TaxId: 29292]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Initiation factor eIF2 gamma subunit, N-terminal (G) domain
species: Archaeon Pyrococcus abyssi [TaxId: 29292]

Probab=88.56  E-value=0.88  Score=34.01  Aligned_cols=20  Identities=30%  Similarity=0.419  Sum_probs=17.7

Q ss_pred             EEEEecCCCChHHHHHHHHH
Q 024705          123 VEIYGREASGKTTLALHVIK  142 (264)
Q Consensus       123 ~~I~G~~GsGKTtl~~~l~~  142 (264)
                      +.|.|...+|||||+-.+..
T Consensus         8 IaiiGhvd~GKSTL~~~L~g   27 (195)
T d1kk1a3           8 IGMVGHVDHGKTTLTKALTG   27 (195)
T ss_dssp             EEEECSTTSSHHHHHHHHHT
T ss_pred             EEEEeccCCcHHHHHHHHHh
Confidence            68899999999999988864

>d1zunb3 c.37.1.8 (B:16-237) Sulfate adenylate transferase subunit cysN/C, EF-Tu domain G-like domain {Pseudomonas syringae pv. tomato [TaxId: 323]}

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: Sulfate adenylate transferase subunit cysN/C, EF-Tu domain G-like domain
species: Pseudomonas syringae pv. tomato [TaxId: 323]

Probab=88.40  E-value=1.5  Score=33.78  Aligned_cols=21  Identities=24%  Similarity=0.359  Sum_probs=18.3

Q ss_pred             EEEEecCCCChHHHHHHHHHH
Q 024705          123 VEIYGREASGKTTLALHVIKE  143 (264)
Q Consensus       123 ~~I~G~~GsGKTtl~~~l~~~  143 (264)
                      ++++|-..+|||||+-++...
T Consensus        12 i~viGHVd~GKSTL~~~Ll~~   32 (222)
T d1zunb3          12 FLTCGNVDDGKSTLIGRLLHD   32 (222)
T ss_dssp             EEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEEcCCCCCHHHHHHHHHHH
Confidence            578999999999999988653

>d1ii2a1 c.91.1.1 (A:201-523) Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase) {Trypanosoma cruzi [TaxId: 5693]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: PEP carboxykinase C-terminal domain
domain: Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase)
species: Trypanosoma cruzi [TaxId: 5693]

Probab=87.84  E-value=0.14  Score=42.42  Aligned_cols=20  Identities=35%  Similarity=0.684  Sum_probs=17.8

Q ss_pred             CCCcEEEEEecCCCChHHHH
Q 024705          118 PKGRIVEIYGREASGKTTLA  137 (264)
Q Consensus       118 ~~G~~~~I~G~~GsGKTtl~  137 (264)
                      ..|++.++.|-+|+|||||.
T Consensus        12 ~~gd~alfFGLSGTGKTTLs   31 (323)
T d1ii2a1          12 KQGDVTVFFGLSGTGKTTLS   31 (323)
T ss_dssp             TTCCEEEEECCTTSSHHHHH
T ss_pred             CCCCEEEEEccCCCCcccce
Confidence            35789999999999999976

>d1ni3a1 c.37.1.8 (A:11-306) YchF GTP-binding protein N-terminal domain {Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]}

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: YchF GTP-binding protein N-terminal domain
species: Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]

Probab=86.73  E-value=0.28  Score=39.79  Aligned_cols=24  Identities=25%  Similarity=0.248  Sum_probs=20.0

Q ss_pred             CcEEEEEecCCCChHHHHHHHHHH
Q 024705          120 GRIVEIYGREASGKTTLALHVIKE  143 (264)
Q Consensus       120 G~~~~I~G~~GsGKTtl~~~l~~~  143 (264)
                      +=-++|+|.|.+|||||...+...
T Consensus        10 ~~kiGivG~Pn~GKSTlfnalT~~   33 (296)
T d1ni3a1          10 NLKTGIVGMPNVGKSTFFRAITKS   33 (296)
T ss_dssp             CCEEEEEECSSSSHHHHHHHHHHS
T ss_pred             CcEEEEECCCCCCHHHHHHHHHCC
Confidence            334899999999999998888754

>d1lkxa_ c.37.1.9 (A:) Myosin S1, motor domain {Dictyostelium discoideum, class-I myosin MyoE [TaxId: 44689]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Motor proteins
domain: Myosin S1, motor domain
species: Dictyostelium discoideum, class-I myosin MyoE [TaxId: 44689]

Probab=86.19  E-value=0.26  Score=45.08  Aligned_cols=27  Identities=22%  Similarity=0.322  Sum_probs=22.5

Q ss_pred             CCCcEEEEEecCCCChHHHHHHHHHHH
Q 024705          118 PKGRIVEIYGREASGKTTLALHVIKEA  144 (264)
Q Consensus       118 ~~G~~~~I~G~~GsGKTtl~~~l~~~~  144 (264)
                      .+.+.++|.|++|||||+-+..++.-+
T Consensus        84 ~~~QsIiisGeSGsGKTe~~k~il~yL  110 (684)
T d1lkxa_          84 QENQCVIISGESGAGKTEASKKIMQFL  110 (684)
T ss_dssp             CCCEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCCeEEEEEcCCCCCHHHHHHHHHHHH
Confidence            367889999999999999888776544

>d1d0xa2 c.37.1.9 (A:2-33,A:80-759) Myosin S1, motor domain {Dictyostelium discoideum [TaxId: 44689]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Motor proteins
domain: Myosin S1, motor domain
species: Dictyostelium discoideum [TaxId: 44689]

Probab=85.48  E-value=0.3  Score=44.90  Aligned_cols=27  Identities=26%  Similarity=0.305  Sum_probs=22.7

Q ss_pred             CCcEEEEEecCCCChHHHHHHHHHHHh
Q 024705          119 KGRIVEIYGREASGKTTLALHVIKEAQ  145 (264)
Q Consensus       119 ~G~~~~I~G~~GsGKTtl~~~l~~~~~  145 (264)
                      +.+.++|.|++|||||.-+..++.-++
T Consensus       124 ~nQsIiisGeSGaGKTe~~k~il~yL~  150 (712)
T d1d0xa2         124 QNQSLLITGESGAGKTENTKKVIQYLA  150 (712)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             CCceEEEeCCCCCCHHHHHHHHHHHHH
Confidence            568999999999999998887766543

>d1br2a2 c.37.1.9 (A:80-789) Myosin S1, motor domain {Chicken (Gallus gallus), pectoral muscle [TaxId: 9031]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Motor proteins
domain: Myosin S1, motor domain
species: Chicken (Gallus gallus), pectoral muscle [TaxId: 9031]

Probab=84.70  E-value=0.34  Score=44.50  Aligned_cols=27  Identities=22%  Similarity=0.251  Sum_probs=23.1

Q ss_pred             CCcEEEEEecCCCChHHHHHHHHHHHh
Q 024705          119 KGRIVEIYGREASGKTTLALHVIKEAQ  145 (264)
Q Consensus       119 ~G~~~~I~G~~GsGKTtl~~~l~~~~~  145 (264)
                      +.+.++|.|++|||||+-+..++.-++
T Consensus        90 ~~Q~IiisGeSGaGKTe~~k~il~yL~  116 (710)
T d1br2a2          90 EDQSILCTGESGAGKTENTKKVIQYLA  116 (710)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             CCcEEEEEeCCCCCHHHHHHHHHHHHH
Confidence            568899999999999998888876654

>d1w36b1 c.37.1.19 (B:1-485) Exodeoxyribonuclease V beta chain (RecB), N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Exodeoxyribonuclease V beta chain (RecB), N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=84.56  E-value=0.35  Score=41.13  Aligned_cols=29  Identities=21%  Similarity=0.074  Sum_probs=22.6

Q ss_pred             CCCCcEEEEEecCCCChHHHHHHHHHHHh
Q 024705          117 LPKGRIVEIYGREASGKTTLALHVIKEAQ  145 (264)
Q Consensus       117 l~~G~~~~I~G~~GsGKTtl~~~l~~~~~  145 (264)
                      .|....++|.+.+|||||+.+.+-+..+.
T Consensus        13 ~p~~g~~lv~A~AGsGKT~~l~~r~~~ll   41 (485)
T d1w36b1          13 LPLQGERLIEASAGTGKTFTIAALYLRLL   41 (485)
T ss_dssp             CCCSSCEEEECCTTSCHHHHHHHHHHHHH
T ss_pred             CCCCCCeEEEEcCchHHHHHHHHHHHHHH
Confidence            45556688999999999998777666554

>d2mysa2 c.37.1.9 (A:4-33,A:80-843) Myosin S1, motor domain {Chicken (Gallus gallus), pectoral muscle [TaxId: 9031]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Motor proteins
domain: Myosin S1, motor domain
species: Chicken (Gallus gallus), pectoral muscle [TaxId: 9031]

Probab=84.47  E-value=0.36  Score=44.87  Aligned_cols=36  Identities=22%  Similarity=0.228  Sum_probs=26.2

Q ss_pred             HHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHHh
Q 024705          107 KLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQ  145 (264)
Q Consensus       107 ~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~  145 (264)
                      +...++.   -.+.+.++|.|++|||||.-+..++.-++
T Consensus       113 Ay~~m~~---~~~~QsIiisGeSGaGKTe~~K~il~yL~  148 (794)
T d2mysa2         113 AYQFMLT---DRENQSILITGESGAGKTVNTKRVIQYFA  148 (794)
T ss_dssp             HHHHHHH---HTCCEEEEEEECTTSCHHHHHHHHHHHHH
T ss_pred             HHHHHHH---cCCCcEEEEEcCCCCCHHHHHHHHHHHHH
Confidence            3444454   23567899999999999998877776554

>d1f5na2 c.37.1.8 (A:7-283) Interferon-induced guanylate-binding protein 1 (GBP1), N-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Interferon-induced guanylate-binding protein 1 (GBP1), N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=84.22  E-value=0.29  Score=39.55  Aligned_cols=22  Identities=27%  Similarity=0.308  Sum_probs=19.6

Q ss_pred             cEEEEEecCCCChHHHHHHHHH
Q 024705          121 RIVEIYGREASGKTTLALHVIK  142 (264)
Q Consensus       121 ~~~~I~G~~GsGKTtl~~~l~~  142 (264)
                      .++.|.||.++|||+|+..+..
T Consensus        33 ~vvsi~G~~~sGKS~llN~l~~   54 (277)
T d1f5na2          33 VVVAIVGLYRTGKSYLMNKLAG   54 (277)
T ss_dssp             EEEEEEEBTTSSHHHHHHHHTT
T ss_pred             EEEEEECCCCCCHHHHHHHHcC
Confidence            5889999999999999988765

>d1wxqa1 c.37.1.8 (A:1-319) GTP-binding protein PH0525 {Pyrococcus horikoshii [TaxId: 53953]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein PH0525
species: Pyrococcus horikoshii [TaxId: 53953]

Probab=83.96  E-value=0.27  Score=40.16  Aligned_cols=21  Identities=19%  Similarity=0.286  Sum_probs=17.6

Q ss_pred             EEEEecCCCChHHHHHHHHHH
Q 024705          123 VEIYGREASGKTTLALHVIKE  143 (264)
Q Consensus       123 ~~I~G~~GsGKTtl~~~l~~~  143 (264)
                      +.|+|.|.+|||||...+...
T Consensus         3 v~lvG~pn~GKStlfn~lt~~   23 (319)
T d1wxqa1           3 IGVVGKPNVGKSTFFSAATLV   23 (319)
T ss_dssp             EEEEECTTSSHHHHHHHHHC-
T ss_pred             EeEECCCCCCHHHHHHHHHCC
Confidence            689999999999998887543

>d1e2ka_ c.37.1.1 (A:) Thymidine kinase {Herpes simplex virus type 1, different strains [TaxId: 10298]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidine kinase
species: Herpes simplex virus type 1, different strains [TaxId: 10298]

Probab=83.83  E-value=0.19  Score=41.78  Aligned_cols=31  Identities=26%  Similarity=0.245  Sum_probs=21.7

Q ss_pred             EEEEEecCCCChHHHHHHHHHHHhhcCCeEEEE
Q 024705          122 IVEIYGREASGKTTLALHVIKEAQKLGGYCAYL  154 (264)
Q Consensus       122 ~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~  154 (264)
                      .|.|-|+-|+||||++..++....  +..+.++
T Consensus         6 rI~IEG~iGsGKTTl~~~La~~l~--~~~v~~~   36 (329)
T d1e2ka_           6 RVYIDGPHGMGKTTTTQLLVALGS--RDDIVYV   36 (329)
T ss_dssp             EEEECSCTTSSHHHHHHHHTC------CCEEEE
T ss_pred             EEEEECCcCCCHHHHHHHHHHHhC--CCCeEEe
Confidence            478999999999999988876543  3346555

>d1kk8a2 c.37.1.9 (A:1-28,A:77-837) Myosin S1, motor domain {Bay scallop (Aequipecten irradians) [TaxId: 31199]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Motor proteins
domain: Myosin S1, motor domain
species: Bay scallop (Aequipecten irradians) [TaxId: 31199]

Probab=82.84  E-value=0.38  Score=44.65  Aligned_cols=27  Identities=26%  Similarity=0.244  Sum_probs=22.8

Q ss_pred             CCcEEEEEecCCCChHHHHHHHHHHHh
Q 024705          119 KGRIVEIYGREASGKTTLALHVIKEAQ  145 (264)
Q Consensus       119 ~G~~~~I~G~~GsGKTtl~~~l~~~~~  145 (264)
                      +.+.++|.|++|||||.-+..++.-++
T Consensus       120 ~nQ~IiisGESGaGKTe~~K~il~yL~  146 (789)
T d1kk8a2         120 ENQSCLITGESGAGKTENTKKVIMYLA  146 (789)
T ss_dssp             SEEEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             CCcEEEEEeCCCCCHHHHHHHHHHHHH
Confidence            568999999999999998777776654

>d1jala1 c.37.1.8 (A:1-278) YchF GTP-binding protein N-terminal 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: G proteins
domain: YchF GTP-binding protein N-terminal domain
species: Haemophilus influenzae [TaxId: 727]

Probab=82.75  E-value=0.36  Score=38.71  Aligned_cols=21  Identities=33%  Similarity=0.298  Sum_probs=18.0

Q ss_pred             EEEEEecCCCChHHHHHHHHH
Q 024705          122 IVEIYGREASGKTTLALHVIK  142 (264)
Q Consensus       122 ~~~I~G~~GsGKTtl~~~l~~  142 (264)
                      -++|+|-|.+|||||...+..
T Consensus         4 ~~GivG~Pn~GKSTlf~~lt~   24 (278)
T d1jala1           4 KCGIVGLPNVGKSTLFNALTK   24 (278)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHC
Confidence            478999999999998887764

>d1w7ja2 c.37.1.9 (A:63-792) Myosin S1, motor domain {Chicken (Gallus gallus), Va isoform [TaxId: 9031]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Motor proteins
domain: Myosin S1, motor domain
species: Chicken (Gallus gallus), Va isoform [TaxId: 9031]

Probab=82.09  E-value=0.49  Score=43.47  Aligned_cols=27  Identities=19%  Similarity=0.268  Sum_probs=22.7

Q ss_pred             CCcEEEEEecCCCChHHHHHHHHHHHh
Q 024705          119 KGRIVEIYGREASGKTTLALHVIKEAQ  145 (264)
Q Consensus       119 ~G~~~~I~G~~GsGKTtl~~~l~~~~~  145 (264)
                      +.+.++|.|++|||||.-+..++..++
T Consensus        93 ~~Q~IiisGeSGsGKTe~~k~il~~l~  119 (730)
T d1w7ja2          93 RNQSIIVSGESGAGKTVSAKYAMRYFA  119 (730)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             CCeEEEEEeCCCCCHHHHHHHHHHHHH
Confidence            568899999999999998888766554

>d1oywa2 c.37.1.19 (A:1-206) RecQ helicase domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: RecQ helicase domain
species: Escherichia coli [TaxId: 562]

Probab=81.12  E-value=0.42  Score=36.10  Aligned_cols=41  Identities=22%  Similarity=0.165  Sum_probs=27.3

Q ss_pred             HHHHHHhcCCCCCCCcEEEEEecCCCChHHHHHHHHHHHhhcCCeEEEEe
Q 024705          106 LKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLD  155 (264)
Q Consensus       106 ~~LD~~l~~gGl~~G~~~~I~G~~GsGKTtl~~~l~~~~~~~g~~v~~~~  155 (264)
                      ..++.++.      |.-+++..|+|+|||......   .......++|+.
T Consensus        32 ~ai~~~l~------g~~vlv~apTGsGKT~~~~~~---~~~~~~~~~~v~   72 (206)
T d1oywa2          32 EIIDTVLS------GRDCLVVMPTGGGKSLCYQIP---ALLLNGLTVVVS   72 (206)
T ss_dssp             HHHHHHHT------TCCEEEECSCHHHHHHHHHHH---HHHSSSEEEEEC
T ss_pred             HHHHHHHc------CCCEEEEcCCCCCCcchhhhh---hhhccCceEEec
Confidence            34666665      345889999999999754322   234566777765