Citrus Sinensis ID: 021239

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-----
Protein Sequence
MVQLLQPFRFSSIAPRRFFSLFPSFSQNGRRDAITCIGMNIHSLSSAAEVPEFDDEPHDDAKIMQKDNALRLALSQLANDFGKESMLSLKRFFGSRRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVRFSAKSGQGLGRMDEVTSGGNALKFYAALRLRMMRTRLFKIADKVNILEVVNIGSMIRL
Secondary Structure (PSIPRED)
cccccccccccccccccccccccccccccccccEEEcccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHcccccEEEcccccccccccEEccccHHHHHHHcccccccccEEEEEccccccHHHHHHHHHHHHHHcccEEEEEEccccccHHHHHHHccccccccccccccHHHHHHHHHHHHHHccccEEEEEEEEcccccccccccccccHHHHHHHHHHHHHHHHHHccccccEEEEEEEcccccccEEEccccccccccccccEEEEEEEEEEEEEEccccccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
ccEEcccccccccccHHHHcccccccccccccHEEHHccccccccccccccccccccccccccccHHHHHHHHHHHHHHHcccccEEEcccccccccEEEEccccccHHHHHccccccccEEEEEEccccccHHHHHHHHHHHHHHcccEEEEEEcHHcccHHHHHHHcccHHHHEEcccccHHHHHHHHHHHHHcccEEEEEEEcHHEEcccHEEcccccccHHHHHHHHHHHHHHHHHHHHHccccEEEEEEEEEccHcEEEEccccccccccccHHHHEEEEEEEHEEHcccccccEEEEEEEEEEcccccc
Coil and Loop (DISEMBL)
mvqllqpfrfssiaprrffslfpsfsqngrrdaiTCIGmnihslssaaevpefddephddakIMQKDNALRLALSQLANDFGKESMLSLKRFfgsrrgpvistgsLKLDLAlgigglpkgriveiygreasgkTTLALHVIKEAQKLGGycayldvenaldpslaeamgidaenlliaqpdsaENLLSVVDTLTKSGSIDVIVVDSVAAlipkceigvpingmysDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVRfsaksgqglgrmdevtsgGNALKFYAALRLRMMRTRLFKIADKVNILEVVNIGSMIRL
Flexible Loop (DISEMBL)
mvqllqpfrfssiaprrfFSLFPSFSQNGRRDAITCIGMNIHSLSSAAEVPEFDDEPHDDAKIMQKDNALRLALSQLANDFGKESMLSLKRFFGSRRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVRFSAKSGQGlgrmdevtsggNALKFYAALRLRMMRTRLfkiadkvnilevvnigsmirl
Low Complexity Region (SEG)
MVQLLQPFRFSSIAprrffslfpsfsQNGRRDAITCIGMNIHSLSSAAEVPEFDDEPHDDAKIMQKDNALRLALSQLANDFGKESMLSLKRFFGSRRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTKSGsidvivvdsvaaLIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVRFSAKSGQGLGRMDEVTSGGNALKFYAAlrlrmmrtrlFKIADKVNILEVVNIGSMIRL
Disordered region (IsUnstruct)
******PFRFSSIAPRRFFSLFPSFSQNGRRDAITCIGMNIHSL*************************LRLALSQLANDFGKESMLSLKRFFGSRRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVRFSAKSGQGLGRMDEVTSGGNALKFYAALRLRMMRTRLFKIADKVNILEVVNIGS****
Disordered Region (DISOPRED)
********RFSSIAPRRFFSLFPS***********************************************LALSQLANDFGKESMLSLKRFFGSRRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVRFSAKSGQGLGRMDEVTSGGNALKFYAALRLRMMRTRLFKIADKVNILEVVNIGSMI**
Disordered Region (DISEMBL)
MVQLLQPFRFSSIAPRRFFSLFPSFSQNGRRDAITCIGMNIHSLSSAAEVPEFDDEPHDDAKIMQKDNALRLALSQLANDFGKESMLSLKRFFGSRRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVRFSAKSGQGLGRMDEVTSGGNALKFYAALRLRMMRTRLFKIADKVNILEVVNIGSMIRL
Disordered Region (DISPRO)
*VQLLQPFRFSSIAPRRFFSLFPSFSQNGRRDAITCIGMNIHSLS******************MQKDNALRLALSQLANDFGKESMLSLKRFFGSRRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVRFSAKSGQGLGRMDEVTSGGNALKFYAALRLRMMRTRLFKIADKVNILEVVNIGS****
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MVQLLQPFRFSSIAPRRFFSLFPSFSQNGRRDAITCIGMNIHSLSSAAEVPEFDDEPHDDAKIMQKDNALRLALSQLANDFGKESMLSLKRFFGSRRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVRFSAKSGQGLGRMDEVTSGGNALKFYAALRLRMMRTRLFKIADKVNILEVVNIGSMIRL
Positional Conservation
no confident homologs detected

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Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	315	2.2.26 [Sep-21-2011]
Q8RY99	389	DNA repair protein recA h	yes	no	0.946	0.766	0.62	5e-95
Q9ZUP2	430	DNA repair protein recA h	no	no	0.790	0.579	0.546	9e-64
A5FXB8	343	Protein RecA OS=Acidiphil	yes	no	0.749	0.688	0.523	1e-62
Q89I84	362	Protein RecA OS=Bradyrhiz	yes	no	0.746	0.649	0.525	1e-62
Q3ST50	362	Protein RecA OS=Nitrobact	yes	no	0.746	0.649	0.512	7e-62
B9JFS7	361	Protein RecA OS=Agrobacte	yes	no	0.752	0.656	0.529	1e-61
B0CH00	361	Protein RecA OS=Brucella	yes	no	0.746	0.650	0.533	1e-61
P65976	361	Protein RecA OS=Brucella	yes	no	0.746	0.650	0.533	1e-61
P65975	361	Protein RecA OS=Brucella	yes	no	0.746	0.650	0.533	1e-61
C0RJG9	361	Protein RecA OS=Brucella	yes	no	0.746	0.650	0.533	1e-61

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

 Score =  347 bits (891), Expect = 5e-95,   Method: Compositional matrix adjust.
 Identities = 186/300 (62%), Positives = 226/300 (75%), Gaps = 2/300 (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 HTLIIFLNQVRFSAKSGQGLGRMDEVTSGGNALKFYAALRLRMMRTRLFKIADKVNILEV 306
            TLI+FLNQVR   KS       +EVT GGNAL F+AA+RL+M+RT L K A+K++ L V
Sbjct: 243 QTLIVFLNQVRSHVKSNMHFPHAEEVTCGGNALPFHAAIRLKMIRTGLIKTANKISGLNV 302

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

>sp|Q9ZUP2|RECA3_ARATH DNA repair protein recA homolog 3, mitochondrial OS=Arabidopsis thaliana GN=At2g19490 PE=2 SV=2

 Score =  243 bits (621), Expect = 9e-64,   Method: Compositional matrix adjust.
 Identities = 136/249 (54%), Positives = 177/249 (71%)

Query: 54  DDEPHDDAKIMQKDNALRLALSQLANDFGKESMLSLKRFFGSRRGPVISTGSLKLDLALG 113
           D     +  + +K+ AL+ AL Q+ + FGK S++ L R    R  PV STGS  LD+ALG
Sbjct: 46  DGNGSSEEGMSKKEIALQQALDQITSSFGKGSIMYLGRAVSPRNVPVFSTGSFALDVALG 105

Query: 114 IGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAE 173
           +GGLPKGR+VEIYG EASGKTTLALHVI EAQK GG C ++D E+ALD SLA+A+G++ E
Sbjct: 106 VGGLPKGRVVEIYGPEASGKTTLALHVIAEAQKQGGTCVFVDAEHALDSSLAKAIGVNTE 165

Query: 174 NLLIAQPDSAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMT 233
           NLL++QPD  E  LS+VDTL +SGS+DVIVVDSVAAL+PK E+   +   +   Q+R+M+
Sbjct: 166 NLLLSQPDCGEQALSLVDTLIRSGSVDVIVVDSVAALVPKGELEGEMGDAHMAMQARLMS 225

Query: 234 QALRKIHYSLCQSHTLIIFLNQVRFSAKSGQGLGRMDEVTSGGNALKFYAALRLRMMRTR 293
           QALRK+ +SL  S TL+IF+NQVR    +  G G   EVT GGNALKFYA++RL + R  
Sbjct: 226 QALRKLSHSLSLSQTLLIFINQVRSKLSTFGGFGGPTEVTCGGNALKFYASMRLNIKRIG 285

Query: 294 LFKIADKVN 302
           L K  ++  
Sbjct: 286 LIKKGEETT 294

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 =  240 bits (612), Expect = 1e-62,   Method: Compositional matrix adjust.
 Identities = 125/239 (52%), Positives = 169/239 (70%), Gaps = 3/239 (1%)

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 CQSHTLIIFLNQVRFSAKSGQGLGRMDEVTSGGNALKFYAALRLRMMRTRLFKIADKVN 302
            +S TL+IFLNQ+R   K G   G   E T+GGNALKFYA++R+ + R    K  ++V 
Sbjct: 181 SRSKTLVIFLNQIRL--KIGVMFGN-PETTTGGNALKFYASIRMDIRRIGSIKDREEVT 236

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 =  239 bits (611), Expect = 1e-62,   Method: Compositional matrix adjust.
 Identities = 125/238 (52%), Positives = 167/238 (70%), Gaps = 3/238 (1%)

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 CQSHTLIIFLNQVRFSAKSGQGLGRMDEVTSGGNALKFYAALRLRMMRTRLFKIADKV 301
            +SHT++IF+NQ+R   K G   G   E T+GGNALKFYA++RL + R    K  D+V
Sbjct: 194 NKSHTMVIFINQIRM--KIGVMYGS-PETTTGGNALKFYASVRLDIRRIGAIKERDEV 248

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

 Score =  237 bits (605), Expect = 7e-62,   Method: Compositional matrix adjust.
 Identities = 122/238 (51%), Positives = 168/238 (70%), Gaps = 3/238 (1%)

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 CQSHTLIIFLNQVRFSAKSGQGLGRMDEVTSGGNALKFYAALRLRMMRTRLFKIADKV 301
            +S+T++IF+NQ+R   K G   G   E T+GGNALKFYA++RL + R    K  D+V
Sbjct: 194 NKSNTMVIFINQIRM--KIGVMYGS-PETTTGGNALKFYASVRLDIRRIGAIKERDEV 248

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

 Score =  237 bits (604), Expect = 1e-61,   Method: Compositional matrix adjust.
 Identities = 127/240 (52%), Positives = 165/240 (68%), Gaps = 3/240 (1%)

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 SLCQSHTLIIFLNQVRFSAKSGQGLGRMDEVTSGGNALKFYAALRLRMMRTRLFKIADKV 301
           S+ +S+T++IF+NQ+R   K G   G   E T+GGNALKFYA++RL + R    K  ++V
Sbjct: 192 SISKSNTMVIFINQIRM--KIGVMFGS-PETTTGGNALKFYASVRLDIRRIGAVKEREEV 248

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

 Score =  236 bits (603), Expect = 1e-61,   Method: Compositional matrix adjust.
 Identities = 127/238 (53%), Positives = 165/238 (69%), Gaps = 3/238 (1%)

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 CQSHTLIIFLNQVRFSAKSGQGLGRMDEVTSGGNALKFYAALRLRMMRTRLFKIADKV 301
            +S+ ++IF+NQ+R   K G   G   E T+GGNALKFYA++RL + R    K  D+V
Sbjct: 194 SRSNCMVIFINQIRM--KIGVMFGS-PETTTGGNALKFYASVRLDIRRIGSIKERDEV 248

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

 Score =  236 bits (602), Expect = 1e-61,   Method: Compositional matrix adjust.
 Identities = 127/238 (53%), Positives = 165/238 (69%), Gaps = 3/238 (1%)

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 CQSHTLIIFLNQVRFSAKSGQGLGRMDEVTSGGNALKFYAALRLRMMRTRLFKIADKV 301
            +S+ ++IF+NQ+R   K G   G   E T+GGNALKFYA++RL + R    K  D+V
Sbjct: 194 SRSNCMVIFINQIRM--KIGVMFGS-PETTTGGNALKFYASVRLDIRRIGSIKERDEV 248

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 =  236 bits (602), Expect = 1e-61,   Method: Compositional matrix adjust.
 Identities = 127/238 (53%), Positives = 165/238 (69%), Gaps = 3/238 (1%)

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 CQSHTLIIFLNQVRFSAKSGQGLGRMDEVTSGGNALKFYAALRLRMMRTRLFKIADKV 301
            +S+ ++IF+NQ+R   K G   G   E T+GGNALKFYA++RL + R    K  D+V
Sbjct: 194 SRSNCMVIFINQIRM--KIGVMFGS-PETTTGGNALKFYASVRLDIRRIGSIKERDEV 248

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)

>sp|C0RJG9|RECA_BRUMB Protein RecA OS=Brucella melitensis biotype 2 (strain ATCC 23457) GN=recA PE=3 SV=1

 Score =  236 bits (602), Expect = 1e-61,   Method: Compositional matrix adjust.
 Identities = 127/238 (53%), Positives = 165/238 (69%), Gaps = 3/238 (1%)

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 CQSHTLIIFLNQVRFSAKSGQGLGRMDEVTSGGNALKFYAALRLRMMRTRLFKIADKV 301
            +S+ ++IF+NQ+R   K G   G   E T+GGNALKFYA++RL + R    K  D+V
Sbjct: 194 SRSNCMVIFINQIRM--KIGVMFGS-PETTTGGNALKFYASVRLDIRRIGSIKERDEV 248

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 2 (strain ATCC 23457) (taxid: 546272)

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	315
359496049	398	PREDICTED: DNA repair protein recA homol	0.888	0.703	0.722	1e-112
356571990	386	PREDICTED: DNA repair protein recA homol	0.885	0.722	0.692	1e-105
357509615	394	RecA [Medicago truncatula] gi|355500111|	0.907	0.725	0.656	6e-99
224139890	323	predicted protein [Populus trichocarpa]	0.758	0.739	0.769	3e-96
255586516	388	DNA repair protein reca, putative [Ricin	0.955	0.775	0.642	6e-95
22330951	389	DNA repair protein recA-like 2 [Arabidop	0.946	0.766	0.62	3e-93
6143863	389	putative RecA protein [Arabidopsis thali	0.946	0.766	0.623	4e-93
133711814	395	putative recA protein [Solanum lycopersi	0.946	0.754	0.621	4e-83
449449809	401	PREDICTED: DNA repair protein recA homol	0.942	0.740	0.6	6e-82
226495001	409	uncharacterized protein LOC100276540 [Ze	0.841	0.647	0.590	3e-75

>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 =  410 bits (1055), Expect = e-112,   Method: Compositional matrix adjust.
 Identities = 203/281 (72%), Positives = 237/281 (84%), Gaps = 1/281 (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 SVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVRFSAKSGQG 265
           SVAAL+P+ E+ V I G Y D QS+IM QALRKIHYSLC+S TLIIF+NQVR S KS  G
Sbjct: 209 SVAALVPQHELDVVIGGTYQDVQSQIMAQALRKIHYSLCRSETLIIFVNQVRSSLKSSHG 268

Query: 266 LGRMDEVTSGGNALKFYAALRLRMMRTRLFKIADKVNILEV 306
            GR+DEVT GGNAL+FYAA+RLR+MRT L +  DKV  L V
Sbjct: 269 FGRLDEVTCGGNALRFYAAVRLRVMRTGLLRTEDKVTGLGV 309

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 =  387 bits (995), Expect = e-105,   Method: Compositional matrix adjust.
 Identities = 198/286 (69%), Positives = 229/286 (80%), Gaps = 7/286 (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 RFSAKSGQGLGRMDEVTSGGNALKFYAALRLRMMRTRLFKIADKVN 302
           R S KS +  G ++EVT GGNAL+FYAA+RLR+ R RL K  DKV 
Sbjct: 251 RLSPKSAKEYGSVEEVTCGGNALRFYAAVRLRLSRVRLIKTEDKVE 296

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 =  366 bits (940), Expect = 6e-99,   Method: Compositional matrix adjust.
 Identities = 191/291 (65%), Positives = 230/291 (79%), Gaps = 5/291 (1%)

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 DVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQ---V 256
           DVIVVDSVAAL+PKCE+         D  SRIMTQALRKIHYSL +S TL+IF+NQ   V
Sbjct: 199 DVIVVDSVAALVPKCELDQLGVATSQDLHSRIMTQALRKIHYSLSRSQTLLIFVNQVKIV 258

Query: 257 RFSAKSGQGLGRMDEVTSGGNALKFYAALRLRMMRTRLFKIADKVNILEVV 307
           RFS K+  G G M+EVT GGNAL+FYAA+RLR+ R  L K  DKV  + V 
Sbjct: 259 RFSPKAFGGRGPMEEVTCGGNALRFYAAVRLRLSRMGLIKTEDKVEGITVC 309

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 =  358 bits (918), Expect = 3e-96,   Method: Compositional matrix adjust.
 Identities = 187/243 (76%), Positives = 211/243 (86%), Gaps = 4/243 (1%)

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 QSHTLIIFLNQVRFSAKSGQGLGRMDEVTSGGNALKFYAALRLRMMRTRLFKIADKVNIL 304
           QS TLIIFLNQVR S KS    GR +EVT GGNALKFY+A+RLRM+RTRL K  D++  L
Sbjct: 181 QSQTLIIFLNQVRKSLKS----GRAEEVTCGGNALKFYSAVRLRMIRTRLLKTEDRITGL 236

Query: 305 EVV 307
            V 
Sbjct: 237 GVC 239

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

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 =  353 bits (906), Expect = 6e-95,   Method: Compositional matrix adjust.
 Identities = 198/308 (64%), Positives = 235/308 (76%), Gaps = 7/308 (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 IHYSLCQSHTLIIFLNQVRFSAKSGQGLGRMDEVTSGGNALKFYAALRLRMMRTRLFKIA 298
           I+YSL QS TLIIFLNQVR + KSGQGLG++DE T GGNALKFY+A+RLRM R  L K  
Sbjct: 236 INYSLSQSKTLIIFLNQVRANVKSGQGLGQVDEATCGGNALKFYSAVRLRMARKALLKTE 295

Query: 299 DKVNILEV 306
           D++  L V
Sbjct: 296 DEITGLRV 303

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

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 =  347 bits (891), Expect = 3e-93,   Method: Compositional matrix adjust.
 Identities = 186/300 (62%), Positives = 226/300 (75%), Gaps = 2/300 (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 HTLIIFLNQVRFSAKSGQGLGRMDEVTSGGNALKFYAALRLRMMRTRLFKIADKVNILEV 306
            TLI+FLNQVR   KS       +EVT GGNAL F+AA+RL+M+RT L K A+K++ L V
Sbjct: 243 QTLIVFLNQVRSHVKSNMHFPHAEEVTCGGNALPFHAAIRLKMIRTGLIKTANKISGLNV 302

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  347 bits (890), Expect = 4e-93,   Method: Compositional matrix adjust.
 Identities = 187/300 (62%), Positives = 225/300 (75%), Gaps = 2/300 (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 HTLIIFLNQVRFSAKSGQGLGRMDEVTSGGNALKFYAALRLRMMRTRLFKIADKVNILEV 306
            TLI+FLNQVR   KS       +EVT GGNAL F+AA+RL+M+RT L K A+KV  L V
Sbjct: 243 QTLIVFLNQVRSHVKSNMHFPHAEEVTCGGNALPFHAAIRLKMIRTGLIKTANKVYGLNV 302

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  314 bits (804), Expect = 4e-83,   Method: Compositional matrix adjust.
 Identities = 189/304 (62%), Positives = 227/304 (74%), Gaps = 6/304 (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 CQSHTLIIFLNQVRFSAKS-GQGLGRMDEVTSGGNALKFYAALRLRMMRTRLFKIADKVN 302
             S TLIIF+NQVR S K   +G G MDEVT GGNAL FYAA+RLR +R +L K   K+ 
Sbjct: 237 GNSSTLIIFINQVRRSNKGLVRGSGCMDEVTCGGNALPFYAAIRLRTIRKQLLKTRHKIT 296

Query: 303 ILEV 306
            L +
Sbjct: 297 GLRI 300

Source: Solanum lycopersicum

Species: Solanum lycopersicum

Genus: Solanum

Family: Solanaceae

Order: Solanales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  310 bits (794), Expect = 6e-82,   Method: Compositional matrix adjust.
 Identities = 180/300 (60%), Positives = 223/300 (74%), Gaps = 3/300 (1%)

Query: 4   LLQPFRFSSIAPRRFFSLFPSFSQNGRRDAITCIGMNIHSLSSAAEVPEFD-DEPHDDAK 62
           L +  R     P RF SL  S  Q GRRD I+ +G++    SS  +V E++ D  +DD K
Sbjct: 9   LFRFCRLKHFEPSRFSSLSHSLLQ-GRRDVISYVGIDACHFSSLVDVWEYECDMLNDDTK 67

Query: 63  IMQKDNALRLALSQLANDFGKESMLSLKRFFGSRRGPVISTGSLKLDLALGIGGLPKGRI 122
             +KD AL  A+SQ+A DFGK+S L L+RF  SR  PVISTGSLKLD+ALGIGGLPKGRI
Sbjct: 68  TTEKDTALHSAISQVAADFGKDSKLFLQRFLSSRFAPVISTGSLKLDIALGIGGLPKGRI 127

Query: 123 VEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDS 182
           +EIYG+EASGKTTLALH+IKEAQKLGGYCAY D ENA+D S AE+MG++ +NLLI+ P S
Sbjct: 128 IEIYGQEASGKTTLALHIIKEAQKLGGYCAYFDAENAMDMSFAESMGVNVDNLLISPPAS 187

Query: 183 AENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYS 242
           AENLL  V+TL +SGS+DV+VVD+VAAL+P+CE+  PI     D++ R+M QALRKIHYS
Sbjct: 188 AENLLCAVNTLVRSGSVDVVVVDTVAALVPQCELDAPIGSSERDSRPRVMNQALRKIHYS 247

Query: 243 LCQSHTLIIFLNQVRFSAKSGQGLGRMDEVTSGGNALKFYAALRLRMMRTRLFKIADKVN 302
           L  S TL++F+NQVR SA    G  + DEVT GGNAL+FYAA+RLR++R  L K  DKV 
Sbjct: 248 LKLSQTLVVFINQVR-SAGYQNGFEQKDEVTCGGNALQFYAAVRLRLLRKGLLKSGDKVT 306

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|226495001|ref|NP_001143776.1| uncharacterized protein LOC100276540 [Zea mays] gi|194699132|gb|ACF83650.1| unknown [Zea mays] gi|195626822|gb|ACG35241.1| hypothetical protein [Zea mays] gi|414878734|tpg|DAA55865.1| TPA: putative recA DNA recombination family protein [Zea mays]

 Score =  288 bits (736), Expect = 3e-75,   Method: Compositional matrix adjust.
 Identities = 160/271 (59%), Positives = 203/271 (74%), Gaps = 6/271 (2%)

Query: 27  QNGRRDAITCIGMNIHSLSSAAEVPEFD---DEPHDDAKIMQKDNALRLALSQLANDFGK 83
           QNG+RD    +     S+S+  ++ + D   D P DD K ++K+++L +A+SQLA DF +
Sbjct: 41  QNGKRDTFCSLWFKGRSVSTTVDM-QLDYESDPPLDDTKAIEKESSLNVAVSQLAIDFDR 99

Query: 84  ESMLSLKRFFGSRRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKE 143
           +S L L+RF  +R+  V+STGSLKLDLALG+GGLPKGR+VEIYG+EASGKTTLALHVIKE
Sbjct: 100 DSNLCLERFSRARKASVVSTGSLKLDLALGVGGLPKGRMVEIYGKEASGKTTLALHVIKE 159

Query: 144 AQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTKSGSIDVIV 203
           AQK GGYCAY+D ENA +PS AE++G+D+E LLIAQPDSAEN LS+V+TL    S+ V+V
Sbjct: 160 AQKNGGYCAYIDAENAFNPSFAESIGVDSERLLIAQPDSAENSLSIVNTLVGG-SVAVVV 218

Query: 204 VDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVRFSAKSG 263
           VDSVAALIPKCEI   I     D QS +MT+ALRKI Y+LC+S TLIIF+NQVR + ++ 
Sbjct: 219 VDSVAALIPKCEIEGEIYTNCGDIQSHLMTRALRKIQYTLCRSETLIIFVNQVR-TKRTS 277

Query: 264 QGLGRMDEVTSGGNALKFYAALRLRMMRTRL 294
              G   EV  GGNAL FYAA+R+R  R  L
Sbjct: 278 SNPGIYKEVPCGGNALGFYAAVRMRTSRREL 308

Source: Zea mays

Species: Zea mays

Genus: Zea

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	315
TAIR|locus:2100038	389	RECA3 "RECA homolog 3" [Arabid	0.885	0.717	0.578	1.2e-79
TAIR|locus:2050439	430	RECA2 "A. thaliana recA homolo	0.761	0.558	0.504	3.3e-56
TIGR_CMR|CHY_1166	343	CHY_1166 "recA protein" [Carbo	0.685	0.629	0.470	7.7e-48
TIGR_CMR|SO_3430	357	SO_3430 "recA protein" [Shewan	0.736	0.649	0.470	8.8e-47
TIGR_CMR|SPO_2034	347	SPO_2034 "recA protein" [Ruege	0.739	0.671	0.449	1e-45
UNIPROTKB|P0A7G6	353	recA [Escherichia coli K-12 (t	0.682	0.609	0.488	2.1e-45
TIGR_CMR|GSU_0145	338	GSU_0145 "recA protein" [Geoba	0.688	0.642	0.445	2.7e-45
DICTYBASE|DDB_G0276073	452	recA "recombinase A" [Dictyost	0.768	0.535	0.411	3.4e-45
TIGR_CMR|CBU_1054	343	CBU_1054 "recA protein" [Coxie	0.685	0.629	0.470	4.4e-45
TIGR_CMR|NSE_0530	327	NSE_0530 "recA protein" [Neori	0.682	0.657	0.461	5.6e-45

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

 Score = 800 (286.7 bits), Expect = 1.2e-79, P = 1.2e-79
 Identities = 162/280 (57%), Positives = 196/280 (70%)

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 XXXLIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVRFSAKSGQGL 266
                L P+CE+  P+   Y D QSRIMTQALRKIHYS+  S TLI+FLNQVR   KS    
Sbjct:   203 VAALAPQCELDAPVGERYRDTQSRIMTQALRKIHYSVGYSQTLIVFLNQVRSHVKSNMHF 262

Query:   267 GRMDEVTSGGNALKFYAAXXXXXXXXXXFKIADKVNILEV 306
                +EVT GGNAL F+AA           K A+K++ L V
Sbjct:   263 PHAEEVTCGGNALPFHAAIRLKMIRTGLIKTANKISGLNV 302

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 = 579 (208.9 bits), Expect = 3.3e-56, P = 3.3e-56
 Identities = 121/240 (50%), Positives = 160/240 (66%)

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 SDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVRFSAKSGQGLGRMDEVTSGGNALKFYAA 284
                Q+R+M+QALRK+ +SL  S TL+IF+NQVR    +  G G   EVT GGNALKFYA+
Sbjct:   217 MAMQARLMSQALRKLSHSLSLSQTLLIFINQVRSKLSTFGGFGGPTEVTCGGNALKFYAS 276

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 = 500 (181.1 bits), Expect = 7.7e-48, P = 7.7e-48
 Identities = 103/219 (47%), Positives = 145/219 (66%)

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 SHTLIIFLNQVRFSAKSGQGLGRMDEVTSGGNALKFYAA 284
             S T+ IF+NQ+R   K G   G   E T GG ALKFYA+
Sbjct:   184 SKTVAIFINQMR--EKVGVMFGN-PETTPGGRALKFYAS 219

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 = 490 (177.5 bits), Expect = 8.8e-47, P = 8.8e-47
 Identities = 111/236 (47%), Positives = 143/236 (60%)

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 SHTLIIFLNQVRFSAKSGQGLGRMDEVTSGGNALKFYAAXXXXXXXXXXFKIADKV 301
             S+TL+IF+NQ+R   K G   G   E T+GGNALKFYA+           K  D+V
Sbjct:   186 SNTLLIFINQIRM--KIGVMFGN-PETTTGGNALKFYASVRLDIRRTGAIKEGDEV 238

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 = 480 (174.0 bits), Expect = 1.0e-45, P = 1.0e-45
 Identities = 106/236 (44%), Positives = 140/236 (59%)

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 SHTLIIFLNQVRFSAKSGQGLGRMDEVTSGGNALKFYAAXXXXXXXXXXFKIADKV 301
             S  ++IF+NQ+R   K G   G   E T+GGNALKFY++           K  D+V
Sbjct:   189 SKCMVIFINQIRM--KIGVMFGS-PETTTGGNALKFYSSVRLDIRRIGAIKDRDEV 241

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 = 477 (173.0 bits), Expect = 2.1e-45, P = 2.1e-45
 Identities = 107/219 (48%), Positives = 136/219 (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 SHTLIIFLNQVRFSAKSGQGLGRMDEVTSGGNALKFYAA 284
             S+TL+IF+NQ+R   K G   G   E T+GGNALKFYA+
Sbjct:   186 SNTLLIFINQIRM--KIGVMFGN-PETTTGGNALKFYAS 221

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

 Score = 476 (172.6 bits), Expect = 2.7e-45, P = 2.7e-45
 Identities = 98/220 (44%), Positives = 141/220 (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 QSHTLIIFLNQVRFSAKSGQGLGRMDEVTSGGNALKFYAA 284
             +S+  +IF+NQ+R   K G   G   E T+GGNALKFYA+
Sbjct:   184 KSNCCVIFINQIRM--KIGVMFGN-PETTTGGNALKFYAS 220

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 = 475 (172.3 bits), Expect = 3.4e-45, P = 3.4e-45
 Identities = 104/253 (41%), Positives = 156/253 (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 PKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVRFSAKSGQGLGRMDE 271
             P+ EI   +   +   Q+R+M+QALRK+  +L  S+ ++IF+NQ+R   K G   G   E
Sbjct:   232 PRVEIEGEMGDSHLGVQARLMSQALRKLSPTLKDSNCVLIFINQIRM--KIGVMFGN-PE 288

Query:   272 VTSGGNALKFYAA 284
             VTSGGNALKF+++
Sbjct:   289 VTSGGNALKFFSS 301

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

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

 Score = 474 (171.9 bits), Expect = 4.4e-45, P = 4.4e-45
 Identities = 103/219 (47%), Positives = 140/219 (63%)

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 SHTLIIFLNQVRFSAKSGQGLGRMDEVTSGGNALKFYAA 284
             S+TL+IF+NQ+R   K G   G   E T+GGNALKFY++
Sbjct:   184 SNTLVIFINQIRM--KIGVMFGN-PETTTGGNALKFYSS 219

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 = 473 (171.6 bits), Expect = 5.6e-45, P = 5.6e-45
 Identities = 102/221 (46%), Positives = 145/221 (65%)

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 CQSHTLIIFLNQVRFSAKSGQGLGRMDEVTSGGNALKFYAA 284
              +S+ +++F+NQ+R   K G   G   E T+GGNALKFY++
Sbjct:   178 SRSNCVVVFINQIRM--KIGVMFGS-PETTTGGNALKFYSS 215

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

---

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)
B1LWT6	RECA_METRJ	No assigned EC number	0.5063	0.7365	0.6391	yes	no
A6U9N5	RECA_SINMW	No assigned EC number	0.525	0.7523	0.6565	yes	no
B8H3I7	RECA_CAUCN	No assigned EC number	0.5020	0.7142	0.6320	yes	no
P65976	RECA_BRUSU	No assigned EC number	0.5336	0.7460	0.6509	yes	no
P65975	RECA_BRUME	No assigned EC number	0.5336	0.7460	0.6509	yes	no
C0RJG9	RECA_BRUMB	No assigned EC number	0.5336	0.7460	0.6509	yes	no
B3PPU4	RECA_RHIE6	No assigned EC number	0.5304	0.7206	0.6270	yes	no
Q04761	RECA_BRUAB	No assigned EC number	0.5336	0.7460	0.6509	yes	no
P27865	RECA_RHIME	No assigned EC number	0.5168	0.7460	0.6752	yes	no
Q1QMW2	RECA_NITHX	No assigned EC number	0.5126	0.7460	0.6491	yes	no
A9IVY9	RECA_BART1	No assigned EC number	0.5168	0.7460	0.6772	yes	no
B9JFS7	RECA_AGRRK	No assigned EC number	0.5291	0.7523	0.6565	yes	no
Q3ST50	RECA_NITWN	No assigned EC number	0.5126	0.7460	0.6491	yes	no
A4WV48	RECA_RHOS5	No assigned EC number	0.5168	0.7460	0.6582	yes	no
P42447	RECA_RHOCA	No assigned EC number	0.5203	0.7523	0.6676	yes	no
P62209	RECA_AZOL4	No assigned EC number	0.5336	0.7460	0.6545	yes	no
Q9XBC1	RECA_RHOPA	No assigned EC number	0.5210	0.7460	0.6733	yes	no
Q2RQH9	RECA_RHORT	No assigned EC number	0.5101	0.7428	0.6393	yes	no
A9M5L8	RECA_BRUC2	No assigned EC number	0.5336	0.7460	0.6509	yes	no
Q11IW6	RECA_MESSB	No assigned EC number	0.5350	0.7142	0.625	yes	no
P32725	RECA_RHOS4	No assigned EC number	0.5168	0.7460	0.6851	yes	no
Q98NQ6	RECA_RHILO	No assigned EC number	0.5208	0.7523	0.6493	yes	no
Q2K7T3	RECA_RHIEC	No assigned EC number	0.5125	0.7523	0.6546	yes	no
A6X0E8	RECA_OCHA4	No assigned EC number	0.5308	0.7301	0.6371	yes	no
Q89I84	RECA_BRAJA	No assigned EC number	0.5252	0.7460	0.6491	yes	no
B8IP29	RECA_METNO	No assigned EC number	0.5063	0.7365	0.6391	yes	no
B9JX56	RECA_AGRVS	No assigned EC number	0.5304	0.7206	0.6270	yes	no
P33156	RECA_AGRT5	No assigned EC number	0.5083	0.7523	0.6528	yes	no
P24543	RECA_RHIET	No assigned EC number	0.5304	0.7206	0.6288	yes	no
C3MD93	RECA_RHISN	No assigned EC number	0.5204	0.7396	0.6454	yes	no
B2S648	RECA_BRUA1	No assigned EC number	0.5336	0.7460	0.6509	yes	no
Q8RY99	RECAM_ARATH	No assigned EC number	0.62	0.9460	0.7660	yes	no
Q6G2Z3	RECA_BARHE	No assigned EC number	0.5168	0.7460	0.6772	yes	no
B0CH00	RECA_BRUSI	No assigned EC number	0.5336	0.7460	0.6509	yes	no
A1USS3	RECA_BARBK	No assigned EC number	0.5307	0.7142	0.6484	yes	no
A5FXB8	RECA_ACICJ	No assigned EC number	0.5230	0.7492	0.6880	yes	no
B6IS93	RECA_RHOCS	No assigned EC number	0.5252	0.7460	0.6564	yes	no
Q9A9A7	RECA_CAUCR	No assigned EC number	0.5020	0.7142	0.6320	yes	no
Q7NXL9	RECA_CHRVO	No assigned EC number	0.5265	0.7079	0.6371	yes	no
Q2YRU7	RECA_BRUA2	No assigned EC number	0.5336	0.7460	0.6509	yes	no
Q1MFZ8	RECA_RHIL3	No assigned EC number	0.5166	0.7523	0.6510	yes	no
B5ZRG2	RECA_RHILW	No assigned EC number	0.5166	0.7523	0.6546	yes	no
Q6FZF0	RECA_BARQU	No assigned EC number	0.5168	0.7460	0.6772	yes	no
C1D4J2	RECA_LARHH	No assigned EC number	0.5169	0.7396	0.6581	yes	no
A3PLJ2	RECA_RHOS1	No assigned EC number	0.5168	0.7460	0.6582	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	315
cd00983	325	cd00983, recA, RecA is a bacterial enzyme which ha	1e-108
PRK09354	349	PRK09354, recA, recombinase A; Provisional	5e-98
pfam00154	322	pfam00154, RecA, recA bacterial DNA recombination	4e-91
TIGR02012	321	TIGR02012, tigrfam_recA, protein RecA	4e-88
COG0468	279	COG0468, RecA, RecA/RadA recombinase [DNA replicat	3e-62
PRK09519	790	PRK09519, recA, DNA recombination protein RecA; Re	2e-61
cd01393	226	cd01393, recA_like, RecA is a bacterial enzyme whi	5e-60
cd01123	235	cd01123, Rad51_DMC1_radA, Rad51_DMC1_radA,B	2e-17
PLN03187	344	PLN03187, PLN03187, meiotic recombination protein	3e-10
cd01394	218	cd01394, radB, RadB	9e-10
PRK09361	225	PRK09361, radB, DNA repair and recombination prote	4e-09
PRK04301	317	PRK04301, radA, DNA repair and recombination prote	5e-09
COG0467	260	COG0467, RAD55, RecA-superfamily ATPases implicate	2e-08
TIGR02237	209	TIGR02237, recomb_radB, DNA repair and recombinati	3e-08
pfam08423	261	pfam08423, Rad51, Rad51	2e-07
TIGR02238	313	TIGR02238, recomb_DMC1, meiotic recombinase Dmc1	2e-07
cd01120	165	cd01120, RecA-like_NTPases, RecA-like NTPases	4e-07
PTZ00035	337	PTZ00035, PTZ00035, Rad51 protein; Provisional	4e-07
TIGR02236	310	TIGR02236, recomb_radA, DNA repair and recombinati	1e-06
cd01121	372	cd01121, Sms, Sms (bacterial radA) DNA repair prot	2e-06
TIGR03880	224	TIGR03880, KaiC_arch_3, KaiC domain protein, AF_03	3e-06
TIGR02239	316	TIGR02239, recomb_RAD51, DNA repair protein RAD51	4e-06
pfam06745	231	pfam06745, KaiC, KaiC	7e-06
PLN03186	342	PLN03186, PLN03186, DNA repair protein RAD51 homol	9e-06
PRK06067	234	PRK06067, PRK06067, flagellar accessory protein Fl	3e-05
pfam13481	154	pfam13481, AAA_25, AAA domain	5e-05
PRK09302	509	PRK09302, PRK09302, circadian clock protein KaiC;	2e-04
COG1066	456	COG1066, Sms, Predicted ATP-dependent serine prote	2e-04
TIGR03881	229	TIGR03881, KaiC_arch_4, KaiC domain protein, PAE11	3e-04
smart00382	148	smart00382, AAA, ATPases associated with a variety	3e-04
PRK11823	446	PRK11823, PRK11823, DNA repair protein RadA; Provi	7e-04
COG2874	235	COG2874, FlaH, Predicted ATPases involved in bioge	0.001
pfam01637	223	pfam01637, Arch_ATPase, Archaeal ATPase	0.003

>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 =  317 bits (814), Expect = e-108
 Identities = 125/237 (52%), Positives = 167/237 (70%), Gaps = 4/237 (1%)

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 QSHTLIIFLNQVRFSAKSGQGLGRMDEVTSGGNALKFYAALRLRMMRTRLFKIADKV 301
           +S+T +IF+NQ+R   K G   G   E T+GGNALKFY+++RL + R    K  D+V
Sbjct: 180 KSNTTVIFINQLR--EKIGVMFGN-PETTTGGNALKFYSSVRLDIRRIETIKDGDEV 233

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

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

 Score =  292 bits (750), Expect = 5e-98
 Identities = 130/257 (50%), Positives = 172/257 (66%), Gaps = 25/257 (9%)

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 KIHYSLCQSHTLIIFLNQVRFSAKSGQGLGRMDEVTSGGNALKFYAALRLRMMRTRLFKI 297
           K+  ++ +S+T +IF+NQ+R   K G   G   E T+GGNALKFYA++RL + R    K 
Sbjct: 178 KLTGNISKSNTTVIFINQIR--EKIGVMFGN-PETTTGGNALKFYASVRLDIRRIGTIKD 234

Query: 298 ADKVNILEVVNIGSMIR 314
            D+V       IG+  +
Sbjct: 235 GDEV-------IGNRTK 244

Length = 349

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

 Score =  274 bits (702), Expect = 4e-91
 Identities = 126/240 (52%), Positives = 167/240 (69%), Gaps = 18/240 (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 SLCQSHTLIIFLNQVRFSAKSGQGLGRMDEVTSGGNALKFYAALRLRMMRTRLFKIADKV 301
           ++ +S+T +IF+NQ+R   K G   G   E T+GGNALKFYA++RL + R    K  ++V
Sbjct: 174 NISKSNTTVIFINQIR--MKIGVMFGN-PETTTGGNALKFYASVRLDIRRIGAIKKGEEV 230

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 =  266 bits (681), Expect = 4e-88
 Identities = 121/231 (52%), Positives = 159/231 (68%), Gaps = 12/231 (5%)

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 SLCQSHTLIIFLNQVRFSAKSGQGLGRMDEVTSGGNALKFYAALRLRMMRT 292
           +L +S+T  IF+NQ+R   K G   G   E T+GG ALKFYA++RL + R 
Sbjct: 177 ALSKSNTTAIFINQIR--EKIGVMFGN-PETTTGGRALKFYASVRLDIRRI 224

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

 Score =  198 bits (505), Expect = 3e-62
 Identities = 112/241 (46%), Positives = 157/241 (65%), Gaps = 11/241 (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 RKIHYSLCQSHTLIIFLNQVRFSAKSGQGLGRMDEVTSGGNALKFYAALRLRMMRTRLFK 296
           RK+     + +T +IF NQVR  AK G   G   E T+GGNALKFYA++RL + R    K
Sbjct: 176 RKLTRLANKYNTAVIFTNQVR--AKIGVMFGD-PETTTGGNALKFYASVRLDLRRIESLK 232

Query: 297 I 297
            
Sbjct: 233 E 233

Length = 279

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

 Score =  208 bits (530), Expect = 2e-61
 Identities = 108/233 (46%), Positives = 159/233 (68%), Gaps = 8/233 (3%)

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 CQSHTLIIFLNQVRFSAKSGQGLGRMDEVTSGGNALKFYAALRLRMMRTRLFK 296
             S T  IF+NQ+R   K G   G   E T+GG ALKFYA++R+ + R    K
Sbjct: 184 NNSGTTAIFINQLR--DKIGVMFGS-PETTTGGKALKFYASVRMDVRRVETLK 233

Length = 790

>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 =  191 bits (487), Expect = 5e-60
 Identities = 79/223 (35%), Positives = 112/223 (50%), Gaps = 32/223 (14%)

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 VDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVRFSAKSG 263
           VDSVAAL  K  IG          ++R+++QALRK+     + +  ++F NQVR  AK  
Sbjct: 120 VDSVAALFRKEFIG----RGMLAERARLLSQALRKLLRLADKFNVAVVFTNQVR--AKVD 173

Query: 264 QGLGRMDEVTSGGNALKFYAALRLRMMRT-------RLFKIAD 299
              G   E  +GGNAL   +  RL + +        R+ K+  
Sbjct: 174 VMFGD-PETPAGGNALAHASTTRLDLRKGRGIIGERRIAKVVK 215

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 = 79.5 bits (197), Expect = 2e-17
 Identities = 63/225 (28%), Positives = 103/225 (45%), Gaps = 35/225 (15%)

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 VVDSVAALIPKCEIGVPINGMYSDAQ-SRIMTQALRKIHYSLCQSHTLIIFL-NQVRFSA 260
           +VDSV AL  + E      G    A+  + + + LR +   L     + + + NQV  +A
Sbjct: 120 IVDSVTALF-RAEFD----GRGELAERQQHLAKLLRTLKR-LADEFNVAVVITNQV--TA 171

Query: 261 KSGQGLGRMDEVT--SGGNALKFYAALRLRMMR----TRLFKIAD 299
           +         +    +GGN     +  RL + +     R+ KI D
Sbjct: 172 RPDGAAMFGGDPKKPAGGNIWAHASTTRLYLRKGRGEERIAKIVD 216

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|215620 PLN03187, PLN03187, meiotic recombination protein DMC1 homolog; Provisional

 Score = 59.8 bits (145), Expect = 3e-10
 Identities = 72/231 (31%), Positives = 104/231 (45%), Gaps = 37/231 (16%)

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--MTQALRKIHYSLCQSHTLIIFLNQVRFSA 260
           +VDSV AL      G    G  ++ Q ++  M   L KI       +  +   NQV   A
Sbjct: 226 IVDSVIALFRVDFTG---RGELAERQQKLAQMLSRLTKIAEEF---NVAVYMTNQVI--A 277

Query: 261 KSGQGLGRMD-EVTSGGNALKFYAALRLRMMR-----TRLFKIADKVNILE 305
             G G+   D +  +GG+ L   A +RL M+R      R+ K+ D  N+ E
Sbjct: 278 DPGGGMFISDPKKPAGGHVLAHAATIRL-MLRKGKGEQRVCKVFDAPNLPE 327

Length = 344

>gnl|CDD|238688 cd01394, radB, RadB

 Score = 57.5 bits (139), Expect = 9e-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 = 55.6 bits (135), Expect = 4e-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 = 56.0 bits (136), Expect = 5e-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 = 54.0 bits (130), Expect = 2e-08
 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|233793 TIGR02237, recomb_radB, DNA repair and recombination protein RadB

 Score = 52.8 bits (127), Expect = 3e-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 = 51.1 bits (123), Expect = 2e-07
 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 = 51.3 bits (123), Expect = 2e-07
 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|238540 cd01120, RecA-like_NTPases, RecA-like NTPases

 Score = 49.0 bits (117), Expect = 4e-07
 Identities = 41/171 (23%), Positives = 69/171 (40%), Gaps = 23/171 (13%)

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 TQALRKIHYSLCQSHTLIIFLNQVRFSAKSGQGLGRMDEVTSGGNALKFYA 283
            + LR++     +    +IF  QV        G      +T G   L+  A
Sbjct: 113 DEELRELLERARKGGVTVIFTLQVP------SGDKGDPRLTRGAQNLEDIA 157

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|185407 PTZ00035, PTZ00035, Rad51 protein; Provisional

 Score = 50.4 bits (121), Expect = 4e-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 = 48.6 bits (116), Expect = 1e-06
 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|238541 cd01121, Sms, Sms (bacterial radA) DNA repair protein

 Score = 48.4 bits (116), Expect = 2e-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 = 47.0 bits (112), Expect = 3e-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 = 47.4 bits (113), Expect = 4e-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 = 46.1 bits (110), Expect = 7e-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 = 46.3 bits (110), Expect = 9e-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 = 43.8 bits (104), Expect = 3e-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 = 5e-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 = 42.6 bits (101), Expect = 2e-04
 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 = 42.6 bits (101), Expect = 2e-04
 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 = 40.9 bits (96), Expect = 3e-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 = 40.0 bits (93), Expect = 3e-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 = 40.5 bits (96), Expect = 7e-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 = 39.6 bits (93), Expect = 0.001
 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 = 38.0 bits (89), Expect = 0.003
 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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	315
cd00983	325	recA RecA is a bacterial enzyme which has roles in	100.0
PRK09354	349	recA recombinase A; Provisional	100.0
PF00154	322	RecA: recA bacterial DNA recombination protein; In	100.0
TIGR02012	321	tigrfam_recA protein RecA. This model describes or	100.0
PRK09519	790	recA DNA recombination protein RecA; Reviewed	100.0
COG0468	279	RecA RecA/RadA recombinase [DNA replication, recom	100.0
TIGR02238	313	recomb_DMC1 meiotic recombinase Dmc1. This model d	100.0
PLN03187	344	meiotic recombination protein DMC1 homolog; Provis	100.0
PF08423	256	Rad51: Rad51; InterPro: IPR013632 This domain is f	100.0
PLN03186	342	DNA repair protein RAD51 homolog; Provisional	100.0
PTZ00035	337	Rad51 protein; Provisional	100.0
TIGR02239	316	recomb_RAD51 DNA repair protein RAD51. This eukary	99.97
cd01393	226	recA_like RecA is a bacterial enzyme which has rol	99.97
TIGR02236	310	recomb_radA DNA repair and recombination protein R	99.96
PRK09361	225	radB DNA repair and recombination protein RadB; Pr	99.96
PRK04301	317	radA DNA repair and recombination protein RadA; Va	99.96
cd01123	235	Rad51_DMC1_radA Rad51_DMC1_radA,B. This group of r	99.96
cd01394	218	radB RadB. The archaeal protein radB shares simila	99.96
KOG1434	335	consensus Meiotic recombination protein Dmc1 [Cell	99.95
COG1066	456	Sms Predicted ATP-dependent serine protease [Postt	99.95
TIGR02237	209	recomb_radB DNA repair and recombination protein R	99.94
cd01121	372	Sms Sms (bacterial radA) DNA repair protein. This	99.94
TIGR03878	259	thermo_KaiC_2 KaiC domain protein, AF_0795 family.	99.94
PRK11823	446	DNA repair protein RadA; Provisional	99.93
TIGR03877	237	thermo_KaiC_1 KaiC domain protein, Ph0284 family.	99.93
TIGR00416	454	sms DNA repair protein RadA. The gene protuct code	99.93
PRK04328	249	hypothetical protein; Provisional	99.92
TIGR02655	484	circ_KaiC circadian clock protein KaiC. Members of	99.92
KOG1564	351	consensus DNA repair protein RHP57 [Replication, r	99.91
PF06745	226	KaiC: KaiC; InterPro: IPR014774 This entry represe	99.9
TIGR03600	421	phage_DnaB phage replicative helicase, DnaB family	99.9
PRK06321	472	replicative DNA helicase; Provisional	99.89
PRK08760	476	replicative DNA helicase; Provisional	99.89
PRK09302	509	circadian clock protein KaiC; Reviewed	99.89
PRK09165	497	replicative DNA helicase; Provisional	99.89
PRK05748	448	replicative DNA helicase; Provisional	99.88
TIGR00665	434	DnaB replicative DNA helicase. This model describe	99.88
PRK05595	444	replicative DNA helicase; Provisional	99.88
PRK08006	471	replicative DNA helicase; Provisional	99.88
PRK08506	472	replicative DNA helicase; Provisional	99.88
TIGR03881	229	KaiC_arch_4 KaiC domain protein, PAE1156 family. M	99.88
cd01122	271	GP4d_helicase GP4d_helicase is a homohexameric 5'-	99.88
PRK05636	505	replicative DNA helicase; Provisional	99.88
PF03796	259	DnaB_C: DnaB-like helicase C terminal domain; Inte	99.88
PHA02542	473	41 41 helicase; Provisional	99.87
PRK08840	464	replicative DNA helicase; Provisional	99.87
PRK05973	237	replicative DNA helicase; Provisional	99.87
PRK06749	428	replicative DNA helicase; Provisional	99.86
PRK06904	472	replicative DNA helicase; Validated	99.86
PRK06067	234	flagellar accessory protein FlaH; Validated	99.86
PRK07004	460	replicative DNA helicase; Provisional	99.85
cd00984	242	DnaB_C DnaB helicase C terminal domain. The hexame	99.84
PRK09302	509	circadian clock protein KaiC; Reviewed	99.84
TIGR03880	224	KaiC_arch_3 KaiC domain protein, AF_0351 family. T	99.84
TIGR02655	484	circ_KaiC circadian clock protein KaiC. Members of	99.84
KOG1433	326	consensus DNA repair protein RAD51/RHP55 [Replicat	99.81
COG0305	435	DnaB Replicative DNA helicase [DNA replication, re	99.81
PRK07773	886	replicative DNA helicase; Validated	99.8
COG0467	260	RAD55 RecA-superfamily ATPases implicated in signa	99.79
PRK08533	230	flagellar accessory protein FlaH; Reviewed	99.73
PF13481	193	AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C.	99.72
COG2874	235	FlaH Predicted ATPases involved in biogenesis of a	99.64
cd01124	187	KaiC KaiC is a circadian clock protein primarily f	99.64
cd01120	165	RecA-like_NTPases RecA-like NTPases. This family i	99.6
cd01125	239	repA Hexameric Replicative Helicase RepA. RepA is	99.59
COG3598	402	RepA RecA-family ATPase [DNA replication, recombin	99.35
PRK04296	190	thymidine kinase; Provisional	99.15
KOG2373	514	consensus Predicted mitochondrial DNA helicase twi	99.04
cd00544	169	CobU Adenosylcobinamide kinase / adenosylcobinamid	98.97
PF13479	213	AAA_24: AAA domain	98.93
PF13401	131	AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S	98.78
COG1136	226	SalX ABC-type antimicrobial peptide transport syst	98.77
COG1120	258	FepC ABC-type cobalamin/Fe3+-siderophores transpor	98.7
PRK05800	170	cobU adenosylcobinamide kinase/adenosylcobinamide-	98.69
COG1122	235	CbiO ABC-type cobalt transport system, ATPase comp	98.69
smart00382	148	AAA ATPases associated with a variety of cellular	98.67
TIGR01618	220	phage_P_loop phage nucleotide-binding protein. Thi	98.6
COG1121	254	ZnuC ABC-type Mn/Zn transport systems, ATPase comp	98.55
COG1125	309	OpuBA ABC-type proline/glycine betaine transport s	98.54
cd03238	176	ABC_UvrA The excision repair protein UvrA; Nucleot	98.54
cd03246	173	ABCC_Protease_Secretion This family represents the	98.53
cd03229	178	ABC_Class3 This class is comprised of all BPD (Bin	98.52
COG2884	223	FtsE Predicted ATPase involved in cell division [C	98.51
COG1131	293	CcmA ABC-type multidrug transport system, ATPase c	98.51
PRK08727	233	hypothetical protein; Validated	98.5
cd03230	173	ABC_DR_subfamily_A This family of ATP-binding prot	98.49
PRK05642	234	DNA replication initiation factor; Validated	98.48
cd03216	163	ABC_Carb_Monos_I This family represents the domain	98.47
COG3845	501	ABC-type uncharacterized transport systems, ATPase	98.47
PRK06893	229	DNA replication initiation factor; Validated	98.47
COG3839	338	MalK ABC-type sugar transport systems, ATPase comp	98.46
PRK13537	306	nodulation ABC transporter NodI; Provisional	98.45
PRK08084	235	DNA replication initiation factor; Provisional	98.45
COG4555	245	NatA ABC-type Na+ transport system, ATPase compone	98.44
COG3842	352	PotA ABC-type spermidine/putrescine transport syst	98.42
KOG2859	293	consensus DNA repair protein, member of the recA/R	98.42
PF01695	178	IstB_IS21: IstB-like ATP binding protein; InterPro	98.42
cd03256	241	ABC_PhnC_transporter ABC-type phosphate/phosphonat	98.41
COG1126	240	GlnQ ABC-type polar amino acid transport system, A	98.4
cd03228	171	ABCC_MRP_Like The MRP (Mutidrug Resistance Protein	98.4
PRK06526	254	transposase; Provisional	98.39
cd03222	177	ABC_RNaseL_inhibitor The ABC ATPase RNase L inhibi	98.39
cd03298	211	ABC_ThiQ_thiamine_transporter ABC-type thiamine tr	98.39
cd03259	213	ABC_Carb_Solutes_like ABC Carbohydrate and Solute	98.39
PRK08181	269	transposase; Validated	98.39
COG4152	300	ABC-type uncharacterized transport system, ATPase	98.39
cd03301	213	ABC_MalK_N The N-terminal ATPase domain of the mal	98.38
PF00004	132	AAA: ATPase family associated with various cellula	98.38
TIGR01277	213	thiQ thiamine ABC transporter, ATP-binding protein	98.38
cd03255	218	ABC_MJ0796_Lo1CDE_FtsE This family is comprised of	98.37
cd03213	194	ABCG_EPDR ABCG transporters are involved in eye pi	98.37
COG4604	252	CeuD ABC-type enterochelin transport system, ATPas	98.37
cd03115	173	SRP The signal recognition particle (SRP) mediates	98.37
cd00009	151	AAA The AAA+ (ATPases Associated with a wide varie	98.37
TIGR02315	243	ABC_phnC phosphonate ABC transporter, ATP-binding	98.37
PF05621	302	TniB: Bacterial TniB protein; InterPro: IPR008868	98.37
TIGR01188	302	drrA daunorubicin resistance ABC transporter ATP-b	98.36
PRK09183	259	transposase/IS protein; Provisional	98.36
cd03214	180	ABC_Iron-Siderophores_B12_Hemin ABC transporters,	98.35
PF00448	196	SRP54: SRP54-type protein, GTPase domain; InterPro	98.35
cd03261	235	ABC_Org_Solvent_Resistant ABC (ATP-binding cassett	98.35
cd03215	182	ABC_Carb_Monos_II This family represents domain II	98.35
cd03266	218	ABC_NatA_sodium_exporter NatA is the ATPase compon	98.35
COG1222	406	RPT1 ATP-dependent 26S proteasome regulatory subun	98.34
cd03258	233	ABC_MetN_methionine_transporter MetN (also known a	98.34
cd03296	239	ABC_CysA_sulfate_importer Part of the ABC transpor	98.34
COG0410	237	LivF ABC-type branched-chain amino acid transport	98.34
PRK10771	232	thiQ thiamine transporter ATP-binding subunit; Pro	98.34
cd03265	220	ABC_DrrA DrrA is the ATP-binding protein component	98.33
TIGR03265	353	PhnT2 putative 2-aminoethylphosphonate ABC transpo	98.33
PRK08903	227	DnaA regulatory inactivator Hda; Validated	98.33
PF00308	219	Bac_DnaA: Bacterial dnaA protein; InterPro: IPR013	98.33
PRK11650	356	ugpC glycerol-3-phosphate transporter ATP-binding	98.33
PRK13536	340	nodulation factor exporter subunit NodI; Provision	98.31
PRK12377	248	putative replication protein; Provisional	98.3
cd03268	208	ABC_BcrA_bacitracin_resist The BcrA subfamily repr	98.3
cd03232	192	ABC_PDR_domain2 The pleiotropic drug resistance-li	98.29
PRK11000	369	maltose/maltodextrin transporter ATP-binding prote	98.29
TIGR02211	221	LolD_lipo_ex lipoprotein releasing system, ATP-bin	98.28
COG1124	252	DppF ABC-type dipeptide/oligopeptide/nickel transp	98.28
PRK09452	375	potA putrescine/spermidine ABC transporter ATPase	98.28
PRK11432	351	fbpC ferric transporter ATP-binding subunit; Provi	98.28
PRK06835	329	DNA replication protein DnaC; Validated	98.28
cd03247	178	ABCC_cytochrome_bd The CYD subfamily implicated in	98.28
TIGR00064	272	ftsY signal recognition particle-docking protein F	98.27
PRK10867	433	signal recognition particle protein; Provisional	98.27
TIGR03258	362	PhnT 2-aminoethylphosphonate ABC transport system,	98.27
PF13173	128	AAA_14: AAA domain	98.27
COG4107	258	PhnK ABC-type phosphonate transport system, ATPase	98.27
PRK13540	200	cytochrome c biogenesis protein CcmA; Provisional	98.26
PRK11629	233	lolD lipoprotein transporter ATP-binding subunit;	98.26
PRK10584	228	putative ABC transporter ATP-binding protein YbbA;	98.26
PTZ00454	398	26S protease regulatory subunit 6B-like protein; P	98.26
PRK13635	279	cbiO cobalt transporter ATP-binding subunit; Provi	98.26
COG4608	268	AppF ABC-type oligopeptide transport system, ATPas	98.26
COG1135	339	AbcC ABC-type metal ion transport system, ATPase c	98.25
PRK10851	353	sulfate/thiosulfate transporter subunit; Provision	98.25
PTZ00361	438	26 proteosome regulatory subunit 4-like protein; P	98.25
TIGR00960	216	3a0501s02 Type II (General) Secretory Pathway (IIS	98.25
PRK11144	352	modC molybdate transporter ATP-binding protein; Pr	98.25
COG1618	179	Predicted nucleotide kinase [Nucleotide transport	98.25
cd03300	232	ABC_PotA_N PotA is an ABC-type transporter and the	98.24
COG1129	500	MglA ABC-type sugar transport system, ATPase compo	98.24
cd03293	220	ABC_NrtD_SsuB_transporters NrtD and SsuB are the A	98.24
PRK11247	257	ssuB aliphatic sulfonates transport ATP-binding su	98.24
cd00267	157	ABC_ATPase ABC (ATP-binding cassette) transporter	98.24
TIGR03499	282	FlhF flagellar biosynthetic protein FlhF.	98.24
TIGR01288	303	nodI ATP-binding ABC transporter family nodulation	98.23
cd03292	214	ABC_FtsE_transporter FtsE is a hydrophilic nucleot	98.23
PRK10416	318	signal recognition particle-docking protein FtsY;	98.23
PRK12724	432	flagellar biosynthesis regulator FlhF; Provisional	98.23
cd03237	246	ABC_RNaseL_inhibitor_domain2 The ATPase domain 2 o	98.23
TIGR03420	226	DnaA_homol_Hda DnaA regulatory inactivator Hda. Me	98.23
PRK12726	407	flagellar biosynthesis regulator FlhF; Provisional	98.23
PRK11607	377	potG putrescine transporter ATP-binding subunit; P	98.23
cd03269	210	ABC_putative_ATPase This subfamily is involved in	98.22
cd03231	201	ABC_CcmA_heme_exporter CcmA, the ATP-binding compo	98.22
TIGR03608	206	L_ocin_972_ABC putative bacteriocin export ABC tra	98.22
TIGR03864	236	PQQ_ABC_ATP ABC transporter, ATP-binding subunit,	98.22
cd03294	269	ABC_Pro_Gly_Bertaine This family comprises the gly	98.22
PRK06921	266	hypothetical protein; Provisional	98.21
TIGR01184	230	ntrCD nitrate transport ATP-binding subunits C and	98.21
TIGR03410	230	urea_trans_UrtE urea ABC transporter, ATP-binding	98.21
PRK13650	279	cbiO cobalt transporter ATP-binding subunit; Provi	98.21
COG4586	325	ABC-type uncharacterized transport system, ATPase	98.2
PRK10253	265	iron-enterobactin transporter ATP-binding protein;	98.2
TIGR02314	343	ABC_MetN D-methionine ABC transporter, ATP-binding	98.2
TIGR02142	354	modC_ABC molybdenum ABC transporter, ATP-binding p	98.2
PRK10247	225	putative ABC transporter ATP-binding protein YbbL;	98.2
PRK11264	250	putative amino-acid ABC transporter ATP-binding pr	98.2
PF07088	484	GvpD: GvpD gas vesicle protein; InterPro: IPR00978	98.19
PRK11153	343	metN DL-methionine transporter ATP-binding subunit	98.19
TIGR02673	214	FtsE cell division ATP-binding protein FtsE. This	98.19
cd03225	211	ABC_cobalt_CbiO_domain1 Domain I of the ABC compon	98.19
COG1127	263	Ttg2A ABC-type transport system involved in resist	98.19
PRK09984	262	phosphonate/organophosphate ester transporter subu	98.19
PRK10575	265	iron-hydroxamate transporter ATP-binding subunit;	98.18
PRK11300	255	livG leucine/isoleucine/valine transporter ATP-bin	98.18
cd03219	236	ABC_Mj1267_LivG_branched The Mj1267/LivG ABC trans	98.18
TIGR01166	190	cbiO cobalt transport protein ATP-binding subunit.	98.18
TIGR00959	428	ffh signal recognition particle protein. This mode	98.18
cd03262	213	ABC_HisP_GlnQ_permeases HisP and GlnQ are the ATP-	98.17
cd03299	235	ABC_ModC_like Archeal protein closely related to M	98.17
PRK13548	258	hmuV hemin importer ATP-binding subunit; Provision	98.17
cd03283	199	ABC_MutS-like MutS-like homolog in eukaryotes. The	98.17
COG3638	258	ABC-type phosphate/phosphonate transport system, A	98.17
PRK11248	255	tauB taurine transporter ATP-binding subunit; Prov	98.17
COG1118	345	CysA ABC-type sulfate/molybdate transport systems,	98.16
PRK11831	269	putative ABC transporter ATP-binding protein YrbF;	98.16
COG4181	228	Predicted ABC-type transport system involved in ly	98.16
TIGR00968	237	3a0106s01 sulfate ABC transporter, ATP-binding pro	98.16
cd03233	202	ABC_PDR_domain1 The pleiotropic drug resistance (P	98.15
cd03297	214	ABC_ModC_molybdenum_transporter ModC is an ABC-typ	98.15
cd03263	220	ABC_subfamily_A The ABCA subfamily mediates the tr	98.15
COG4619	223	ABC-type uncharacterized transport system, ATPase	98.15
PRK09536	402	btuD corrinoid ABC transporter ATPase; Reviewed	98.15
PRK03992	389	proteasome-activating nucleotidase; Provisional	98.15
PRK13543	214	cytochrome c biogenesis protein CcmA; Provisional	98.15
PF09807	249	DUF2348: Uncharacterized conserved protein (DUF234	98.14
TIGR03005	252	ectoine_ehuA ectoine/hydroxyectoine ABC transporte	98.14
cd03226	205	ABC_cobalt_CbiO_domain2 Domain II of the ABC compo	98.14
COG0411	250	LivG ABC-type branched-chain amino acid transport	98.14
PRK13652	277	cbiO cobalt transporter ATP-binding subunit; Provi	98.14
PRK08116	268	hypothetical protein; Validated	98.13
TIGR03522	301	GldA_ABC_ATP gliding motility-associated ABC trans	98.13
COG4618	580	ArpD ABC-type protease/lipase transport system, AT	98.13
cd03221	144	ABCF_EF-3 ABCF_EF-3 Elongation factor 3 (EF-3) is	98.13
cd03218	232	ABC_YhbG The ABC transporters belonging to the Yhb	98.13
COG3840	231	ThiQ ABC-type thiamine transport system, ATPase co	98.13
TIGR02324	224	CP_lyasePhnL phosphonate C-P lyase system protein	98.13
cd03223	166	ABCD_peroxisomal_ALDP Peroxisomal ATP-binding cass	98.13
PRK14250	241	phosphate ABC transporter ATP-binding protein; Pro	98.13
TIGR01186	363	proV glycine betaine/L-proline transport ATP bindi	98.12
PRK14974	336	cell division protein FtsY; Provisional	98.12
TIGR01189	198	ccmA heme ABC exporter, ATP-binding protein CcmA.	98.12
PRK13634	290	cbiO cobalt transporter ATP-binding subunit; Provi	98.11
PRK13648	269	cbiO cobalt transporter ATP-binding subunit; Provi	98.11
cd03235	213	ABC_Metallic_Cations ABC component of the metal-ty	98.11
PRK13640	282	cbiO cobalt transporter ATP-binding subunit; Provi	98.11
COG1134	249	TagH ABC-type polysaccharide/polyol phosphate tran	98.11
cd03267	236	ABC_NatA_like Similar in sequence to NatA, this is	98.11
PRK10895	241	lipopolysaccharide ABC transporter ATP-binding pro	98.11
cd03257	228	ABC_NikE_OppD_transporters The ABC transporter sub	98.11
PRK10908	222	cell division protein FtsE; Provisional	98.11
PRK05703	424	flhF flagellar biosynthesis regulator FlhF; Valida	98.11
PRK13636	283	cbiO cobalt transporter ATP-binding subunit; Provi	98.11
PRK13647	274	cbiO cobalt transporter ATP-binding subunit; Provi	98.1
PRK13538	204	cytochrome c biogenesis protein CcmA; Provisional	98.1
COG1116	248	TauB ABC-type nitrate/sulfonate/bicarbonate transp	98.09
PRK13646	286	cbiO cobalt transporter ATP-binding subunit; Provi	98.09
PRK09544	251	znuC high-affinity zinc transporter ATPase; Review	98.09
TIGR03873	256	F420-0_ABC_ATP proposed F420-0 ABC transporter, AT	98.09
PRK00771	437	signal recognition particle protein Srp54; Provisi	98.09
PRK07952	244	DNA replication protein DnaC; Validated	98.09
KOG0736	953	consensus Peroxisome assembly factor 2 containing	98.09
PRK09493	240	glnQ glutamine ABC transporter ATP-binding protein	98.08
PRK10619	257	histidine/lysine/arginine/ornithine transporter su	98.07
PRK11889	436	flhF flagellar biosynthesis regulator FlhF; Provis	98.07
PRK13768	253	GTPase; Provisional	98.07
cd03253	236	ABCC_ATM1_transporter ATM1 is an ABC transporter t	98.07
COG1484	254	DnaC DNA replication protein [DNA replication, rec	98.07
PRK13637	287	cbiO cobalt transporter ATP-binding subunit; Provi	98.07
PRK10070	400	glycine betaine transporter ATP-binding subunit; P	98.07
PRK08939	306	primosomal protein DnaI; Reviewed	98.07
PRK15112	267	antimicrobial peptide ABC system ATP-binding prote	98.06
COG1123	539	ATPase components of various ABC-type transport sy	98.05
TIGR03740	223	galliderm_ABC gallidermin-class lantibiotic protec	98.05
cd03234	226	ABCG_White The White subfamily represents ABC tran	98.05
KOG0733	802	consensus Nuclear AAA ATPase (VCP subfamily) [Post	98.05
PRK11308	327	dppF dipeptide transporter ATP-binding subunit; Pr	98.05
cd01132	274	F1_ATPase_alpha F1 ATP synthase alpha, central dom	98.05
TIGR01425	429	SRP54_euk signal recognition particle protein SRP5	98.04
PRK13642	277	cbiO cobalt transporter ATP-binding subunit; Provi	98.04
PRK11124	242	artP arginine transporter ATP-binding subunit; Pro	98.04
PRK13651	305	cobalt transporter ATP-binding subunit; Provisiona	98.04
TIGR03689	512	pup_AAA proteasome ATPase. In the Actinobacteria,	98.04
PRK11614	237	livF leucine/isoleucine/valine transporter ATP-bin	98.04
TIGR03411	242	urea_trans_UrtD urea ABC transporter, ATP-binding	98.03
TIGR01242	364	26Sp45 26S proteasome subunit P45 family. Many pro	98.03
CHL00195	489	ycf46 Ycf46; Provisional	98.03
PRK13633	280	cobalt transporter ATP-binding subunit; Provisiona	98.03
PHA00729	226	NTP-binding motif containing protein	98.02
PRK12727	559	flagellar biosynthesis regulator FlhF; Provisional	98.02
PRK13632	271	cbiO cobalt transporter ATP-binding subunit; Provi	98.02
PRK14722	374	flhF flagellar biosynthesis regulator FlhF; Provis	98.01
cd03251	234	ABCC_MsbA MsbA is an essential ABC transporter, cl	98.01
COG1123	539	ATPase components of various ABC-type transport sy	98.01
PRK11231	255	fecE iron-dicitrate transporter ATP-binding subuni	98.01
PRK14086	617	dnaA chromosomal replication initiation protein; P	98.01
PRK13643	288	cbiO cobalt transporter ATP-binding subunit; Provi	98.01
TIGR02770	230	nickel_nikD nickel import ATP-binding protein NikD	98.0
cd03264	211	ABC_drug_resistance_like ABC-type multidrug transp	98.0
PRK13539	207	cytochrome c biogenesis protein CcmA; Provisional	98.0
TIGR02769	265	nickel_nikE nickel import ATP-binding protein NikE	98.0
TIGR03415	382	ABC_choXWV_ATP choline ABC transporter, ATP-bindin	97.99
cd03217	200	ABC_FeS_Assembly ABC-type transport system involve	97.99
TIGR02868	529	CydC thiol reductant ABC exporter, CydC subunit. T	97.99
COG2274	709	SunT ABC-type bacteriocin/lantibiotic exporters, c	97.99
PRK10419	268	nikE nickel transporter ATP-binding protein NikE;	97.98
TIGR00750	300	lao LAO/AO transport system ATPase. Mutations have	97.98
TIGR02982	220	heterocyst_DevA ABC exporter ATP-binding subunit,	97.98
KOG0727	408	consensus 26S proteasome regulatory complex, ATPas	97.98
KOG1533	290	consensus Predicted GTPase [General function predi	97.97
cd03369	207	ABCC_NFT1 Domain 2 of NFT1 (New full-length MRP-ty	97.97
PRK15079	331	oligopeptide ABC transporter ATP-binding protein O	97.97
PRK10418	254	nikD nickel transporter ATP-binding protein NikD;	97.96
PRK13639	275	cbiO cobalt transporter ATP-binding subunit; Provi	97.96
COG2087	175	CobU Adenosyl cobinamide kinase/adenosyl cobinamid	97.96
PRK03695	248	vitamin B12-transporter ATPase; Provisional	97.96
PF05729	166	NACHT: NACHT domain	97.96
cd01133	274	F1-ATPase_beta F1 ATP synthase beta subunit, nucle	97.96
cd03260	227	ABC_PstB_phosphate_transporter Phosphate uptake is	97.96
PRK11176	582	lipid transporter ATP-binding/permease protein; Pr	97.96
PRK11174	588	cysteine/glutathione ABC transporter membrane/ATP-	97.95
PF00931	287	NB-ARC: NB-ARC domain; InterPro: IPR002182 This is	97.95
PRK06731	270	flhF flagellar biosynthesis regulator FlhF; Valida	97.95
cd03224	222	ABC_TM1139_LivF_branched LivF (TM1139) is part of	97.95
cd03243	202	ABC_MutS_homologs The MutS protein initiates DNA m	97.94
PRK11701	258	phnK phosphonate C-P lyase system protein PhnK; Pr	97.94
PRK14088	440	dnaA chromosomal replication initiation protein; P	97.93
PRK13649	280	cbiO cobalt transporter ATP-binding subunit; Provi	97.93
cd03244	221	ABCC_MRP_domain2 Domain 2 of the ABC subfamily C.	97.93
PF03029	238	ATP_bind_1: Conserved hypothetical ATP binding pro	97.93
cd00561	159	CobA_CobO_BtuR ATP:corrinoid adenosyltransferase B	97.92
PRK13645	289	cbiO cobalt transporter ATP-binding subunit; Provi	97.92
PRK15439	510	autoinducer 2 ABC transporter ATP-binding protein	97.92
KOG0733	802	consensus Nuclear AAA ATPase (VCP subfamily) [Post	97.92
cd03220	224	ABC_KpsT_Wzt ABC_KpsT_Wzt The KpsT/Wzt ABC transpo	97.91
PRK13631	320	cbiO cobalt transporter ATP-binding subunit; Provi	97.91
COG4559	259	ABC-type hemin transport system, ATPase component	97.91
PRK12422	445	chromosomal replication initiation protein; Provis	97.91
COG4172	534	ABC-type uncharacterized transport system, duplica	97.9
PF13245	76	AAA_19: Part of AAA domain	97.9
PRK15056	272	manganese/iron transporter ATP-binding protein; Pr	97.9
PRK13638	271	cbiO cobalt transporter ATP-binding subunit; Provi	97.9
PRK09473	330	oppD oligopeptide transporter ATP-binding componen	97.89
TIGR03771	223	anch_rpt_ABC anchored repeat-type ABC transporter,	97.89
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	97.89
PRK10938	490	putative molybdenum transport ATP-binding protein	97.89
PRK13644	274	cbiO cobalt transporter ATP-binding subunit; Provi	97.89
PF08433	270	KTI12: Chromatin associated protein KTI12 ; InterP	97.88
cd03295	242	ABC_OpuCA_Osmoprotection OpuCA is a the ATP bindin	97.88
PRK10762	501	D-ribose transporter ATP binding protein; Provisio	97.88
TIGR01978	243	sufC FeS assembly ATPase SufC. SufC is part of the	97.88
cd01128	249	rho_factor Transcription termination factor rho is	97.88
KOG0744	423	consensus AAA+-type ATPase [Posttranslational modi	97.87
cd03236	255	ABC_RNaseL_inhibitor_domain1 The ATPase domain 1 o	97.87
KOG0734	752	consensus AAA+-type ATPase containing the peptidas	97.87
TIGR03015	269	pepcterm_ATPase putative secretion ATPase, PEP-CTE	97.86
PRK12723	388	flagellar biosynthesis regulator FlhF; Provisional	97.86
PRK09435	332	membrane ATPase/protein kinase; Provisional	97.86
PRK13547	272	hmuV hemin importer ATP-binding subunit; Provision	97.86
TIGR03797	686	NHPM_micro_ABC2 NHPM bacteriocin system ABC transp	97.86
KOG0730	693	consensus AAA+-type ATPase [Posttranslational modi	97.86
PRK11022	326	dppD dipeptide transporter ATP-binding subunit; Pr	97.85
PRK09700	510	D-allose transporter ATP-binding protein; Provisio	97.85
PRK13409	590	putative ATPase RIL; Provisional	97.85
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	97.85
TIGR00972	247	3a0107s01c2 phosphate ABC transporter, ATP-binding	97.84
TIGR01241	495	FtsH_fam ATP-dependent metalloprotease FtsH. HflB(	97.84
COG1435	201	Tdk Thymidine kinase [Nucleotide transport and met	97.84
TIGR00362	405	DnaA chromosomal replication initiator protein Dna	97.84
PRK13541	195	cytochrome c biogenesis protein CcmA; Provisional	97.84
PRK14267	253	phosphate ABC transporter ATP-binding protein; Pro	97.83
TIGR02857	529	CydD thiol reductant ABC exporter, CydD subunit. U	97.82
PRK00149	450	dnaA chromosomal replication initiation protein; R	97.82
cd03114	148	ArgK-like The function of this protein family is u	97.82
PRK13641	287	cbiO cobalt transporter ATP-binding subunit; Provi	97.81
PRK15093	330	antimicrobial peptide ABC transporter ATP-binding	97.81
PRK14087	450	dnaA chromosomal replication initiation protein; P	97.81
TIGR03796	710	NHPM_micro_ABC1 NHPM bacteriocin system ABC transp	97.81
COG1117	253	PstB ABC-type phosphate transport system, ATPase c	97.81
TIGR00962	501	atpA proton translocating ATP synthase, F1 alpha s	97.8
PRK10790	592	putative multidrug transporter membrane\ATP-bindin	97.8
KOG0739	439	consensus AAA+-type ATPase [Posttranslational modi	97.79
PRK13343	502	F0F1 ATP synthase subunit alpha; Provisional	97.79
PRK10982	491	galactose/methyl galaxtoside transporter ATP-bindi	97.79
PRK10261	623	glutathione transporter ATP-binding protein; Provi	97.79
CHL00059	485	atpA ATP synthase CF1 alpha subunit	97.79
TIGR03269	520	met_CoM_red_A2 methyl coenzyme M reductase system,	97.78
PRK11288	501	araG L-arabinose transporter ATP-binding protein;	97.78
COG2401	593	ABC-type ATPase fused to a predicted acetyltransfe	97.78
TIGR03375	694	type_I_sec_LssB type I secretion system ATPase, Ls	97.78
TIGR01842	544	type_I_sec_PrtD type I secretion system ABC transp	97.78
PRK09376	416	rho transcription termination factor Rho; Provisio	97.78
PF13604	196	AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL	97.77
cd03280	200	ABC_MutS2 MutS2 homologs in bacteria and eukaryote	97.77
KOG0058	716	consensus Peptide exporter, ABC superfamily [Intra	97.76
PRK13546	264	teichoic acids export protein ATP-binding subunit;	97.76
PRK13549	506	xylose transporter ATP-binding subunit; Provisiona	97.76
PF07015	231	VirC1: VirC1 protein; InterPro: IPR009744 This fam	97.76
PRK13657	588	cyclic beta-1,2-glucan ABC transporter; Provisiona	97.75
PF01580	205	FtsK_SpoIIIE: FtsK/SpoIIIE family; InterPro: IPR00	97.75
KOG0061	613	consensus Transporter, ABC superfamily (Breast can	97.75
PLN00020	413	ribulose bisphosphate carboxylase/oxygenase activa	97.74
TIGR03324	497	alt_F1F0_F1_al alternate F1F0 ATPase, F1 subunit a	97.74
TIGR01193	708	bacteriocin_ABC ABC-type bacteriocin transporter.	97.74
PRK11288	501	araG L-arabinose transporter ATP-binding protein;	97.74
PRK07165	507	F0F1 ATP synthase subunit alpha; Validated	97.73
PRK10789	569	putative multidrug transporter membrane\ATP-bindin	97.73
PF05625	363	PAXNEB: PAXNEB protein; InterPro: IPR008728 The RN	97.73
PRK12608	380	transcription termination factor Rho; Provisional	97.71
TIGR02204	576	MsbA_rel ABC transporter, permease/ATP-binding pro	97.71
TIGR01846	694	type_I_sec_HlyB type I secretion system ABC transp	97.71
PRK14723	767	flhF flagellar biosynthesis regulator FlhF; Provis	97.7
cd03289	275	ABCC_CFTR2 The CFTR subfamily domain 2. The cystic	97.7
cd03227	162	ABC_Class2 ABC-type Class 2 contains systems invol	97.7
CHL00176	638	ftsH cell division protein; Validated	97.7
TIGR02203	571	MsbA_lipidA lipid A export permease/ATP-binding pr	97.69
PRK14259	269	phosphate ABC transporter ATP-binding protein; Pro	97.68
KOG0652	424	consensus 26S proteasome regulatory complex, ATPas	97.68
COG0464	494	SpoVK ATPases of the AAA+ class [Posttranslational	97.68
PRK09087	226	hypothetical protein; Validated	97.68
TIGR01192	585	chvA glucan exporter ATP-binding protein. This mod	97.68
PRK09700	510	D-allose transporter ATP-binding protein; Provisio	97.67
PRK00889	175	adenylylsulfate kinase; Provisional	97.67
TIGR01194	555	cyc_pep_trnsptr cyclic peptide transporter. This m	97.66
PRK13695	174	putative NTPase; Provisional	97.66
TIGR00708	173	cobA cob(I)alamin adenosyltransferase. Alternate n	97.66
PRK10762	501	D-ribose transporter ATP binding protein; Provisio	97.66
PF09848	352	DUF2075: Uncharacterized conserved protein (DUF207	97.66
COG0552	340	FtsY Signal recognition particle GTPase [Intracell	97.66
PRK14258	261	phosphate ABC transporter ATP-binding protein; Pro	97.66
COG4544	260	Uncharacterized conserved protein [Function unknow	97.66
TIGR00958	711	3a01208 Conjugate Transporter-2 (CT2) Family prote	97.66
PRK10522	547	multidrug transporter membrane component/ATP-bindi	97.66
PRK05986	191	cob(I)alamin adenolsyltransferase/cobinamide ATP-d	97.65
PRK08233	182	hypothetical protein; Provisional	97.65
cd02037	169	MRP-like MRP (Multiple Resistance and pH adaptatio	97.65
COG4175	386	ProV ABC-type proline/glycine betaine transport sy	97.64
PRK11160	574	cysteine/glutathione ABC transporter membrane/ATP-	97.64
TIGR02928	365	orc1/cdc6 family replication initiation protein. M	97.64
PRK14263	261	phosphate ABC transporter ATP-binding protein; Pro	97.64
PRK09281	502	F0F1 ATP synthase subunit alpha; Validated	97.64
COG0488	530	Uup ATPase components of ABC transporters with dup	97.64
PRK00411	394	cdc6 cell division control protein 6; Reviewed	97.64
KOG0738	491	consensus AAA+-type ATPase [Posttranslational modi	97.63
TIGR00767	415	rho transcription termination factor Rho. Members	97.63
COG1132	567	MdlB ABC-type multidrug transport system, ATPase a	97.63
PRK09280	463	F0F1 ATP synthase subunit beta; Validated	97.63
TIGR03305	449	alt_F1F0_F1_bet alternate F1F0 ATPase, F1 subunit	97.63
TIGR03269	520	met_CoM_red_A2 methyl coenzyme M reductase system,	97.63
TIGR02858	270	spore_III_AA stage III sporulation protein AA. Mem	97.63
PF02283	167	CobU: Cobinamide kinase / cobinamide phosphate gua	97.62
cd00550	254	ArsA_ATPase Oxyanion-translocating ATPase (ArsA).	97.62
cd02034	116	CooC The accessory protein CooC, which contains a	97.62
COG1137	243	YhbG ABC-type (unclassified) transport system, ATP	97.62
TIGR02633	500	xylG D-xylose ABC transporter, ATP-binding protein	97.62
TIGR01187	325	potA spermidine/putrescine ABC transporter ATP-bin	97.62
COG4148	352	ModC ABC-type molybdate transport system, ATPase c	97.62
PRK14269	246	phosphate ABC transporter ATP-binding protein; Pro	97.62
PF00006	215	ATP-synt_ab: ATP synthase alpha/beta family, nucle	97.62
PRK10261	623	glutathione transporter ATP-binding protein; Provi	97.61
COG0444	316	DppD ABC-type dipeptide/oligopeptide/nickel transp	97.61
PRK09099	441	type III secretion system ATPase; Provisional	97.6
PTZ00185	574	ATPase alpha subunit; Provisional	97.6
TIGR01257	2272	rim_protein retinal-specific rim ABC transporter.	97.6
PRK14254	285	phosphate ABC transporter ATP-binding protein; Pro	97.6
PRK13545	549	tagH teichoic acids export protein ATP-binding sub	97.6
PTZ00265	1466	multidrug resistance protein (mdr1); Provisional	97.6
KOG0726	440	consensus 26S proteasome regulatory complex, ATPas	97.59
PRK10938	490	putative molybdenum transport ATP-binding protein	97.59
PRK13549	506	xylose transporter ATP-binding subunit; Provisiona	97.59
TIGR00955	617	3a01204 The Eye Pigment Precursor Transporter (EPP	97.58
COG3854	308	SpoIIIAA ncharacterized protein conserved in bacte	97.58
COG1119	257	ModF ABC-type molybdenum transport system, ATPase	97.58
PRK12597	461	F0F1 ATP synthase subunit beta; Provisional	97.58
cd01135	276	V_A-ATPase_B V/A-type ATP synthase (non-catalytic)	97.58
PRK15134	529	microcin C ABC transporter ATP-binding protein Yej	97.58
PRK14247	250	phosphate ABC transporter ATP-binding protein; Pro	97.57
TIGR01039	461	atpD ATP synthase, F1 beta subunit. The sequences	97.57
PRK15439	510	autoinducer 2 ABC transporter ATP-binding protein	97.57
COG1419	407	FlhF Flagellar GTP-binding protein [Cell motility	97.57
PRK09580	248	sufC cysteine desulfurase ATPase component; Review	97.57
cd02028	179	UMPK_like Uridine monophosphate kinase_like (UMPK_	97.57
PRK07721	438	fliI flagellum-specific ATP synthase; Validated	97.56
PF02492	178	cobW: CobW/HypB/UreG, nucleotide-binding domain; I	97.55
PRK08972	444	fliI flagellum-specific ATP synthase; Validated	97.55
COG4136	213	ABC-type uncharacterized transport system, ATPase	97.55
COG4988	559	CydD ABC-type transport system involved in cytochr	97.54
PRK07196	434	fliI flagellum-specific ATP synthase; Validated	97.54
PLN03232	1495	ABC transporter C family member; Provisional	97.53
TIGR02546	422	III_secr_ATP type III secretion apparatus H+-trans	97.53
PF03308	266	ArgK: ArgK protein; InterPro: IPR005129 Bacterial	97.52
CHL00060	494	atpB ATP synthase CF1 beta subunit	97.52
PRK05922	434	type III secretion system ATPase; Validated	97.52
cd03271	261	ABC_UvrA_II The excision repair protein UvrA domai	97.52
COG0488	530	Uup ATPase components of ABC transporters with dup	97.51
cd01131	198	PilT Pilus retraction ATPase PilT. PilT is a nucle	97.51
PRK13409	590	putative ATPase RIL; Provisional	97.51
PRK06793	432	fliI flagellum-specific ATP synthase; Validated	97.5
PRK15064	530	ABC transporter ATP-binding protein; Provisional	97.5
KOG1433	326	consensus DNA repair protein RAD51/RHP55 [Replicat	97.5
COG1703	323	ArgK Putative periplasmic protein kinase ArgK and	97.5
PRK14493	274	putative bifunctional molybdopterin-guanine dinucl	97.5
PRK08472	434	fliI flagellum-specific ATP synthase; Validated	97.49
TIGR02633	500	xylG D-xylose ABC transporter, ATP-binding protein	97.49
cd03281	213	ABC_MSH5_euk MutS5 homolog in eukaryotes. The MutS	97.49
cd03285	222	ABC_MSH2_euk MutS2 homolog in eukaryotes. The MutS	97.49
PF02374	305	ArsA_ATPase: Anion-transporting ATPase; PDB: 2WOO_	97.46

>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=1e-43  Score=327.20  Aligned_cols=238  Identities=52%  Similarity=0.772  Sum_probs=220.8

Q ss_pred             HHHHHHHHHHHHHHhhCcccccccccccCCCCCCccccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHH
Q 021239           66 KDNALRLALSQLANDFGKESMLSLKRFFGSRRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQ  145 (315)
Q Consensus        66 ~~~~l~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~i~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~  145 (315)
                      +.++++.+++++.+.|+++..|++.+. .....+.+|||++.||.+||+||+|+|.+++|+||||+|||+||++++.+++
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            456899999999999999999888763 3457889999999999999889999999999999999999999999999999


Q ss_pred             hcCCeEEEEecCCCCChHHHHHcCCCCCCeEEeCCCCHHHHHHHHHHHHHcCCccEEeehhHhhhccccccCCCccCCCh
Q 021239          146 KLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYS  225 (315)
Q Consensus       146 ~~g~~v~~i~~E~~~~~~~~~~~g~~~~~l~i~~~~~~e~~~~~i~~l~~~~~~~lVVIDsl~~l~~~~~~~~~~~~~~~  225 (315)
                      +.|++|+||++|+++++.+++++|++.+++++.++++.+++++.+..++++..+++|||||+++++++.+++++.++.+.
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            99999999999999999999999999999999999999999999999999999999999999999987788887777777


Q ss_pred             HHHHHHHHHHHHHHHHHHhccCcEEEEEeccccccCCCCCCCCCccccccccccccccceEEEEEecccccccCeeeccc
Q 021239          226 DAQSRIMTQALRKIHYSLCQSHTLIIFLNQVRFSAKSGQGLGRMDEVTSGGNALKFYAALRLRMMRTRLFKIADKVNILE  305 (315)
Q Consensus       226 ~~q~r~i~~~l~~L~~~~~~~~i~VI~inq~~~~~~~~~~~~~~~~~~~gG~~~~~~~~~rl~l~k~~~~k~~~~~~g~~  305 (315)
                      +.|+|.+.+.+++|..+++++++++|+|||++..+  +.+|+ +++.++||++|.|+++.|+.++|.+.+|++++++|++
T Consensus       161 ~~qaR~l~~~Lr~L~~~~~k~~~~vI~tNQvr~~i--g~~~g-~~e~~~GG~~L~~~ss~rl~lrk~~~~k~~~~~~G~~  237 (325)
T cd00983         161 GLQARLMSQALRKLTGSINKSNTTVIFINQLREKI--GVMFG-NPETTTGGNALKFYSSVRLDIRRIETIKDGDEVIGNR  237 (325)
T ss_pred             HHHHHHHHHHHHHHHHHHHhCCCEEEEEEcccccc--ccccC-CCccCCCchHHhhhcceEEEEEeecccccCCcccccE
Confidence            78888899999999999999999999999999998  55787 7899999999999999999999999999999999998


Q ss_pred             ee
Q 021239          306 VV  307 (315)
Q Consensus       306 ~~  307 (315)
                      ++
T Consensus       238 ~~  239 (325)
T cd00983         238 TK  239 (325)
T ss_pred             EE
Confidence            54

RecA couples ATP hydrolysis to DNA strand exchange.

>PRK09354 recA recombinase A; Provisional

Probab=100.00  E-value=1.7e-43  Score=327.86  Aligned_cols=240  Identities=52%  Similarity=0.756  Sum_probs=222.6

Q ss_pred             HHHHHHHHHHHHHHHHhhCcccccccccccCCCCCCccccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHH
Q 021239           64 MQKDNALRLALSQLANDFGKESMLSLKRFFGSRRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKE  143 (315)
Q Consensus        64 ~~~~~~l~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~i~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~  143 (315)
                      .++.++++.+++++.+.||++..|++.+.. ....+.+|||++.||.+||+||+|+|.+++|+||||+||||||++++.+
T Consensus         5 ~~~~~~~~~~~~~i~~~~g~~~~~~~~~~~-~~~~~~isTGi~~LD~~LG~GGip~G~IteI~G~~GsGKTtLal~~~~~   83 (349)
T PRK09354          5 EEKQKALEAALKQIEKQFGKGSIMRLGDDA-AMDVEVISTGSLALDIALGIGGLPRGRIVEIYGPESSGKTTLALHAIAE   83 (349)
T ss_pred             hHHHHHHHHHHHHHHHHhCCCCceEccccc-ccCCceecCCcHHHHHHhcCCCCcCCeEEEEECCCCCCHHHHHHHHHHH
Confidence            467789999999999999999999887643 2368899999999999998899999999999999999999999999999


Q ss_pred             HHhcCCeEEEEecCCCCChHHHHHcCCCCCCeEEeCCCCHHHHHHHHHHHHHcCCccEEeehhHhhhccccccCCCccCC
Q 021239          144 AQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGM  223 (315)
Q Consensus       144 ~~~~g~~v~~i~~E~~~~~~~~~~~g~~~~~l~i~~~~~~e~~~~~i~~l~~~~~~~lVVIDsl~~l~~~~~~~~~~~~~  223 (315)
                      +++.|++|+||++|+++++.+++++|++++++.+.++++.++.++.+..++++..+++|||||+++++++.+++++.++.
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            99999999999999999999999999999999999999999999999999999999999999999999878888887777


Q ss_pred             ChHHHHHHHHHHHHHHHHHHhccCcEEEEEeccccccCCCCCCCCCccccccccccccccceEEEEEecccccccCeeec
Q 021239          224 YSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVRFSAKSGQGLGRMDEVTSGGNALKFYAALRLRMMRTRLFKIADKVNI  303 (315)
Q Consensus       224 ~~~~q~r~i~~~l~~L~~~~~~~~i~VI~inq~~~~~~~~~~~~~~~~~~~gG~~~~~~~~~rl~l~k~~~~k~~~~~~g  303 (315)
                      +.+.++|.+.+.|++|..++++++|++|+|||++.++  +.+|+ +++.|.||++|.|++++|+.++|...+|+++.++|
T Consensus       164 ~~~~qar~ms~~Lr~L~~~l~k~~itvI~tNQvr~~i--g~~~g-~pe~~~GG~aL~~~ss~rl~lrr~~~iK~~~~~~G  240 (349)
T PRK09354        164 HVGLQARLMSQALRKLTGNISKSNTTVIFINQIREKI--GVMFG-NPETTTGGNALKFYASVRLDIRRIGTIKDGDEVIG  240 (349)
T ss_pred             chhHHHHHHHHHHHHHHHHHHHcCcEEEEEEeeeecc--ccccC-CCCcCCCchhhHhhheeeeEEecccccccCCceec
Confidence            7778888888999999999999999999999999998  45676 78899999999999999999999999999999999


Q ss_pred             ccee
Q 021239          304 LEVV  307 (315)
Q Consensus       304 ~~~~  307 (315)
                      ++++
T Consensus       241 ~~~r  244 (349)
T PRK09354        241 NRTK  244 (349)
T ss_pred             ceEE
Confidence            9864

>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=1.3e-42  Score=318.84  Aligned_cols=238  Identities=51%  Similarity=0.750  Sum_probs=208.5

Q ss_pred             HHHHHHHHHHHHhhCcccccccccccCCCCCCccccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHhc
Q 021239           68 NALRLALSQLANDFGKESMLSLKRFFGSRRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKL  147 (315)
Q Consensus        68 ~~l~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~i~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~~  147 (315)
                      ++++.++++++++||++..+++.+.......+.+|||++.||.+||+||+|+|.+++|+|++++|||||++++++++++.
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            46888999999999999888887644345788999999999999998999999999999999999999999999999999


Q ss_pred             CCeEEEEecCCCCChHHHHHcCCCCCCeEEeCCCCHHHHHHHHHHHHHcCCccEEeehhHhhhccccccCCCccCCChHH
Q 021239          148 GGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDA  227 (315)
Q Consensus       148 g~~v~~i~~E~~~~~~~~~~~g~~~~~l~i~~~~~~e~~~~~i~~l~~~~~~~lVVIDsl~~l~~~~~~~~~~~~~~~~~  227 (315)
                      ++.|+|||.|.++++.+++.+|++++++.+.+|++.|+.++.++.+++.+.+++|||||+.++.|+.+++++.++.+.+.
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            99999999999999999999999999999999999999999999999999999999999999999999999999888999


Q ss_pred             HHHHHHHHHHHHHHHHhccCcEEEEEeccccccCCCCCCCCCccccccccccccccceEEEEEecccccccCeeecccee
Q 021239          228 QSRIMTQALRKIHYSLCQSHTLIIFLNQVRFSAKSGQGLGRMDEVTSGGNALKFYAALRLRMMRTRLFKIADKVNILEVV  307 (315)
Q Consensus       228 q~r~i~~~l~~L~~~~~~~~i~VI~inq~~~~~~~~~~~~~~~~~~~gG~~~~~~~~~rl~l~k~~~~k~~~~~~g~~~~  307 (315)
                      ++|.+++.++++...+.+.++++|+|||+++++  +.+|| +++.++||++|.|++++||.++|.+++|++++++|+++.
T Consensus       161 ~Ar~ms~~lr~lt~~l~~~~~~~i~INQ~R~~i--g~~~g-~~~~t~GG~alkfyas~rl~i~k~~~ik~~~~~iG~~~~  237 (322)
T PF00154_consen  161 QARLMSQALRKLTPLLSKSNTTLIFINQVRDKI--GVMFG-NPETTPGGRALKFYASVRLEIRKKEQIKEGDEVIGNKIK  237 (322)
T ss_dssp             HHHHHHHHHHHHHHHHHTTT-EEEEEEEESSSS--SSSSS-SSSCCTSHHHHHHHCSEEEEEEEEEEEEETTCECEEEEE
T ss_pred             hHHHHHHHHHHHHHHHHhhceEEEEeehHHHHH--hhccC-CCcCCCCCchhhhhhhhHHhhhcccccccCCcccccEEE
Confidence            999999999999999999999999999999999  55788 788899999999999999999999999999999999876


Q ss_pred             c
Q 021239          308 N  308 (315)
Q Consensus       308 ~  308 (315)
                      -
T Consensus       238 v  238 (322)
T PF00154_consen  238 V  238 (322)
T ss_dssp             E
T ss_pred             E
Confidence            3

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 ....

>TIGR02012 tigrfam_recA protein RecA

Probab=100.00  E-value=1e-42  Score=320.47  Aligned_cols=239  Identities=50%  Similarity=0.746  Sum_probs=219.8

Q ss_pred             HHHHHHHHHHHHHHhhCcccccccccccCCCCCCccccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHH
Q 021239           66 KDNALRLALSQLANDFGKESMLSLKRFFGSRRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQ  145 (315)
Q Consensus        66 ~~~~l~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~i~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~  145 (315)
                      +.++++.+++|++++||++..|++.+. .....+.+|||++.||.+||+||+|+|++++|+||||+||||||++++.+++
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            456889999999999999999888752 2357889999999999999878999999999999999999999999999999


Q ss_pred             hcCCeEEEEecCCCCChHHHHHcCCCCCCeEEeCCCCHHHHHHHHHHHHHcCCccEEeehhHhhhccccccCCCccCCCh
Q 021239          146 KLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYS  225 (315)
Q Consensus       146 ~~g~~v~~i~~E~~~~~~~~~~~g~~~~~l~i~~~~~~e~~~~~i~~l~~~~~~~lVVIDsl~~l~~~~~~~~~~~~~~~  225 (315)
                      +.|++|+||++|+++++.+++++|++.+++.+.++++.++.++.+..++++..+++|||||+++++++.+++++.++.+.
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            99999999999999999999999999999999999999999999999998899999999999999987788887777777


Q ss_pred             HHHHHHHHHHHHHHHHHHhccCcEEEEEeccccccCCCCCCCCCccccccccccccccceEEEEEecccccccCeeeccc
Q 021239          226 DAQSRIMTQALRKIHYSLCQSHTLIIFLNQVRFSAKSGQGLGRMDEVTSGGNALKFYAALRLRMMRTRLFKIADKVNILE  305 (315)
Q Consensus       226 ~~q~r~i~~~l~~L~~~~~~~~i~VI~inq~~~~~~~~~~~~~~~~~~~gG~~~~~~~~~rl~l~k~~~~k~~~~~~g~~  305 (315)
                      +.++|.+.+.+++|..+++++|+++|+|||++..+  +.+|+ +++.+.||++|.|+++.|+.++|...+|+++.++|++
T Consensus       161 ~~~aR~m~~~lr~L~~~l~~~~~tvi~tNQvr~~~--g~~~~-~~e~~~GG~aL~~~ss~r~~lrr~~~iK~~~~~~g~~  237 (321)
T TIGR02012       161 GLQARLMSQALRKLTGALSKSNTTAIFINQIREKI--GVMFG-NPETTTGGRALKFYASVRLDIRRIGQVKQGEEVVGNR  237 (321)
T ss_pred             hHHHHHHHHHHHHHHHHHHhCCCEEEEEecceecc--CcccC-CCccCcCccHHHHHHhHhHhhhhhhccccCCceeccE
Confidence            78888888999999999999999999999999988  45777 7888999999999999999999999999999999998


Q ss_pred             eec
Q 021239          306 VVN  308 (315)
Q Consensus       306 ~~~  308 (315)
                      ++-
T Consensus       238 ~~~  240 (321)
T TIGR02012       238 TKV  240 (321)
T ss_pred             EEE
Confidence            753

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.

>PRK09519 recA DNA recombination protein RecA; Reviewed

Probab=100.00  E-value=1.1e-38  Score=320.17  Aligned_cols=239  Identities=44%  Similarity=0.712  Sum_probs=217.4

Q ss_pred             HHHHHHHHHHHHHHHhhCcccccccccccCCCCCCccccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHH
Q 021239           65 QKDNALRLALSQLANDFGKESMLSLKRFFGSRRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEA  144 (315)
Q Consensus        65 ~~~~~l~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~i~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~  144 (315)
                      ++.+.++.++.++++.||++..+.+.+.. ......++||+++||.+||+||+++|++++|+|+||+|||+||++++.++
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            46668999999999999999988876632 35778999999999999976899999999999999999999999999999


Q ss_pred             HhcCCeEEEEecCCCCChHHHHHcCCCCCCeEEeCCCCHHHHHHHHHHHHHcCCccEEeehhHhhhccccccCCCccCCC
Q 021239          145 QKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMY  224 (315)
Q Consensus       145 ~~~g~~v~~i~~E~~~~~~~~~~~g~~~~~l~i~~~~~~e~~~~~i~~l~~~~~~~lVVIDsl~~l~~~~~~~~~~~~~~  224 (315)
                      +..|++|+||++|+++.+.+++++|++++++.+.++.+.+++++.+..++++.++++|||||+++++++.++++..++..
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            99999999999999999999999999999999999999999999999999888999999999999997788887766655


Q ss_pred             hHHHHHHHHHHHHHHHHHHhccCcEEEEEeccccccCCCCCCCCCccccccccccccccceEEEEEecccccccCeeecc
Q 021239          225 SDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVRFSAKSGQGLGRMDEVTSGGNALKFYAALRLRMMRTRLFKIADKVNIL  304 (315)
Q Consensus       225 ~~~q~r~i~~~l~~L~~~~~~~~i~VI~inq~~~~~~~~~~~~~~~~~~~gG~~~~~~~~~rl~l~k~~~~k~~~~~~g~  304 (315)
                      .+.|++.+.+.|++|.++++++|+++|+|||++..+  +.+|+ ++++|.||++|.|++++||.++|..++|++.+.+|+
T Consensus       165 ~~~q~rl~~q~L~~L~~~l~~~nvtvi~TNQv~~~~--g~~fg-~p~~~~GG~~l~h~ss~Ri~lrk~~~ik~~~~~~G~  241 (790)
T PRK09519        165 VGLQARLMSQALRKMTGALNNSGTTAIFINQLRDKI--GVMFG-SPETTTGGKALKFYASVRMDVRRVETLKDGTNAVGN  241 (790)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhCCCEEEEEecceecC--CCcCC-CCCcCCCCcccceeccEEEEeeeccccccCccccce
Confidence            667788788999999999999999999999999998  45786 889999999999999999999999999988878887


Q ss_pred             cee
Q 021239          305 EVV  307 (315)
Q Consensus       305 ~~~  307 (315)
                      ++.
T Consensus       242 ~~~  244 (790)
T PRK09519        242 RTR  244 (790)
T ss_pred             EEE
Confidence            653

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

Probab=100.00  E-value=7.1e-36  Score=269.55  Aligned_cols=222  Identities=49%  Similarity=0.725  Sum_probs=193.4

Q ss_pred             HHHHHHHHHHHHHhhCcccccccccccCCCCCCccccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHh
Q 021239           67 DNALRLALSQLANDFGKESMLSLKRFFGSRRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQK  146 (315)
Q Consensus        67 ~~~l~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~i~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~  146 (315)
                      .++....+.+....++....+.............++||+..||.+|| ||+|.|.+++|+||+|+|||++|+++++++++
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            34455566677777777655444222223468999999999999999 99999999999999999999999999999999


Q ss_pred             cCCeEEEEecCCCCChHHHHHcCCC-CCCeEEeCCCCHHHHHHHHHHHHHcCC--ccEEeehhHhhhccccccCCCccCC
Q 021239          147 LGGYCAYLDVENALDPSLAEAMGID-AENLLIAQPDSAENLLSVVDTLTKSGS--IDVIVVDSVAALIPKCEIGVPINGM  223 (315)
Q Consensus       147 ~g~~v~~i~~E~~~~~~~~~~~g~~-~~~l~i~~~~~~e~~~~~i~~l~~~~~--~~lVVIDsl~~l~~~~~~~~~~~~~  223 (315)
                      .|++|+|||+|+++++.|++.++.+ .+++++.++++.++..+++..+.....  +++|||||++++++....+    +.
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 999999999999999999988887666  9999999999999754433    24


Q ss_pred             ChHHHHHHHHHHHHHHHHHHhccCcEEEEEeccccccCCCCCCCCCccccccccccccccceEEEEEeccccc
Q 021239          224 YSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVRFSAKSGQGLGRMDEVTSGGNALKFYAALRLRMMRTRLFK  296 (315)
Q Consensus       224 ~~~~q~r~i~~~l~~L~~~~~~~~i~VI~inq~~~~~~~~~~~~~~~~~~~gG~~~~~~~~~rl~l~k~~~~k  296 (315)
                      ....+++.+++.++.|..++++++++||++||++.++  +.+|+ +++.|.||+++.|++++|++++|....|
T Consensus       163 ~~~~~~r~ls~~l~~L~~~a~~~~~~vi~~NQv~~k~--~~~f~-~~~~~~GG~~L~~~as~rl~l~k~~~~~  232 (279)
T COG0468         163 HLGLRARLLSKALRKLTRLANKYNTAVIFTNQVRAKI--GVMFG-DPETTTGGNALKFYASVRLDLRRIESLK  232 (279)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHcCcEEEEECceeeec--CcccC-CcccCCCchHHHhhhheEEEEeeccccc
Confidence            4567788899999999999999999999999999999  56787 8899999999999999999999997766

>TIGR02238 recomb_DMC1 meiotic recombinase Dmc1

Probab=100.00  E-value=6.4e-34  Score=263.04  Aligned_cols=224  Identities=25%  Similarity=0.328  Sum_probs=171.0

Q ss_pred             cchHHHHHHHHHHHHHHHHhhCcccccccccccCCCCCCccccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHH
Q 021239           61 AKIMQKDNALRLALSQLANDFGKESMLSLKRFFGSRRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHV  140 (315)
Q Consensus        61 ~~~~~~~~~l~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~i~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~l  140 (315)
                      ++..+..+.++.+.+.+...|.++..+.-.    .....+++||+++||.+|| ||+++|++++|+|+||+|||+||+++
T Consensus        42 ls~~~~~~i~~~~~~~~~~~~~ta~~~~~~----~~~~~~isTG~~~LD~lLg-GGi~~G~iteI~G~~GsGKTql~lql  116 (313)
T TIGR02238        42 LSEAKVDKIKEAASKIINPGFITAFEISQK----RKKVLKITTGSQALDGILG-GGIESMSITEVFGEFRCGKTQLSHTL  116 (313)
T ss_pred             CCHHHHHHHHHHHHhhhcccCccHHHHHHh----hccCceeCCCCHHHHHHhC-CCCcCCeEEEEECCCCCCcCHHHHHH
Confidence            344444444444444444445554432111    2456789999999999999 99999999999999999999999999


Q ss_pred             HHHHHh------cCCeEEEEecCCCCChH----HHHHcCCCC----CCeEEeCCCCHHHHHHHHHH---HHHcCCccEEe
Q 021239          141 IKEAQK------LGGYCAYLDVENALDPS----LAEAMGIDA----ENLLIAQPDSAENLLSVVDT---LTKSGSIDVIV  203 (315)
Q Consensus       141 a~~~~~------~g~~v~~i~~E~~~~~~----~~~~~g~~~----~~l~i~~~~~~e~~~~~i~~---l~~~~~~~lVV  203 (315)
                      +.+++.      .+++|+|||+|+++.++    +++++|+++    +++++.++.+.+++.+.+..   .+.+.++++||
T Consensus       117 a~~~~~~~~~gg~~~~vvYIdtE~~f~~eRi~~~a~~~g~d~~~~l~~i~~~~~~~~e~~~~~l~~l~~~i~~~~~~LvV  196 (313)
T TIGR02238       117 CVTAQLPREMGGGNGKVAYIDTEGTFRPDRIRAIAERFGVDPDAVLDNILYARAYTSEHQMELLDYLAAKFSEEPFRLLI  196 (313)
T ss_pred             HHHHhcchhhcCCCCeEEEEEcCCCCCHHHHHHHHHHcCCChHHhcCcEEEecCCCHHHHHHHHHHHHHHhhccCCCEEE
Confidence            988763      36799999999998774    567788875    47888888888887766655   34567899999


Q ss_pred             ehhHhhhccccccCCCccCCChHHHHHHHHHHHHHHHHHHhccCcEEEEEeccccccCCCCCCCCCcccccccccccccc
Q 021239          204 VDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVRFSAKSGQGLGRMDEVTSGGNALKFYA  283 (315)
Q Consensus       204 IDsl~~l~~~~~~~~~~~~~~~~~q~r~i~~~l~~L~~~~~~~~i~VI~inq~~~~~~~~~~~~~~~~~~~gG~~~~~~~  283 (315)
                      |||++++++ .++.+.. + ...+ .+.+.+.+..|.++++++|++||+|||++.+.+...+|..++.+|+||++|+|++
T Consensus       197 IDSisal~r-~~~~~~g-~-~~~r-~~~l~~~~~~L~~la~~~~vavvitNqv~~~~~~~~~~~~~~~~p~gG~~~~h~~  272 (313)
T TIGR02238       197 VDSIMALFR-VDFSGRG-E-LSER-QQKLAQMLSRLNKISEEFNVAVFVTNQVQADPGATMTFIADPKKPIGGHVLAHAS  272 (313)
T ss_pred             EEcchHhhh-hhccCcc-c-hHHH-HHHHHHHHHHHHHHHHHcCcEEEEECceEecCCcccccCCCCccCcchhhhhhhe
Confidence            999999984 5554321 1 1122 2337778888999999999999999999998855445644688999999999999


Q ss_pred             ceEEEEEecc
Q 021239          284 ALRLRMMRTR  293 (315)
Q Consensus       284 ~~rl~l~k~~  293 (315)
                      ++||.++|.+
T Consensus       273 ~~Rl~l~k~~  282 (313)
T TIGR02238       273 TTRILLRKGR  282 (313)
T ss_pred             eEEEEEEecC
Confidence            9999999864

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.

>PLN03187 meiotic recombination protein DMC1 homolog; Provisional

Probab=100.00  E-value=8.5e-34  Score=264.13  Aligned_cols=224  Identities=26%  Similarity=0.329  Sum_probs=171.7

Q ss_pred             ccchHHHHHHHHHHHHHHHHhhCcccccccccccCCCCCCccccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHH
Q 021239           60 DAKIMQKDNALRLALSQLANDFGKESMLSLKRFFGSRRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALH  139 (315)
Q Consensus        60 ~~~~~~~~~~l~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~i~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~  139 (315)
                      +++..+.++.++.+.+.+...|.++..+...    .....+++||+++||.+|| ||++.|.+++|+|+||+|||+||++
T Consensus        71 g~s~~~~~ki~~~a~~~~~~~~~ta~~~~~~----~~~~~~isTG~~~LD~lLg-GGi~~G~ItEI~G~~GsGKTql~lq  145 (344)
T PLN03187         71 GLSEAKVDKICEAAEKLLNQGFITGSDALLK----RKSVVRITTGSQALDELLG-GGIETRCITEAFGEFRSGKTQLAHT  145 (344)
T ss_pred             CCCHHHHHHHHHHHHHhhcccCCcHHHHHhh----hccCceecCCcHhHHhhcC-CCCCCCeEEEEecCCCCChhHHHHH
Confidence            3444444444444444455555444332111    2356789999999999999 9999999999999999999999999


Q ss_pred             HHHHHHh------cCCeEEEEecCCCCChH----HHHHcCCCC----CCeEEeCCCCHHHHHHHHHH---HHHcCCccEE
Q 021239          140 VIKEAQK------LGGYCAYLDVENALDPS----LAEAMGIDA----ENLLIAQPDSAENLLSVVDT---LTKSGSIDVI  202 (315)
Q Consensus       140 la~~~~~------~g~~v~~i~~E~~~~~~----~~~~~g~~~----~~l~i~~~~~~e~~~~~i~~---l~~~~~~~lV  202 (315)
                      ++.+++.      .+++|+|||+|+++.+.    +++++|+++    +++.+.++.+.+++.+.+..   .+.+.++++|
T Consensus       146 lav~~qlp~~~gg~~~~vvyIdTE~tF~peRl~~ia~~~g~d~~~~l~~I~~~~~~~~e~~~~~l~~l~~~i~~~~~~Lv  225 (344)
T PLN03187        146 LCVTTQLPTEMGGGNGKVAYIDTEGTFRPDRIVPIAERFGMDADAVLDNIIYARAYTYEHQYNLLLGLAAKMAEEPFRLL  225 (344)
T ss_pred             HHHHHhcchhhCCCCceEEEEEcCCCCCHHHHHHHHHHcCCChhhhcCeEEEecCCCHHHHHHHHHHHHHHHHhcCCCEE
Confidence            9988864      13799999999998875    466778875    57889999998877766554   4556789999


Q ss_pred             eehhHhhhccccccCCCccCCChHHHHHHHHHHHHHHHHHHhccCcEEEEEeccccccCCCCCCCCCccccccccccccc
Q 021239          203 VVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVRFSAKSGQGLGRMDEVTSGGNALKFY  282 (315)
Q Consensus       203 VIDsl~~l~~~~~~~~~~~~~~~~~q~r~i~~~l~~L~~~~~~~~i~VI~inq~~~~~~~~~~~~~~~~~~~gG~~~~~~  282 (315)
                      ||||+++++ +.++.+..  ....+ .+.+.+.++.|.++++++|++||++||++.+++++..|+ ++.+|+||+.|.|+
T Consensus       226 VIDSital~-r~~~~~rg--~l~~r-q~~L~~~~~~L~~lA~~~~vavvvTNqv~~~~~~~~~~~-~~~~pagG~~~~h~  300 (344)
T PLN03187        226 IVDSVIALF-RVDFTGRG--ELAER-QQKLAQMLSRLTKIAEEFNVAVYMTNQVIADPGGGMFIS-DPKKPAGGHVLAHA  300 (344)
T ss_pred             EEeCcHHhh-hccccCcc--chHHH-HHHHHHHHHHHHHHHHHcCCEEEEEecEEEcCCcccccC-CCCCCCCchhhhee
Confidence            999999998 45554331  11122 334778888899999999999999999999886655554 88899999999999


Q ss_pred             cceEEEEEecc
Q 021239          283 AALRLRMMRTR  293 (315)
Q Consensus       283 ~~~rl~l~k~~  293 (315)
                      +++||.++|.+
T Consensus       301 ~~~Rl~l~k~~  311 (344)
T PLN03187        301 ATIRLMLRKGK  311 (344)
T ss_pred             eeEEEEEEcCC
Confidence            99999999864

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

Probab=100.00  E-value=7.9e-33  Score=249.64  Aligned_cols=192  Identities=31%  Similarity=0.442  Sum_probs=150.6

Q ss_pred             CCCccccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHh------cCCeEEEEecCCCCChHH----HH
Q 021239           97 RGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQK------LGGYCAYLDVENALDPSL----AE  166 (315)
Q Consensus        97 ~~~~i~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~------~g~~v~~i~~E~~~~~~~----~~  166 (315)
                      ....|+||++.||.+|+ ||++.|.+++|+|+||+|||+||++++.+++.      .+++|+|||+|..++..|    ++
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 99999999999999999999999999998873      267999999999999865    44


Q ss_pred             HcCCC----CCCeEEeCCCCHHHHHHHHHHH---HHcCCccEEeehhHhhhccccccCCCccCCChHHHHHHHHHHHHHH
Q 021239          167 AMGID----AENLLIAQPDSAENLLSVVDTL---TKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKI  239 (315)
Q Consensus       167 ~~g~~----~~~l~i~~~~~~e~~~~~i~~l---~~~~~~~lVVIDsl~~l~~~~~~~~~~~~~~~~~q~r~i~~~l~~L  239 (315)
                      +++++    .+++.+.++.+.+++.+.+..+   +.+.++++|||||+++++ +.++.+..   ....+.+.+.+.+..|
T Consensus        95 ~~~~~~~~~l~~I~v~~~~~~~~l~~~L~~l~~~l~~~~ikLIVIDSIaalf-r~e~~~~~---~~~~R~~~L~~~~~~L  170 (256)
T PF08423_consen   95 RFGLDPEEILDNIFVIRVFDLEELLELLEQLPKLLSESKIKLIVIDSIAALF-RSEFSGRG---DLAERQRMLARLARIL  170 (256)
T ss_dssp             HTTS-HHHHHHTEEEEE-SSHHHHHHHHHHHHHHHHHSCEEEEEEETSSHHH-HHHSGSTT---THHHHHHHHHHHHHHH
T ss_pred             ccccccchhhhceeeeecCCHHHHHHHHHHHHhhccccceEEEEecchHHHH-HHHHccch---hhHHHHHHHHHHHHHH
Confidence            55555    3588899998888887776554   456789999999999999 45554321   1123345688888889


Q ss_pred             HHHHhccCcEEEEEeccccccCCCCCCCCCccccccccccccccceEEEEEecc
Q 021239          240 HYSLCQSHTLIIFLNQVRFSAKSGQGLGRMDEVTSGGNALKFYAALRLRMMRTR  293 (315)
Q Consensus       240 ~~~~~~~~i~VI~inq~~~~~~~~~~~~~~~~~~~gG~~~~~~~~~rl~l~k~~  293 (315)
                      .++|.+++++||++||+..+++++..|..+..+|+||..|+|++++||.++|.+
T Consensus       171 ~~lA~~~~iaVvvTNqv~~~~~~~~~~~~~~~~PalG~~w~h~~~~Rl~l~k~~  224 (256)
T PF08423_consen  171 KRLARKYNIAVVVTNQVTTKIDSNSLFDGDRLKPALGHSWSHAVTTRLFLSKGR  224 (256)
T ss_dssp             HHHHHHTT-EEEEEEEECSSTT----SSTTSEEETTHHHHHHHSSEEEEEEECS
T ss_pred             HHHHHhCCceEEeeceeeecCCcccccccccceecCcchhhhhccEEEEEEeCC
Confidence            999999999999999999998776556557889999999999999999999854

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 ....

>PLN03186 DNA repair protein RAD51 homolog; Provisional

Probab=100.00  E-value=4.8e-32  Score=252.64  Aligned_cols=193  Identities=25%  Similarity=0.325  Sum_probs=156.2

Q ss_pred             CCCCccccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHh------cCCeEEEEecCCCCChH----HH
Q 021239           96 RRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQK------LGGYCAYLDVENALDPS----LA  165 (315)
Q Consensus        96 ~~~~~i~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~------~g~~v~~i~~E~~~~~~----~~  165 (315)
                      .....++||+++||.+|+ ||+++|++++|+|+||+|||+||++++.+++.      .+++|+|||+|+++.+.    .+
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            456789999999999999 99999999999999999999999999988763      23589999999998875    45


Q ss_pred             HHcCCCC----CCeEEeCCCCHHHHHHHHHHH---HHcCCccEEeehhHhhhccccccCCCccCCChHHHHHHHHHHHHH
Q 021239          166 EAMGIDA----ENLLIAQPDSAENLLSVVDTL---TKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRK  238 (315)
Q Consensus       166 ~~~g~~~----~~l~i~~~~~~e~~~~~i~~l---~~~~~~~lVVIDsl~~l~~~~~~~~~~~~~~~~~q~r~i~~~l~~  238 (315)
                      ++++++.    +++.+.++.+.+++...+...   +...++++|||||++++++ .++.+.. + ...+ .+.+.+.++.
T Consensus       179 ~~~~~~~~~~l~~i~~~~~~~~e~~~~ll~~~~~~~~~~~~~LIVIDSI~alfr-~~~~~~g-~-l~~r-~~~L~~~l~~  254 (342)
T PLN03186        179 ERFGLNGADVLENVAYARAYNTDHQSELLLEAASMMAETRFALMIVDSATALYR-TEFSGRG-E-LSAR-QMHLGKFLRS  254 (342)
T ss_pred             HHcCCChhhhccceEEEecCCHHHHHHHHHHHHHHhhccCCCEEEEeCcHHHHH-HHhcCCc-c-HHHH-HHHHHHHHHH
Confidence            6678776    578888888888776665543   5567899999999999984 4444321 1 1112 2347788889


Q ss_pred             HHHHHhccCcEEEEEeccccccCCCCCCCCCccccccccccccccceEEEEEecc
Q 021239          239 IHYSLCQSHTLIIFLNQVRFSAKSGQGLGRMDEVTSGGNALKFYAALRLRMMRTR  293 (315)
Q Consensus       239 L~~~~~~~~i~VI~inq~~~~~~~~~~~~~~~~~~~gG~~~~~~~~~rl~l~k~~  293 (315)
                      |.++++++|++||+|||++.+++++..|+.+..+|+||++|+|++++||.|+|.+
T Consensus       255 L~~lA~~~~vaVviTNqv~~~~~~~~~~~~~~~~P~gG~~~~h~~~tRl~L~k~~  309 (342)
T PLN03186        255 LQRLADEFGVAVVITNQVVAQVDGSAFFAGPQLKPIGGNIMAHASTTRLALRKGR  309 (342)
T ss_pred             HHHHHHHcCCEEEEEcCEEEccCCccccCCCccccchhHHHHhhccEEEEEEecC
Confidence            9999999999999999999888655566634459999999999999999999854

>PTZ00035 Rad51 protein; Provisional

Probab=100.00  E-value=1.2e-31  Score=250.44  Aligned_cols=194  Identities=24%  Similarity=0.347  Sum_probs=159.0

Q ss_pred             CCCCccccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHh------cCCeEEEEecCCCCChH----HH
Q 021239           96 RRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQK------LGGYCAYLDVENALDPS----LA  165 (315)
Q Consensus        96 ~~~~~i~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~------~g~~v~~i~~E~~~~~~----~~  165 (315)
                      ....+++||+++||.+|+ ||+++|++++|+|+||+|||+||++++.+++.      .+++|+||++|+++.+.    .+
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            457789999999999999 99999999999999999999999999988763      46799999999998764    46


Q ss_pred             HHcCCCC----CCeEEeCCCCHHHHHHHHHHH---HHcCCccEEeehhHhhhccccccCCCccCCChHHHHHHHHHHHHH
Q 021239          166 EAMGIDA----ENLLIAQPDSAENLLSVVDTL---TKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRK  238 (315)
Q Consensus       166 ~~~g~~~----~~l~i~~~~~~e~~~~~i~~l---~~~~~~~lVVIDsl~~l~~~~~~~~~~~~~~~~~q~r~i~~~l~~  238 (315)
                      +++++++    +|+.+.++.+.+++.+.+..+   +...++++|||||+++++. .++.++.  .. ..+.+.+.++++.
T Consensus       174 ~~~g~~~~~~l~nI~~~~~~~~e~~~~~l~~~~~~l~~~~~~lvVIDSital~r-~~~~~~~--~~-~~r~~~l~~~~~~  249 (337)
T PTZ00035        174 ERFGLDPEDVLDNIAYARAYNHEHQMQLLSQAAAKMAEERFALLIVDSATALFR-VDYSGRG--EL-AERQQHLGKFLRA  249 (337)
T ss_pred             HHhCCChHhHhhceEEEccCCHHHHHHHHHHHHHHhhccCccEEEEECcHHhhh-hhccCcc--cH-HHHHHHHHHHHHH
Confidence            6678775    678888888888777766543   4467899999999999983 4444321  11 1223447788888


Q ss_pred             HHHHHhccCcEEEEEeccccccCCCCCCCCCccccccccccccccceEEEEEeccc
Q 021239          239 IHYSLCQSHTLIIFLNQVRFSAKSGQGLGRMDEVTSGGNALKFYAALRLRMMRTRL  294 (315)
Q Consensus       239 L~~~~~~~~i~VI~inq~~~~~~~~~~~~~~~~~~~gG~~~~~~~~~rl~l~k~~~  294 (315)
                      |.++++++|++||+|||++.++++..+|..++.+|+||+.|.|++++||.++|.+.
T Consensus       250 L~~la~~~~vavvvtNqv~~~~~~~~~~~~~~~~p~gG~~~~h~~~~Rl~l~k~~~  305 (337)
T PTZ00035        250 LQKLADEFNVAVVITNQVMADVDGASMFVADPKKPIGGHIIAHASTTRLSLRKGRG  305 (337)
T ss_pred             HHHHHHHcCcEEEEecceEEecCCccccCCCCccCCchHHHHhheeEEEEEEecCC
Confidence            99999999999999999999986545565588999999999999999999998643

>TIGR02239 recomb_RAD51 DNA repair protein RAD51

Probab=99.97  E-value=2.4e-30  Score=239.87  Aligned_cols=193  Identities=25%  Similarity=0.376  Sum_probs=153.9

Q ss_pred             CCCCccccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHh---cC---CeEEEEecCCCCChH----HH
Q 021239           96 RRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQK---LG---GYCAYLDVENALDPS----LA  165 (315)
Q Consensus        96 ~~~~~i~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~---~g---~~v~~i~~E~~~~~~----~~  165 (315)
                      .....++||+++||.+|+ ||+++|++++|+|+||+|||+||++++.+++.   .|   ++|+||++|+.+.+.    ++
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            457789999999999999 99999999999999999999999999987653   22   589999999988764    46


Q ss_pred             HHcCCCC----CCeEEeCCCCHHHHHHHHHHH---HHcCCccEEeehhHhhhccccccCCCccCCChHHHHHHHHHHHHH
Q 021239          166 EAMGIDA----ENLLIAQPDSAENLLSVVDTL---TKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRK  238 (315)
Q Consensus       166 ~~~g~~~----~~l~i~~~~~~e~~~~~i~~l---~~~~~~~lVVIDsl~~l~~~~~~~~~~~~~~~~~q~r~i~~~l~~  238 (315)
                      +++++++    +++.+.+..+.+++...+..+   +...++++|||||+++++. .++.+..  . ...+...+.+.+..
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            6678775    467777777777766665544   4567899999999999983 4443321  1 11222336788888


Q ss_pred             HHHHHhccCcEEEEEeccccccCCC-CCCCCCccccccccccccccceEEEEEecc
Q 021239          239 IHYSLCQSHTLIIFLNQVRFSAKSG-QGLGRMDEVTSGGNALKFYAALRLRMMRTR  293 (315)
Q Consensus       239 L~~~~~~~~i~VI~inq~~~~~~~~-~~~~~~~~~~~gG~~~~~~~~~rl~l~k~~  293 (315)
                      |.+++++++++||+|||++.++++. ..|.+++.+|+||+.|+|++++||.++|.+
T Consensus       228 L~~la~~~~vavv~tNqv~~~~~~~~~~~~g~~~~p~gG~~~~h~~~~ri~l~k~~  283 (316)
T TIGR02239       228 LQRLADEFGVAVVITNQVVAQVDGAGSMFAGDPKKPIGGNIMAHASTTRLSLRKGR  283 (316)
T ss_pred             HHHHHHHhCCEEEEECceEEecCCccccccCCCCcCCchHHHHhhccEEEEEEecC
Confidence            9999999999999999999887653 235457899999999999999999999864

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).

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

Probab=99.97  E-value=7.2e-30  Score=226.32  Aligned_cols=186  Identities=41%  Similarity=0.589  Sum_probs=152.4

Q ss_pred             cccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHhcC------CeEEEEecCCCCChHHHH----HcCC
Q 021239          101 ISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLG------GYCAYLDVENALDPSLAE----AMGI  170 (315)
Q Consensus       101 i~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g------~~v~~i~~E~~~~~~~~~----~~g~  170 (315)
                      ++||+++||.+|+ ||+++|++++|+|+||+|||+||++++.+++..+      .+|+||++|+.++..+..    ..+.
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            6899999999999 9999999999999999999999999999988777      899999999988775433    3343


Q ss_pred             C----CCCeEEeCCCCHHHHHHHHHHHHH---cCCccEEeehhHhhhccccccCCCccCCChHHHHHHHHHHHHHHHHHH
Q 021239          171 D----AENLLIAQPDSAENLLSVVDTLTK---SGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSL  243 (315)
Q Consensus       171 ~----~~~l~i~~~~~~e~~~~~i~~l~~---~~~~~lVVIDsl~~l~~~~~~~~~~~~~~~~~q~r~i~~~l~~L~~~~  243 (315)
                      +    .+++.+.++.+.+++.+.++.+.+   ..++++|||||++.+++ ....+..   ....+.+.+.+.++.|+.++
T Consensus        80 ~~~~~~~~i~~~~~~~~~~~~~~l~~~~~~~~~~~~~lvVIDsis~l~~-~~~~~~~---~~~~~~~~l~~~~~~L~~~a  155 (226)
T cd01393          80 DPEEVLDNIYVARPYNGEQQLEIVEELERIMSSGRVDLVVVDSVAALFR-KEFIGRG---MLAERARLLSQALRKLLRLA  155 (226)
T ss_pred             chhhhhccEEEEeCCCHHHHHHHHHHHHHHhhcCCeeEEEEcCcchhhh-hhhcCCc---hHHHHHHHHHHHHHHHHHHH
Confidence            3    567889999999988888887765   67899999999999984 2222110   01233455777888889999


Q ss_pred             hccCcEEEEEeccccccCCCCCCCCCccccccccccccccceEEEEEeccc
Q 021239          244 CQSHTLIIFLNQVRFSAKSGQGLGRMDEVTSGGNALKFYAALRLRMMRTRL  294 (315)
Q Consensus       244 ~~~~i~VI~inq~~~~~~~~~~~~~~~~~~~gG~~~~~~~~~rl~l~k~~~  294 (315)
                      ++++++||++||++.....  .++ .+..|+||..|+|++++||.++|.+.
T Consensus       156 ~~~~~~vi~tnq~~~~~~~--~~~-~~~~p~~G~~~~~~~~~ri~l~~~~~  203 (226)
T cd01393         156 DKFNVAVVFTNQVRAKVDV--MFG-DPETPAGGNALAHASTTRLDLRKGRG  203 (226)
T ss_pred             HHhCcEEEEEEEEeeeccc--ccC-CCccccCchhhhCcccEEEEEEecCC
Confidence            9999999999999988743  333 56789999999999999999998864

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.

>TIGR02236 recomb_radA DNA repair and recombination protein RadA

Probab=99.96  E-value=7.4e-29  Score=230.31  Aligned_cols=190  Identities=26%  Similarity=0.378  Sum_probs=148.7

Q ss_pred             CCCCccccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHh------cCCeEEEEecCCCCChHH----H
Q 021239           96 RRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQK------LGGYCAYLDVENALDPSL----A  165 (315)
Q Consensus        96 ~~~~~i~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~------~g~~v~~i~~E~~~~~~~----~  165 (315)
                      .....++||++.+|.+|+ ||++.|++++|+|+||+|||+||++++.+++.      .+++|+||++|++++..+    +
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            456779999999999999 99999999999999999999999999999874      245999999999887754    4


Q ss_pred             HHcCCCC----CCeEEeCCCCHHHH---HHHHHHHHHcC--CccEEeehhHhhhccccccCCCccCCChHHHHHHHHHHH
Q 021239          166 EAMGIDA----ENLLIAQPDSAENL---LSVVDTLTKSG--SIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQAL  236 (315)
Q Consensus       166 ~~~g~~~----~~l~i~~~~~~e~~---~~~i~~l~~~~--~~~lVVIDsl~~l~~~~~~~~~~~~~~~~~q~r~i~~~l  236 (315)
                      +.+|++.    +++.+..+...++.   ++.+..++.+.  ++++|||||+++++. .++.+.. +  ...+.+.+.+.+
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    46777777655543   33344555544  489999999999983 4444321 1  112233466777


Q ss_pred             HHHHHHHhccCcEEEEEeccccccCCCCCCCCCccccccccccccccceEEEEEecc
Q 021239          237 RKIHYSLCQSHTLIIFLNQVRFSAKSGQGLGRMDEVTSGGNALKFYAALRLRMMRTR  293 (315)
Q Consensus       237 ~~L~~~~~~~~i~VI~inq~~~~~~~~~~~~~~~~~~~gG~~~~~~~~~rl~l~k~~  293 (315)
                      ..|..++++++++||+|||++.+.+  ..|+ ++.+|+||++|+|++++||.++|.+
T Consensus       227 ~~L~~~a~~~~~~v~~tnqv~~~~~--~~~~-~~~~~~~G~~~~h~~~~rl~l~~~~  280 (310)
T TIGR02236       227 HDLLRLADLYNAAVVVTNQVMARPD--AFFG-DPTRPIGGHILGHAATFRVYLRKGK  280 (310)
T ss_pred             HHHHHHHHHhCcEEEEeceeeecCc--cccC-ccccCCcchhhhhheeEEEEEEecC
Confidence            8888889999999999999998873  3565 7789999999999999999999853

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.

>PRK09361 radB DNA repair and recombination protein RadB; Provisional

Probab=99.96  E-value=1.7e-28  Score=217.69  Aligned_cols=180  Identities=28%  Similarity=0.389  Sum_probs=142.2

Q ss_pred             CccccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCChHHHHHcCC-----CCC
Q 021239           99 PVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGI-----DAE  173 (315)
Q Consensus        99 ~~i~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~~~~~~~g~-----~~~  173 (315)
                      +.++||+++||++|+ ||+++|++++|+|+||+|||+||++++.+++..+++|+|+++| .+...+..++.-     ..+
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            469999999999999 9999999999999999999999999999999999999999999 555555444322     135


Q ss_pred             CeEEeCCCCHHHHHHHHHHH---HHcCCccEEeehhHhhhccccccCCCccCCChHHHHHHHHHHHHHHHHHHhccCcEE
Q 021239          174 NLLIAQPDSAENLLSVVDTL---TKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLI  250 (315)
Q Consensus       174 ~l~i~~~~~~e~~~~~i~~l---~~~~~~~lVVIDsl~~l~~~~~~~~~~~~~~~~~q~r~i~~~l~~L~~~~~~~~i~V  250 (315)
                      ++.+.++.+.+++.+.++.+   +. .++++|||||+++++. ..+.+..   ....+.+.+.+.+..|.++++++|++|
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            67888888777665555443   33 6899999999999984 3322211   111334557777788888899999999


Q ss_pred             EEEeccccccCCCCCCCCCccccccccccccccceEEEEEe
Q 021239          251 IFLNQVRFSAKSGQGLGRMDEVTSGGNALKFYAALRLRMMR  291 (315)
Q Consensus       251 I~inq~~~~~~~~~~~~~~~~~~~gG~~~~~~~~~rl~l~k  291 (315)
                      +++||+....+.      ....++||..|.|+++.++.+++
T Consensus       156 i~tnq~~~~~~~------~~~~~~gg~~~~~~~d~ii~l~~  190 (225)
T PRK09361        156 VITNQVYSDIDS------DGLRPLGGHTLEHWSKTILRLEK  190 (225)
T ss_pred             EEEccceecCCC------CcccCCCcchhhhhccEEEEEEE
Confidence            999999877632      24578999999999999999998

>PRK04301 radA DNA repair and recombination protein RadA; Validated

Probab=99.96  E-value=1.4e-28  Score=229.14  Aligned_cols=190  Identities=26%  Similarity=0.386  Sum_probs=149.9

Q ss_pred             CCCCccccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHhc------CCeEEEEecCCCCChH----HH
Q 021239           96 RRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKL------GGYCAYLDVENALDPS----LA  165 (315)
Q Consensus        96 ~~~~~i~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~~------g~~v~~i~~E~~~~~~----~~  165 (315)
                      .....++||+++||.+|+ ||+++|.+++|+|+||+|||+||++++.+++..      +++|+||++|++++..    ++
T Consensus        79 ks~~~~~Tg~~~lD~~l~-GGi~~g~vtei~G~~GsGKT~l~~~~~~~~~~~~~~gg~~~~~~yi~te~~f~~~rl~~~~  157 (317)
T PRK04301         79 KNVGKITTGSKELDELLG-GGIETQSITEFYGEFGSGKTQICHQLAVNVQLPEEKGGLEGKAVYIDTEGTFRPERIEQMA  157 (317)
T ss_pred             ccCCccCCCCHHHHHHhc-CCccCCcEEEEECCCCCCHhHHHHHHHHHhccccccCCCCceEEEEeCCCCcCHHHHHHHH
Confidence            356779999999999999 999999999999999999999999999988753      3599999999988764    45


Q ss_pred             HHcCCCC----CCeEEeCCCCHHHH---HHHHHHHHHc-CCccEEeehhHhhhccccccCCCccCCChHHHHHHHHHHHH
Q 021239          166 EAMGIDA----ENLLIAQPDSAENL---LSVVDTLTKS-GSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALR  237 (315)
Q Consensus       166 ~~~g~~~----~~l~i~~~~~~e~~---~~~i~~l~~~-~~~~lVVIDsl~~l~~~~~~~~~~~~~~~~~q~r~i~~~l~  237 (315)
                      +++|+++    +++++.++.+.++.   ++.+..++.+ .++++|||||+++++. .++.++.  ... .+.+.+.+.+.
T Consensus       158 ~~~g~~~~~~l~~i~~~~~~~~~~~~~~~~~l~~~i~~~~~~~lvVIDSisa~~~-~~~~~~~--~~~-~r~~~l~~~~~  233 (317)
T PRK04301        158 EALGLDPDEVLDNIHVARAYNSDHQMLLAEKAEELIKEGENIKLVIVDSLTAHFR-AEYVGRG--NLA-ERQQKLNKHLH  233 (317)
T ss_pred             HHcCCChHhhhccEEEEeCCCHHHHHHHHHHHHHHHhccCceeEEEEECchHHhh-hhccCCc--cHH-HHHHHHHHHHH
Confidence            5678775    46777777665544   3444555555 6899999999999983 4443321  111 12233666777


Q ss_pred             HHHHHHhccCcEEEEEeccccccCCCCCCCCCccccccccccccccceEEEEEecc
Q 021239          238 KIHYSLCQSHTLIIFLNQVRFSAKSGQGLGRMDEVTSGGNALKFYAALRLRMMRTR  293 (315)
Q Consensus       238 ~L~~~~~~~~i~VI~inq~~~~~~~~~~~~~~~~~~~gG~~~~~~~~~rl~l~k~~  293 (315)
                      .|.+++++++++||+|||+..+.  +..|+ ++..|+||..|.|++++||.++|.+
T Consensus       234 ~L~~la~~~~vavl~tnqv~~~~--~~~~~-~~~~~~~G~~~~~~~~~rl~l~k~~  286 (317)
T PRK04301        234 DLLRLADLYNAAVVVTNQVMARP--DAFFG-DPTQPIGGHILGHTATFRIYLRKSK  286 (317)
T ss_pred             HHHHHHHHhCCEEEEeceEEecc--ccccC-ccccCCcchHhHhheeEEEEEEecC
Confidence            88888899999999999999876  33565 7889999999999999999999863

>cd01123 Rad51_DMC1_radA Rad51_DMC1_radA,B

Probab=99.96  E-value=1.6e-28  Score=218.86  Aligned_cols=188  Identities=28%  Similarity=0.434  Sum_probs=145.7

Q ss_pred             cccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHhc------CCeEEEEecCCCCChHH----HHHcCC
Q 021239          101 ISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKL------GGYCAYLDVENALDPSL----AEAMGI  170 (315)
Q Consensus       101 i~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~~------g~~v~~i~~E~~~~~~~----~~~~g~  170 (315)
                      +|||++.||.+|+ ||+++|++++|+|+||+|||+||++++.+++..      +++|+||++|+.+...+    ++.+++
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 999999999999999999999999999887654      38999999999877643    444555


Q ss_pred             CC----CCeEEeCCCCHHHHHHH---HHHHHHcC-CccEEeehhHhhhccccccCCCccCCChHHHHHHHHHHHHHHHHH
Q 021239          171 DA----ENLLIAQPDSAENLLSV---VDTLTKSG-SIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYS  242 (315)
Q Consensus       171 ~~----~~l~i~~~~~~e~~~~~---i~~l~~~~-~~~lVVIDsl~~l~~~~~~~~~~~~~~~~~q~r~i~~~l~~L~~~  242 (315)
                      ++    +++++.++.+.+++...   +...+.+. ++++|||||++.++. ..+.+..   ......+.+.+.+..|.++
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    46788887777665544   44445566 899999999999873 2332221   0123334577788888888


Q ss_pred             HhccCcEEEEEeccccccCCCCCCCCCccccccccccccccceEEEEEecc
Q 021239          243 LCQSHTLIIFLNQVRFSAKSGQGLGRMDEVTSGGNALKFYAALRLRMMRTR  293 (315)
Q Consensus       243 ~~~~~i~VI~inq~~~~~~~~~~~~~~~~~~~gG~~~~~~~~~rl~l~k~~  293 (315)
                      +++++++||++||+....+++..+.....+|++|..|.|++++|+.++|.+
T Consensus       156 a~~~~~avl~tn~~~~~~~~~~~~~~~~~~p~lG~~w~~~v~~Rl~l~~~~  206 (235)
T cd01123         156 ADEFNVAVVITNQVTARPDGAAMFGGDPKKPAGGNIWAHASTTRLYLRKGR  206 (235)
T ss_pred             HHHhCCEEEEeccEeecCCcccccCCCCeeccCccHhhCCceEEEEEEECC
Confidence            899999999999999876543222225668999999999999999999876

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 .

>cd01394 radB RadB

Probab=99.96  E-value=2.1e-28  Score=216.00  Aligned_cols=181  Identities=25%  Similarity=0.406  Sum_probs=140.8

Q ss_pred             cccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCChHHHHHcCC----CCCCeE
Q 021239          101 ISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGI----DAENLL  176 (315)
Q Consensus       101 i~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~~~~~~~g~----~~~~l~  176 (315)
                      ++||+++||.+|+ ||+++|++++|+|+||+|||+||++++.+++..|++|+|+++|..+.....+..+.    ...++.
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            6899999999999 99999999999999999999999999999999999999999998876422222221    235777


Q ss_pred             EeCCCCHHHHHHHHH---HHHHcCCccEEeehhHhhhccccccCCCccCCChHHHHHHHHHHHHHHHHHHhccCcEEEEE
Q 021239          177 IAQPDSAENLLSVVD---TLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFL  253 (315)
Q Consensus       177 i~~~~~~e~~~~~i~---~l~~~~~~~lVVIDsl~~l~~~~~~~~~~~~~~~~~q~r~i~~~l~~L~~~~~~~~i~VI~i  253 (315)
                      +.++.+.+++...+.   ..++ .++++|||||++.++. .+..+..   ....+.+.+.+.+..|..++++++++||++
T Consensus        80 ~~~~~~~~~~~~~~~~~~~~~~-~~~~lvvIDsi~~l~~-~~~~~~~---~~~~~~~~l~~~~~~L~~~a~~~~~~vi~t  154 (218)
T cd01394          80 VFEPMDFNEQGRAIQETETFAD-EKVDLVVVDSATALYR-LELGDDD---TTIKNYRELAKQLTFLLWLARKHDVAVVIT  154 (218)
T ss_pred             EEeCCCHHHHHHHHHHHHHHHh-cCCcEEEEechHHhhh-HHhcCcc---chHHHHHHHHHHHHHHHHHHHHhCCEEEEe
Confidence            877777666554333   3333 3589999999999973 3332221   112344457777888888899999999999


Q ss_pred             eccccccCCCCCCCCCccccccccccccccceEEEEEecc
Q 021239          254 NQVRFSAKSGQGLGRMDEVTSGGNALKFYAALRLRMMRTR  293 (315)
Q Consensus       254 nq~~~~~~~~~~~~~~~~~~~gG~~~~~~~~~rl~l~k~~  293 (315)
                      ||+.....+      ...+|.||..|+|++|.+|.|++.+
T Consensus       155 ~q~~~~~~~------~~~~p~~g~~~~~~~d~~i~l~~~~  188 (218)
T cd01394         155 NQVYSDVGS------GSVRPLGGHTLEHWSKVILRLEKLR  188 (218)
T ss_pred             cCCEEcCCC------CcccccCCcchhcceeEEEEEEEcC
Confidence            999877632      3567899999999999999999875

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

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

Probab=99.95  E-value=2.9e-29  Score=218.05  Aligned_cols=193  Identities=28%  Similarity=0.419  Sum_probs=163.4

Q ss_pred             CCCCccccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHh------cCCeEEEEecCCCCChHH----H
Q 021239           96 RRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQK------LGGYCAYLDVENALDPSL----A  165 (315)
Q Consensus        96 ~~~~~i~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~------~g~~v~~i~~E~~~~~~~----~  165 (315)
                      .....|+||+.+||.+|| ||++.-++++++|++|+|||+++.+++..++.      .+++++|||+|.++.++|    |
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 99999999999999999999999999987764      368999999999998865    5


Q ss_pred             HHcCCCC----CCeEEeCCCCHHHHHHHHHHH---H-HcCCccEEeehhHhhhccccccCCCccCCChHHHHHHHHHHHH
Q 021239          166 EAMGIDA----ENLLIAQPDSAENLLSVVDTL---T-KSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALR  237 (315)
Q Consensus       166 ~~~g~~~----~~l~i~~~~~~e~~~~~i~~l---~-~~~~~~lVVIDsl~~l~~~~~~~~~~~~~~~~~q~r~i~~~l~  237 (315)
                      +++++++    +|+.+.+..+.++..+.+..+   + +.+..++|||||+.+++ +.+++++.  .+..+| +.+.+.+.
T Consensus       171 e~~~~d~d~~LdNI~y~Ra~~se~qmelv~~L~~~~se~g~~rlvIVDsIma~F-RvDy~grg--eLseRq-qkLn~ml~  246 (335)
T KOG1434|consen  171 ERFKVDPDFTLDNILYFRAYNSEEQMELVYLLGDFLSEHGKYRLVIVDSIMALF-RVDYDGRG--ELSERQ-QKLNQMLQ  246 (335)
T ss_pred             HHhCCCHHHHHHHHHHHHHcChHHHHHHHHHHHHHHhhcCcEEEEEEeceehhe-eecccccc--cHHHHH-HHHHHHHH
Confidence            6667765    488888888888776665543   3 34689999999999999 57777653  233343 44888899


Q ss_pred             HHHHHHhccCcEEEEEeccccccCCCCCCCCCccccccccccccccceEEEEEecc
Q 021239          238 KIHYSLCQSHTLIIFLNQVRFSAKSGQGLGRMDEVTSGGNALKFYAALRLRMMRTR  293 (315)
Q Consensus       238 ~L~~~~~~~~i~VI~inq~~~~~~~~~~~~~~~~~~~gG~~~~~~~~~rl~l~k~~  293 (315)
                      ++.+++++++++|+++||+..+++.+..|...+.+|+||.+|+|++.+|+.+++.+
T Consensus       247 kl~~laeefnvAVfltNQvttdpga~~~f~s~~~kp~gGh~~aHAsttRlilrkgr  302 (335)
T KOG1434|consen  247 KLNKLAEEFNVAVFLTNQVTTDPGAGMTFASQDLKPAGGHSWAHASTTRLILRKGR  302 (335)
T ss_pred             HHHHHHHhccEEEEEecceecCCcccccccccccCccccchhhhhhheeEEEEcCC
Confidence            99999999999999999999999887777777899999999999999999999987

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

Probab=99.95  E-value=1.1e-26  Score=215.04  Aligned_cols=173  Identities=27%  Similarity=0.392  Sum_probs=155.6

Q ss_pred             CCCCccccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCCh--HHHHHcCCCCC
Q 021239           96 RRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP--SLAEAMGIDAE  173 (315)
Q Consensus        96 ~~~~~i~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~--~~~~~~g~~~~  173 (315)
                      .+..+++||+.+||+.|| ||+-+|++++|.|+||.|||||++|++...+.++ +|+|++.|++..+  .|++++|++.+
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             CeEEeCCCCHHHHHHHHHHHHHcCCccEEeehhHhhhccccccCCCccCCChHHHHHHHHHHHHHHHHHHhccCcEEEEE
Q 021239          174 NLLIAQPDSAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFL  253 (315)
Q Consensus       174 ~l~i~~~~~~e~~~~~i~~l~~~~~~~lVVIDsl~~l~~~~~~~~~~~~~~~~~q~r~i~~~l~~L~~~~~~~~i~VI~i  253 (315)
                      ++++....+.+++...+.+    .+|+++||||++.++ ..+.++.+|..   .|.|+.+..|.+++   ++.|++++++
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----EKPDLVVIDSIQTLY-SEEITSAPGSV---SQVREVAAELMRLA---KTKNIAIFIV  216 (456)
T ss_pred             ceEEehhcCHHHHHHHHHh----cCCCEEEEeccceee-cccccCCCCcH---HHHHHHHHHHHHHH---HHcCCeEEEE
Confidence            9999999999988887766    589999999999999 46777777665   88888877776665   9999999999


Q ss_pred             eccccccCCCCCCCCCccccccccccccccceEEEEEec
Q 021239          254 NQVRFSAKSGQGLGRMDEVTSGGNALKFYAALRLRMMRT  292 (315)
Q Consensus       254 nq~~~~~~~~~~~~~~~~~~~gG~~~~~~~~~rl~l~k~  292 (315)
                      -|++++-           ..+|.+.+.|.+|+.|+++..
T Consensus       217 GHVTKeG-----------~IAGPrvLEHmVDtVlyFEGd  244 (456)
T COG1066         217 GHVTKEG-----------AIAGPRVLEHMVDTVLYFEGD  244 (456)
T ss_pred             EEEcccc-----------cccCchheeeeeeEEEEEecc
Confidence            9998664           468999999999999999875

>TIGR02237 recomb_radB DNA repair and recombination protein RadB

Probab=99.94  E-value=3e-26  Score=200.85  Aligned_cols=171  Identities=23%  Similarity=0.362  Sum_probs=133.3

Q ss_pred             HHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCChHHHHHc-----CCCCCCeEEeCCCC
Q 021239          108 LDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAM-----GIDAENLLIAQPDS  182 (315)
Q Consensus       108 LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~~~~~~~-----g~~~~~l~i~~~~~  182 (315)
                      ||.+|+ ||+++|++++|+|+||+|||+||++++.+.+..|++|+|+++|+ +...+..++     +...+++.+.++.+
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 99999999999999999999999999999998999999999997 555443332     22246788888877


Q ss_pred             HHHH---HHHHHHHHHcCCccEEeehhHhhhccccccCCCccCCChHHHHHHHHHHHHHHHHHHhccCcEEEEEeccccc
Q 021239          183 AENL---LSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVRFS  259 (315)
Q Consensus       183 ~e~~---~~~i~~l~~~~~~~lVVIDsl~~l~~~~~~~~~~~~~~~~~q~r~i~~~l~~L~~~~~~~~i~VI~inq~~~~  259 (315)
                      .+++   +..+...+...++++|||||+++++. .+..++.     ..+.+.+.+.+..|.+++++++++++++||+...
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            6665   44444555666899999999999873 3322221     1233345666777888889999999999999876


Q ss_pred             cCCCCCCCCCccccccccccccccceEEEEEec
Q 021239          260 AKSGQGLGRMDEVTSGGNALKFYAALRLRMMRT  292 (315)
Q Consensus       260 ~~~~~~~~~~~~~~~gG~~~~~~~~~rl~l~k~  292 (315)
                      .+.      ....|+||..|.|+++.++.+++.
T Consensus       153 ~~~------~~~~~~gg~~~~~~~d~vi~l~~~  179 (209)
T TIGR02237       153 VNN------GTLRPLGGHLLEHWSKVILRLEKF  179 (209)
T ss_pred             cCC------CCCcCCCcchhheeeeEEEEEEec
Confidence            632      345789999999999999999976

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

>cd01121 Sms Sms (bacterial radA) DNA repair protein

Probab=99.94  E-value=1.9e-25  Score=211.01  Aligned_cols=176  Identities=25%  Similarity=0.359  Sum_probs=143.8

Q ss_pred             CCCCccccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCCh--HHHHHcCCCCC
Q 021239           96 RRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP--SLAEAMGIDAE  173 (315)
Q Consensus        96 ~~~~~i~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~--~~~~~~g~~~~  173 (315)
                      ...++++||+++||++|| ||+++|++++|+|+||+|||||+++++.+.++.+++|+|+++|++..+  .+++++|++.+
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            466789999999999999 999999999999999999999999999999988899999999998876  56888999999


Q ss_pred             CeEEeCCCCHHHHHHHHHHHHHcCCccEEeehhHhhhccccccCCCccCCChHHHHHHHHHHHHHHHHHHhccCcEEEEE
Q 021239          174 NLLIAQPDSAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFL  253 (315)
Q Consensus       174 ~l~i~~~~~~e~~~~~i~~l~~~~~~~lVVIDsl~~l~~~~~~~~~~~~~~~~~q~r~i~~~l~~L~~~~~~~~i~VI~i  253 (315)
                      ++++....+.+++.+.+.    ..++++|||||++.++. .+.++.++.   ..|.+   +.+..|.+++++++++++++
T Consensus       138 ~l~l~~e~~le~I~~~i~----~~~~~lVVIDSIq~l~~-~~~~~~~g~---~~qvr---~~~~~L~~lak~~~itvilv  206 (372)
T cd01121         138 NLYLLAETNLEDILASIE----ELKPDLVIIDSIQTVYS-SELTSAPGS---VSQVR---ECTAELMRFAKERNIPIFIV  206 (372)
T ss_pred             cEEEEccCcHHHHHHHHH----hcCCcEEEEcchHHhhc-cccccCCCC---HHHHH---HHHHHHHHHHHHcCCeEEEE
Confidence            999888777777666553    45899999999999973 333333322   14444   34555666779999999999


Q ss_pred             eccccccCCCCCCCCCccccccccccccccceEEEEEeccc
Q 021239          254 NQVRFSAKSGQGLGRMDEVTSGGNALKFYAALRLRMMRTRL  294 (315)
Q Consensus       254 nq~~~~~~~~~~~~~~~~~~~gG~~~~~~~~~rl~l~k~~~  294 (315)
                      +|+.+..           ..+|...+.|.+|++|.+++.+.
T Consensus       207 ghvtk~g-----------~~aG~~~leh~vD~Vi~le~~~~  236 (372)
T cd01121         207 GHVTKEG-----------SIAGPKVLEHMVDTVLYFEGDRH  236 (372)
T ss_pred             eeccCCC-----------cccCcccchhhceEEEEEEcCCC
Confidence            9997543           24667899999999999987653

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.

>TIGR03878 thermo_KaiC_2 KaiC domain protein, AF_0795 family

Probab=99.94  E-value=2.1e-25  Score=201.93  Aligned_cols=172  Identities=22%  Similarity=0.324  Sum_probs=135.0

Q ss_pred             ccccCcHHHHHhh--------------cCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCCh---
Q 021239          100 VISTGSLKLDLAL--------------GIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP---  162 (315)
Q Consensus       100 ~i~TG~~~LD~~l--------------~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~---  162 (315)
                      +++||+++||++|              + ||+|+|++++|+|+||+|||+||+|++.+.+++|++|+|+++|++...   
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            5899999999999              5 899999999999999999999999999999889999999999986642   


Q ss_pred             ---HHHHHcCCCCC----CeEEeCCCC-------HHHHHHHHHHHHHcCCccEEeehhHhhhccccccCCCccCCChHHH
Q 021239          163 ---SLAEAMGIDAE----NLLIAQPDS-------AENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQ  228 (315)
Q Consensus       163 ---~~~~~~g~~~~----~l~i~~~~~-------~e~~~~~i~~l~~~~~~~lVVIDsl~~l~~~~~~~~~~~~~~~~~q  228 (315)
                         .++..+|++.+    ++++.++.+       .+++...+...+++.++++|||||++.++....           .+
T Consensus        82 ~l~~~a~~~g~d~~~~~~~l~~id~~~~~~~~~~~~~l~~~l~~~i~~~~~~~vVIDSls~l~~~~~-----------~~  150 (259)
T TIGR03878        82 SLKERAKAMGVDFDKIEENIILIDAASSTELRENVPNLLATLAYAIKEYKVKNTVIDSITGLYEAKE-----------MM  150 (259)
T ss_pred             HHHHHHHHcCCCHHHHhCCEEEEECCCchhhhhhHHHHHHHHHHHHHhhCCCEEEEcCchHhcccch-----------HH
Confidence               24567888753    566665543       456677777788888999999999998863110           12


Q ss_pred             HHHHHHHHHHHHHHHhccCcEEEEEeccccccCCCCCCCCCccccccccccccccceEEEEEec
Q 021239          229 SRIMTQALRKIHYSLCQSHTLIIFLNQVRFSAKSGQGLGRMDEVTSGGNALKFYAALRLRMMRT  292 (315)
Q Consensus       229 ~r~i~~~l~~L~~~~~~~~i~VI~inq~~~~~~~~~~~~~~~~~~~gG~~~~~~~~~rl~l~k~  292 (315)
                         ..+.+.+|..++++.++|+++++|.......   +   ...+.++..+.|.+|.+|.|...
T Consensus       151 ---~r~~~~~L~~~lk~~~~t~ll~~e~~~~~~~---~---~~~~~~~~~~~~l~D~vI~L~~~  205 (259)
T TIGR03878       151 ---AREIVRQLFNFMKKWYQTALFVSQKRSGHEE---L---SAEAAGGYAVSHIVDGTIVLAKQ  205 (259)
T ss_pred             ---HHHHHHHHHHHHHHcCCeEEEEeccccCccc---c---cccccCCcceeEeeccEEEEeee
Confidence               2355666777779999999999998753311   1   11467777899999999999853

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

>PRK11823 DNA repair protein RadA; Provisional

Probab=99.93  E-value=4.8e-25  Score=213.42  Aligned_cols=173  Identities=26%  Similarity=0.377  Sum_probs=141.5

Q ss_pred             CCCCccccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCCh--HHHHHcCCCCC
Q 021239           96 RRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP--SLAEAMGIDAE  173 (315)
Q Consensus        96 ~~~~~i~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~--~~~~~~g~~~~  173 (315)
                      ...++++||+++||++|| ||+++|++++|+|+||+|||||+++++.+.++.+++|+|+++|++..+  .+++++|++.+
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 999999999999999999999999999999888999999999999887  46889999999


Q ss_pred             CeEEeCCCCHHHHHHHHHHHHHcCCccEEeehhHhhhccccccCCCccCCChHHHHHHHHHHHHHHHHHHhccCcEEEEE
Q 021239          174 NLLIAQPDSAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFL  253 (315)
Q Consensus       174 ~l~i~~~~~~e~~~~~i~~l~~~~~~~lVVIDsl~~l~~~~~~~~~~~~~~~~~q~r~i~~~l~~L~~~~~~~~i~VI~i  253 (315)
                      ++.+....+.+++.+.++    +.++++|||||++.++. .++++.++..   .|.+   +.+..|.+++++++++++++
T Consensus       136 ~l~~~~e~~l~~i~~~i~----~~~~~lVVIDSIq~l~~-~~~~~~~g~~---~qvr---~~~~~L~~~ak~~~itvilv  204 (446)
T PRK11823        136 NLYLLAETNLEAILATIE----EEKPDLVVIDSIQTMYS-PELESAPGSV---SQVR---ECAAELMRLAKQRGIAVFLV  204 (446)
T ss_pred             cEEEeCCCCHHHHHHHHH----hhCCCEEEEechhhhcc-ccccCCCCCH---HHHH---HHHHHHHHHHHHcCCEEEEE
Confidence            988887777776666553    45899999999999983 4444333322   4444   34555666779999999999


Q ss_pred             eccccccCCCCCCCCCccccccccccccccceEEEEEe
Q 021239          254 NQVRFSAKSGQGLGRMDEVTSGGNALKFYAALRLRMMR  291 (315)
Q Consensus       254 nq~~~~~~~~~~~~~~~~~~~gG~~~~~~~~~rl~l~k  291 (315)
                      +|+....           ..+|...|.|.+|.++.+++
T Consensus       205 ~hvtk~~-----------~~ag~~~lehlvD~Vi~le~  231 (446)
T PRK11823        205 GHVTKEG-----------AIAGPRVLEHMVDTVLYFEG  231 (446)
T ss_pred             eeccCCC-----------CcCCcchhhhhCeEEEEEEc
Confidence            9997542           13556789999999999985

>TIGR03877 thermo_KaiC_1 KaiC domain protein, Ph0284 family

Probab=99.93  E-value=5.3e-25  Score=196.92  Aligned_cols=169  Identities=21%  Similarity=0.301  Sum_probs=132.5

Q ss_pred             CccccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCCh--HHHHHcCCCCC---
Q 021239           99 PVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP--SLAEAMGIDAE---  173 (315)
Q Consensus        99 ~~i~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~--~~~~~~g~~~~---  173 (315)
                      ++++||+++||++|+ ||+++|++++|+|+||+|||+|+++++.+.+++|++|+|+++|+++.+  .+++.+|++.+   
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 999999999999999999999999999998889999999999998876  45777888753   


Q ss_pred             ---CeEEeC-------------------CCCHHHHHHHHHHHHHcCCccEEeehhHhhhccccccCCCccCCChHHHHHH
Q 021239          174 ---NLLIAQ-------------------PDSAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRI  231 (315)
Q Consensus       174 ---~l~i~~-------------------~~~~e~~~~~i~~l~~~~~~~lVVIDsl~~l~~~~~~~~~~~~~~~~~q~r~  231 (315)
                         ++.+.+                   +.+.+++.+.+.+.++..++++|||||++.++...     +      ...+ 
T Consensus        80 ~~g~l~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~vVIDSls~l~~~~-----~------~~~r-  147 (237)
T TIGR03877        80 EEGKFAIVDAFTGGIGEAAEREKYVVKDPTDVRELIDVLRQAIRDINAKRVVIDSVTTLYITK-----P------AMAR-  147 (237)
T ss_pred             hcCCEEEEeccccccccccccccccccCcccHHHHHHHHHHHHHHhCCCEEEEcChhHhhcCC-----h------HHHH-
Confidence               333332                   34567788888888888899999999999986311     0      1122 


Q ss_pred             HHHHHHHHHHHHhccCcEEEEEeccccccCCCCCCCCCccccccccccccccceEEEEEecc
Q 021239          232 MTQALRKIHYSLCQSHTLIIFLNQVRFSAKSGQGLGRMDEVTSGGNALKFYAALRLRMMRTR  293 (315)
Q Consensus       232 i~~~l~~L~~~~~~~~i~VI~inq~~~~~~~~~~~~~~~~~~~gG~~~~~~~~~rl~l~k~~  293 (315)
                        +.+..|.+.++++|+|+++++|.....           .+.++..+.|.+|..|.|+...
T Consensus       148 --~~l~~l~~~lk~~~~t~llt~~~~~~~-----------~~~~~~~~~~~~D~vI~L~~~~  196 (237)
T TIGR03877       148 --SIVMQLKRVLSGLGCTSIFVSQVSVGE-----------RGFGGPGVEHAVDGIIRLDLDE  196 (237)
T ss_pred             --HHHHHHHHHHHhCCCEEEEEECccccc-----------ccccccceEEEEeEEEEEEEEe
Confidence              456677777799999999999986432           1122345678899999887643

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.

>TIGR00416 sms DNA repair protein RadA

Probab=99.93  E-value=4.4e-25  Score=213.81  Aligned_cols=175  Identities=23%  Similarity=0.286  Sum_probs=142.1

Q ss_pred             CCCCccccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCCh--HHHHHcCCCCC
Q 021239           96 RRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP--SLAEAMGIDAE  173 (315)
Q Consensus        96 ~~~~~i~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~--~~~~~~g~~~~  173 (315)
                      .+.++++||+++||++|| ||+++|++++|+|+||+|||||+++++.+.++.+++|+|+++|++..+  .+++++|++.+
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 999999999999999999999999999999988899999999998876  46788999999


Q ss_pred             CeEEeCCCCHHHHHHHHHHHHHcCCccEEeehhHhhhccccccCCCccCCChHHHHHHHHHHHHHHHHHHhccCcEEEEE
Q 021239          174 NLLIAQPDSAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFL  253 (315)
Q Consensus       174 ~l~i~~~~~~e~~~~~i~~l~~~~~~~lVVIDsl~~l~~~~~~~~~~~~~~~~~q~r~i~~~l~~L~~~~~~~~i~VI~i  253 (315)
                      ++++....+.+++.+.+    ++.++++|||||++.++. .+..+.++..   .|.+   +.+..|.++++++|+|++++
T Consensus       150 ~l~~~~e~~~~~I~~~i----~~~~~~~vVIDSIq~l~~-~~~~~~~g~~---~q~r---~~~~~L~~~ak~~giTvllt  218 (454)
T TIGR00416       150 NLYVLSETNWEQICANI----EEENPQACVIDSIQTLYS-PDISSAPGSV---SQVR---ECTAELMRLAKTRGIAIFIV  218 (454)
T ss_pred             HeEEcCCCCHHHHHHHH----HhcCCcEEEEecchhhcc-cccccCCCCH---HHHH---HHHHHHHHHHHHhCCEEEEE
Confidence            99988887776666554    446899999999999873 3333333322   4444   34555666779999999999


Q ss_pred             eccccccCCCCCCCCCccccccccccccccceEEEEEecc
Q 021239          254 NQVRFSAKSGQGLGRMDEVTSGGNALKFYAALRLRMMRTR  293 (315)
Q Consensus       254 nq~~~~~~~~~~~~~~~~~~~gG~~~~~~~~~rl~l~k~~  293 (315)
                      +|+....           ..+|...+.|.+|.+|.+++.+
T Consensus       219 ~hvtkeg-----------~~aG~~~le~lvD~VI~Le~~~  247 (454)
T TIGR00416       219 GHVTKEG-----------SIAGPKVLEHMVDTVLYFEGDR  247 (454)
T ss_pred             eccccCC-----------ccCCcccEeeeceEEEEEeccC
Confidence            9997532           2356678999999999998743

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)).

>PRK04328 hypothetical protein; Provisional

Probab=99.92  E-value=3.1e-24  Score=193.25  Aligned_cols=168  Identities=22%  Similarity=0.320  Sum_probs=132.2

Q ss_pred             CccccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCCh--HHHHHcCCCCC---
Q 021239           99 PVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP--SLAEAMGIDAE---  173 (315)
Q Consensus        99 ~~i~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~--~~~~~~g~~~~---  173 (315)
                      ++++||+++||++|+ ||+|+|++++|+|+||+|||+|+++++.+.+++|++|+|+++|+++..  ..++++|++.+   
T Consensus         3 ~rv~tGi~~LD~lL~-GGip~gs~ili~G~pGsGKT~l~~~fl~~~~~~ge~~lyis~ee~~~~i~~~~~~~g~d~~~~~   81 (249)
T PRK04328          3 KRVKTGIPGMDEILY-GGIPERNVVLLSGGPGTGKSIFSQQFLWNGLQMGEPGVYVALEEHPVQVRRNMRQFGWDVRKYE   81 (249)
T ss_pred             ceecCCchhHHHHhc-CCCcCCcEEEEEcCCCCCHHHHHHHHHHHHHhcCCcEEEEEeeCCHHHHHHHHHHcCCCHHHHh
Confidence            569999999999999 999999999999999999999999999999999999999999998887  45778888653   


Q ss_pred             ---CeEEeC-------------------CCCHHHHHHHHHHHHHcCCccEEeehhHhhhccccccCCCccCCChHHHHHH
Q 021239          174 ---NLLIAQ-------------------PDSAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRI  231 (315)
Q Consensus       174 ---~l~i~~-------------------~~~~e~~~~~i~~l~~~~~~~lVVIDsl~~l~~~~~~~~~~~~~~~~~q~r~  231 (315)
                         ++.+.+                   +.+.+++.+.+.+.++..+++++||||++.++.. .    +      ...+ 
T Consensus        82 ~~~~l~iid~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~vVIDSlt~l~~~-~----~------~~~r-  149 (249)
T PRK04328         82 EEGKFAIVDAFTGGIGSAAKREKYVVKDPDDVRELIDVLRQAIKDIGAKRVVIDSVSTLYLT-K----P------AMAR-  149 (249)
T ss_pred             hcCCEEEEeccccccccccccccccccCcccHHHHHHHHHHHHHhhCCCEEEEeChhHhhcC-C----h------HHHH-
Confidence               233332                   2345677788888888889999999999988631 1    0      1122 


Q ss_pred             HHHHHHHHHHHHhccCcEEEEEeccccccCCCCCCCCCccccccccccccccceEEEEEec
Q 021239          232 MTQALRKIHYSLCQSHTLIIFLNQVRFSAKSGQGLGRMDEVTSGGNALKFYAALRLRMMRT  292 (315)
Q Consensus       232 i~~~l~~L~~~~~~~~i~VI~inq~~~~~~~~~~~~~~~~~~~gG~~~~~~~~~rl~l~k~  292 (315)
                        +.+..|.+.++++|+|+++++|.....           .+.++..+.|.+|..|.|+..
T Consensus       150 --~~~~~l~~~lk~~g~t~llt~e~~~~~-----------~~~~~~~~~~~~D~vI~L~~~  197 (249)
T PRK04328        150 --SIVMQLKRVLSGLGCTAIFVSQVSVGE-----------RGFGGPGVEHAVDGIIRLDLD  197 (249)
T ss_pred             --HHHHHHHHHHHhCCCEEEEEECccccc-----------cccCCCCcEEEEEEEEEEEEE
Confidence              445667777799999999999986421           123345567888999988764

>TIGR02655 circ_KaiC circadian clock protein KaiC

Probab=99.92  E-value=5.8e-25  Score=215.42  Aligned_cols=173  Identities=21%  Similarity=0.183  Sum_probs=136.8

Q ss_pred             CCccccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCCh--HHHHHcCCCCCC-
Q 021239           98 GPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP--SLAEAMGIDAEN-  174 (315)
Q Consensus        98 ~~~i~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~--~~~~~~g~~~~~-  174 (315)
                      ..+++||+++||++|| ||+++|++++|.||||+|||+|++|++.+.+++|++|+|+++|++..+  .+++++|++.++ 
T Consensus       242 ~~~~~tGi~~lD~~lg-GG~~~gs~~li~G~~G~GKt~l~~~f~~~~~~~ge~~~y~s~eEs~~~i~~~~~~lg~~~~~~  320 (484)
T TIGR02655       242 NVRVSSGVVRLDEMCG-GGFFKDSIILATGATGTGKTLLVSKFLENACANKERAILFAYEESRAQLLRNAYSWGIDFEEM  320 (484)
T ss_pred             ccccCCChHhHHHHhc-CCccCCcEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEEeeCCHHHHHHHHHHcCCChHHH
Confidence            5579999999999999 999999999999999999999999999999999999999999999988  578899998754 


Q ss_pred             -----eEEeCC----CCHHHHHHHHHHHHHcCCccEEeehhHhhhccccccCCCccCCChHHHHHHHHHHHHHHHHHHhc
Q 021239          175 -----LLIAQP----DSAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQ  245 (315)
Q Consensus       175 -----l~i~~~----~~~e~~~~~i~~l~~~~~~~lVVIDsl~~l~~~~~~~~~~~~~~~~~q~r~i~~~l~~L~~~~~~  245 (315)
                           +.+.+.    ...+++++.+.+.++..++++|||||++.+..  .+..        .+.+   ..+..|.+++++
T Consensus       321 ~~~g~l~~~~~~p~~~~~~~~~~~i~~~i~~~~~~~vvIDsi~~~~~--~~~~--------~~~r---~~~~~l~~~lk~  387 (484)
T TIGR02655       321 EQQGLLKIICAYPESAGLEDHLQIIKSEIADFKPARIAIDSLSALAR--GVSN--------NAFR---QFVIGVTGYAKQ  387 (484)
T ss_pred             hhCCcEEEEEcccccCChHHHHHHHHHHHHHcCCCEEEEcCHHHHHH--hcCH--------HHHH---HHHHHHHHHHhh
Confidence                 555442    24578888888888888999999999999873  1211        2222   445667778899


Q ss_pred             cCcEEEEEeccccccCCCCCCCCCccccccccccccccceEEEEEecc
Q 021239          246 SHTLIIFLNQVRFSAKSGQGLGRMDEVTSGGNALKFYAALRLRMMRTR  293 (315)
Q Consensus       246 ~~i~VI~inq~~~~~~~~~~~~~~~~~~~gG~~~~~~~~~rl~l~k~~  293 (315)
                      .|+|+++++........   +      +......+|.+|..|.|+-.+
T Consensus       388 ~~it~~~t~~~~~~~~~---~------~~~~~~~s~l~D~ii~l~~~e  426 (484)
T TIGR02655       388 EEITGFFTNTSDQFMGS---H------SITDSHISTITDTILMLQYVE  426 (484)
T ss_pred             CCCeEEEeecccccccC---C------ccCCCCeeEeeeEEEEEEEEe
Confidence            99999999887643311   1      111223577888888876544

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.

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

Probab=99.91  E-value=9.6e-24  Score=186.14  Aligned_cols=192  Identities=24%  Similarity=0.343  Sum_probs=147.2

Q ss_pred             CCCccccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHh------cCCeEEEEecCCCCChHHHHHcC-
Q 021239           97 RGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQK------LGGYCAYLDVENALDPSLAEAMG-  169 (315)
Q Consensus        97 ~~~~i~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~------~g~~v~~i~~E~~~~~~~~~~~g-  169 (315)
                      ..+.++||...||+.|+ ||++.+.+++|+|++|+|||+|++|++...+-      -|+.++||.+|.+++..|..++. 
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 99999999999999999999999999988773      36799999999999986633321 


Q ss_pred             ------------C----CCCCeEEeCCCCHHHHHHHHHHH----HHcCCccEEeehhHhhhccccccCCCccCCChHHHH
Q 021239          170 ------------I----DAENLLIAQPDSAENLLSVVDTL----TKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQS  229 (315)
Q Consensus       170 ------------~----~~~~l~i~~~~~~e~~~~~i~~l----~~~~~~~lVVIDsl~~l~~~~~~~~~~~~~~~~~q~  229 (315)
                                  .    .-+++++....+++.+++.+...    ..+.+.++|||||+++.+ +.+++..+.+..  ..+
T Consensus       159 ~~~~rp~~~~~~~~~~Npgd~IFv~~~~d~d~l~~iv~~qlPiL~~r~~i~LVIiDSVAa~f-R~E~d~~~Sdl~--~r~  235 (351)
T KOG1564|consen  159 TLPQRPNPEKELNYNDNPGDHIFVENVHDVDHLLHIVNRQLPILLNRKKIKLVIIDSVAALF-RSEFDYNPSDLK--KRA  235 (351)
T ss_pred             hcccCCCcchhhhhccCCCceEEEEeccchhhHHHHHhhhccceeccCcceEEEEehhhHHH-HHHhccChhhhh--hHH
Confidence                        1    11247888888888888887764    356789999999999999 677775432211  223


Q ss_pred             HHHHHHHHHHHHHHhccCcEEEEEeccccccCCCCC-C----C-------CCccccccccccccccceEEEEEec
Q 021239          230 RIMTQALRKIHYSLCQSHTLIIFLNQVRFSAKSGQG-L----G-------RMDEVTSGGNALKFYAALRLRMMRT  292 (315)
Q Consensus       230 r~i~~~l~~L~~~~~~~~i~VI~inq~~~~~~~~~~-~----~-------~~~~~~~gG~~~~~~~~~rl~l~k~  292 (315)
                      +.+.+.-.+|..++.+++++||++||+.+....+-. +    +       .-...|+.|..|++.+++||.+.|.
T Consensus       236 ~~l~rla~~Lr~LA~~~~~aVV~~NQVtd~~~~~~~~~~l~~~d~r~~w~sgw~vPsLGL~WaN~v~tRl~l~r~  310 (351)
T KOG1564|consen  236 RHLFRLAGKLRQLASKFDLAVVCANQVTDRVETSDDLSGLRIGDYRYLWSSGWVVPSLGLTWANCVSTRLLLSRS  310 (351)
T ss_pred             HHHHHHHHHHHHHHHhcCccEEEeeccccccccccccCCccccchhhccccccccccccceeccccceeeeeeec
Confidence            334455555666679999999999999988432110 1    0       1126799999999999999999994

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

Probab=99.90  E-value=3.1e-23  Score=184.07  Aligned_cols=167  Identities=29%  Similarity=0.394  Sum_probs=126.7

Q ss_pred             cccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHhc-CCeEEEEecCCCCCh--HHHHHcCCCCC----
Q 021239          101 ISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKL-GGYCAYLDVENALDP--SLAEAMGIDAE----  173 (315)
Q Consensus       101 i~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~~-g~~v~~i~~E~~~~~--~~~~~~g~~~~----  173 (315)
                      |+||+++||++|+ ||+|+|++++|.|+||+|||+|++|++.+.+++ |++|+|+++|+++..  ..++.+|++.+    
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 999999999999999999999999999999999 999999999999876  45777888754    


Q ss_pred             --CeEEeC---------CCCHHHHHHHHHHHHHcCCccEEeehhHhhhccccccCCCccCCChHHHHHHHHHHHHHHHHH
Q 021239          174 --NLLIAQ---------PDSAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYS  242 (315)
Q Consensus       174 --~l~i~~---------~~~~e~~~~~i~~l~~~~~~~lVVIDsl~~l~~~~~~~~~~~~~~~~~q~r~i~~~l~~L~~~  242 (315)
                        ++.+.+         +.+.+++...+.+.++..++++|||||++.+.. ..  +.       .   .+...++.+...
T Consensus        80 ~g~l~~~d~~~~~~~~~~~~~~~l~~~i~~~i~~~~~~~vVIDsls~l~~-~~--~~-------~---~~r~~l~~l~~~  146 (226)
T PF06745_consen   80 SGKLKIIDAFPERIGWSPNDLEELLSKIREAIEELKPDRVVIDSLSALLL-YD--DP-------E---ELRRFLRALIKF  146 (226)
T ss_dssp             TTSEEEEESSGGGST-TSCCHHHHHHHHHHHHHHHTSSEEEEETHHHHTT-SS--SG-------G---GHHHHHHHHHHH
T ss_pred             cCCEEEEecccccccccccCHHHHHHHHHHHHHhcCCCEEEEECHHHHhh-cC--CH-------H---HHHHHHHHHHHH
Confidence              355443         346788888888888888889999999999931 11  11       1   133567777777


Q ss_pred             HhccCcEEEEEeccccccCCCCCCCCCcccccccccccc-ccceEEEEEec
Q 021239          243 LCQSHTLIIFLNQVRFSAKSGQGLGRMDEVTSGGNALKF-YAALRLRMMRT  292 (315)
Q Consensus       243 ~~~~~i~VI~inq~~~~~~~~~~~~~~~~~~~gG~~~~~-~~~~rl~l~k~  292 (315)
                      +++.|++++++.|.....           .+.....+.+ .+|..|.++..
T Consensus       147 l~~~~~t~llt~~~~~~~-----------~~~~~~~i~~~l~D~vI~L~~~  186 (226)
T PF06745_consen  147 LKSRGVTTLLTSEMPSGS-----------EDDGTFGIEHYLADGVIELRYE  186 (226)
T ss_dssp             HHHTTEEEEEEEEESSSS-----------SSSSSTSHHHHHSSEEEEEEEE
T ss_pred             HHHCCCEEEEEEccccCc-----------ccccccchhhhcccEEEEEEEE
Confidence            899999999999975432           1234455665 78888887764

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=99.90  E-value=4.1e-22  Score=192.55  Aligned_cols=186  Identities=21%  Similarity=0.252  Sum_probs=141.0

Q ss_pred             CCCccccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHH-hcCCeEEEEecCCCCChHH----HHHcCCC
Q 021239           97 RGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQ-KLGGYCAYLDVENALDPSL----AEAMGID  171 (315)
Q Consensus        97 ~~~~i~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~-~~g~~v~~i~~E~~~~~~~----~~~~g~~  171 (315)
                      ...+++||++.||++++  |+.+|++++|+|+||+|||+|+++++.+++ ..|.+|+||++|++..+..    +...|++
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            35789999999999997  999999999999999999999999998887 6789999999999887632    2223443


Q ss_pred             CC-------------------------CeEEeCC--CCHHHHHHHHHHHHHcC-CccEEeehhHhhhccccccCCCccCC
Q 021239          172 AE-------------------------NLLIAQP--DSAENLLSVVDTLTKSG-SIDVIVVDSVAALIPKCEIGVPINGM  223 (315)
Q Consensus       172 ~~-------------------------~l~i~~~--~~~e~~~~~i~~l~~~~-~~~lVVIDsl~~l~~~~~~~~~~~~~  223 (315)
                      ..                         ++++.+.  .+.+++...++++.... ++++||||+++.+...   .+   . 
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            21                         3455544  46788888888887655 7999999999988631   11   1 


Q ss_pred             ChHHHHHHHHHHHHHHHHHHhccCcEEEEEeccccccCCCCCCCCCccccccccccccccceEEEEEeccc
Q 021239          224 YSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVRFSAKSGQGLGRMDEVTSGGNALKFYAALRLRMMRTRL  294 (315)
Q Consensus       224 ~~~~q~r~i~~~l~~L~~~~~~~~i~VI~inq~~~~~~~~~~~~~~~~~~~gG~~~~~~~~~rl~l~k~~~  294 (315)
                         ....++..+.+.|+.+|++++|+||+++|+++.........+.-.--.++..+.+.+|+.+.+.|...
T Consensus       324 ---~~~~~~~~i~~~Lk~lAke~~i~Vi~lsQlnr~~~~r~~krp~lsdlr~Sg~Ieq~AD~v~~l~R~~~  391 (421)
T TIGR03600       324 ---DRNEELGGISRGLKALAKELDVPVVLLAQLNRGSEKRTDKRPIMSDLRDSGAIEQDADVIGLIHREGY  391 (421)
T ss_pred             ---CHHHHHHHHHHHHHHHHHHhCCcEEEecccCcchhhcCCCCCChHHHhhcCCccccCcEEEEeccccc
Confidence               11234677778888888999999999999998774321111011123577889999999999999865

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.

>PRK06321 replicative DNA helicase; Provisional

Probab=99.89  E-value=2.2e-21  Score=188.70  Aligned_cols=190  Identities=16%  Similarity=0.183  Sum_probs=141.2

Q ss_pred             CCCccccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHh-cCCeEEEEecCCCCChHHHHH----cCCC
Q 021239           97 RGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQK-LGGYCAYLDVENALDPSLAEA----MGID  171 (315)
Q Consensus        97 ~~~~i~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~-~g~~v~~i~~E~~~~~~~~~~----~g~~  171 (315)
                      ...+++||++.||++++  |+++|++++|+|+||+|||+|+++++.+++. .|.+|+||++||+..+...+-    .+++
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            35689999999999997  9999999999999999999999999999874 588999999999987632221    1222


Q ss_pred             CC-------------------------CeEEeCC--CCHHHHHHHHHHHHHcCCccEEeehhHhhhccccccCCCccCCC
Q 021239          172 AE-------------------------NLLIAQP--DSAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMY  224 (315)
Q Consensus       172 ~~-------------------------~l~i~~~--~~~e~~~~~i~~l~~~~~~~lVVIDsl~~l~~~~~~~~~~~~~~  224 (315)
                      ..                         ++++.+.  .+.+++...++++...+++++||||+|+.+........  .   
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            11                         3344432  36788999999888888899999999998752111110  0   


Q ss_pred             hHHHHHHHHHHHHHHHHHHhccCcEEEEEeccccccCCCCCCCCCccccccccccccccceEEEEEeccc
Q 021239          225 SDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVRFSAKSGQGLGRMDEVTSGGNALKFYAALRLRMMRTRL  294 (315)
Q Consensus       225 ~~~q~r~i~~~l~~L~~~~~~~~i~VI~inq~~~~~~~~~~~~~~~~~~~gG~~~~~~~~~rl~l~k~~~  294 (315)
                       ..+..++..+.+.|+.+|++++|+||+++|+++.+.......+.-.--.++..+...+|+.+.+.|.+.
T Consensus       358 -~~r~~ei~~Isr~LK~lAkel~vpVi~lsQLnR~~e~r~~krP~lsDLReSG~IEqdAD~v~~l~R~~~  426 (472)
T PRK06321        358 -ESRQTEISEISRMLKNLARELNIPILCLSQLSRKVEDRANHRPMMSDLRESGSIEQDSDLVMFLLRREY  426 (472)
T ss_pred             -chHHHHHHHHHHHHHHHHHHhCCcEEEEeecChhhhccCCCCCCHHHHhhcccccccCCEEEEEechhh
Confidence             123345788888899999999999999999998875321100000112467789999999999998654

>PRK08760 replicative DNA helicase; Provisional

Probab=99.89  E-value=1.5e-21  Score=190.37  Aligned_cols=187  Identities=19%  Similarity=0.168  Sum_probs=139.5

Q ss_pred             CCCccccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHh-cCCeEEEEecCCCCChHHHHH--c--CCC
Q 021239           97 RGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQK-LGGYCAYLDVENALDPSLAEA--M--GID  171 (315)
Q Consensus        97 ~~~~i~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~-~g~~v~~i~~E~~~~~~~~~~--~--g~~  171 (315)
                      ...+++||+++||.+++  |+++|++++|.|+||+|||+|++++|.+++. .|.+|+||++||+..+...+-  .  +++
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            45789999999999986  8999999999999999999999999999875 488999999999987632221  1  122


Q ss_pred             C-------------------------CCeEEeCC--CCHHHHHHHHHHHHHcCCccEEeehhHhhhccccccCCCccCCC
Q 021239          172 A-------------------------ENLLIAQP--DSAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMY  224 (315)
Q Consensus       172 ~-------------------------~~l~i~~~--~~~e~~~~~i~~l~~~~~~~lVVIDsl~~l~~~~~~~~~~~~~~  224 (315)
                      .                         .++++.+.  .+++++...++++...+++++||||+++.+.....  .+     
T Consensus       286 ~~~i~~g~l~~~e~~~~~~a~~~l~~~~l~I~d~~~~t~~~I~~~~r~l~~~~~~~lVvIDyLql~~~~~~--~~-----  358 (476)
T PRK08760        286 AQRLRTGALEDEDWARVTGAIKMLKETKIFIDDTPGVSPEVLRSKCRRLKREHDLGLIVIDYLQLMSVPGN--SE-----  358 (476)
T ss_pred             HHHHhcCCCCHHHHHHHHHHHHHHhcCCEEEeCCCCCCHHHHHHHHHHHHHhcCCCEEEEecHHhcCCCCC--Cc-----
Confidence            1                         13455443  35789999999988888899999999997752111  00     


Q ss_pred             hHHHHHHHHHHHHHHHHHHhccCcEEEEEeccccccCCCCCCCCCccccccccccccccceEEEEEeccc
Q 021239          225 SDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVRFSAKSGQGLGRMDEVTSGGNALKFYAALRLRMMRTRL  294 (315)
Q Consensus       225 ~~~q~r~i~~~l~~L~~~~~~~~i~VI~inq~~~~~~~~~~~~~~~~~~~gG~~~~~~~~~rl~l~k~~~  294 (315)
                        ....++..+.+.|+.+|++++|+||+++|+++.........+.-.--.++..+.+.+|+++.+.|...
T Consensus       359 --~r~~ei~~Isr~LK~lAkel~ipVi~lsQLnR~~e~r~~krP~lsDLreSg~IeqdAD~vl~l~R~~~  426 (476)
T PRK08760        359 --NRATEISEISRSLKGLAKELNVPVIALSQLNRSLETRTDKRPVMADLRESGAIEQDADMIVFIYRDDY  426 (476)
T ss_pred             --ccHHHHHHHHHHHHHHHHHhCCEEEEeeccCccccccCCCCCCHHHHhhccchhcCCCEEEEEechhh
Confidence              12234677778888888999999999999998874321110000112467889999999999998653

>PRK09302 circadian clock protein KaiC; Reviewed

Probab=99.89  E-value=9e-23  Score=201.54  Aligned_cols=173  Identities=22%  Similarity=0.234  Sum_probs=135.2

Q ss_pred             CCCccccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCCh--HHHHHcCCCCCC
Q 021239           97 RGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP--SLAEAMGIDAEN  174 (315)
Q Consensus        97 ~~~~i~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~--~~~~~~g~~~~~  174 (315)
                      ..+.++||+++||.+|+ ||+++|++++|.|+||+|||+|+.+++.+.+..|++|+|+++|+++++  ..++.+|++.++
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  467788987653


Q ss_pred             ------eEEeC----CCCHHHHHHHHHHHHHcCCccEEeehhHhhhccccccCCCccCCChHHHHHHHHHHHHHHHHHHh
Q 021239          175 ------LLIAQ----PDSAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLC  244 (315)
Q Consensus       175 ------l~i~~----~~~~e~~~~~i~~l~~~~~~~lVVIDsl~~l~~~~~~~~~~~~~~~~~q~r~i~~~l~~L~~~~~  244 (315)
                            +.+..    ....++++..+.+.+++.++++|||||++.+.....             ...+.+.++.|.+.++
T Consensus       330 ~~~~g~l~i~~~~~~~~~~~~~~~~i~~~i~~~~~~~vVIDslt~l~~~~~-------------~~~~~~~l~~l~~~~k  396 (509)
T PRK09302        330 MEEKGLLKIICARPESYGLEDHLIIIKREIEEFKPSRVAIDPLSALARGGS-------------LNEFRQFVIRLTDYLK  396 (509)
T ss_pred             HhhcCCceeecCCcccCCHHHHHHHHHHHHHHcCCCEEEEcCHHHHHHhCC-------------HHHHHHHHHHHHHHHH
Confidence                  22222    124567788888888888999999999999873111             1124566777888889


Q ss_pred             ccCcEEEEEeccccccCCCCCCCCCccccccccccccccceEEEEEec
Q 021239          245 QSHTLIIFLNQVRFSAKSGQGLGRMDEVTSGGNALKFYAALRLRMMRT  292 (315)
Q Consensus       245 ~~~i~VI~inq~~~~~~~~~~~~~~~~~~~gG~~~~~~~~~rl~l~k~  292 (315)
                      ++|+++++++|.......      .+...   ..+.|.+|..|.|+..
T Consensus       397 ~~~~t~l~t~~~~~~~g~------~~~~~---~~~~~l~D~vI~L~~~  435 (509)
T PRK09302        397 SEEITGLFTNLTPDFMGS------HSITE---SHISSLTDTWILLQYV  435 (509)
T ss_pred             hCCCeEEEEeccccccCC------CCCCc---CceEEeeeEEEEEEEe
Confidence            999999999998654311      11111   2367888888888864

>PRK09165 replicative DNA helicase; Provisional

Probab=99.89  E-value=1.5e-21  Score=191.36  Aligned_cols=188  Identities=20%  Similarity=0.240  Sum_probs=140.7

Q ss_pred             CCCccccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHhc---------------CCeEEEEecCCCCC
Q 021239           97 RGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKL---------------GGYCAYLDVENALD  161 (315)
Q Consensus        97 ~~~~i~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~~---------------g~~v~~i~~E~~~~  161 (315)
                      ...+++||+++||.++|  |+.+|++++|.|+||+|||+|+++++.+++..               |.+|+||++||+..
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               68999999999998


Q ss_pred             hHHH----HHcCCCCC-------------------------CeEEeCC--CCHHHHHHHHHHHHHcCCccEEeehhHhhh
Q 021239          162 PSLA----EAMGIDAE-------------------------NLLIAQP--DSAENLLSVVDTLTKSGSIDVIVVDSVAAL  210 (315)
Q Consensus       162 ~~~~----~~~g~~~~-------------------------~l~i~~~--~~~e~~~~~i~~l~~~~~~~lVVIDsl~~l  210 (315)
                      +...    ...+++..                         ++++.+.  .+.+++...++++...+++++||||+++.+
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            7322    22344321                         2444443  367899999998888889999999999987


Q ss_pred             ccccccCCCccCCChHHHHHHHHHHHHHHHHHHhccCcEEEEEeccccccCCCCCCCCCccccccccccccccceEEEEE
Q 021239          211 IPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVRFSAKSGQGLGRMDEVTSGGNALKFYAALRLRMM  290 (315)
Q Consensus       211 ~~~~~~~~~~~~~~~~~q~r~i~~~l~~L~~~~~~~~i~VI~inq~~~~~~~~~~~~~~~~~~~gG~~~~~~~~~rl~l~  290 (315)
                      ..... .  ...    ....++..+.+.|+.+|++++|+||+++|+++.........+.-.--.++..+...+|+.+.+.
T Consensus       354 ~~~~~-~--~~~----~r~~ev~~is~~LK~lAkel~ipVi~lsQLnR~~e~r~~krP~lsDLr~Sg~IEqdAD~v~~l~  426 (497)
T PRK09165        354 RGSSK-R--SSD----NRVQEISEITQGLKALAKELNIPVIALSQLSRQVEQRDDKRPQLSDLRESGSIEQDADVVMFVY  426 (497)
T ss_pred             cCCCC-C--CCC----chHHHHHHHHHHHHHHHHHhCCeEEEeecccchhhccCCCCCchhhhhhccchhccCCEEEEEe
Confidence            63111 0  001    1223477778888888899999999999999987432111001112356788999999999999


Q ss_pred             ecc
Q 021239          291 RTR  293 (315)
Q Consensus       291 k~~  293 (315)
                      |..
T Consensus       427 R~~  429 (497)
T PRK09165        427 REE  429 (497)
T ss_pred             ehh
Confidence            864

>PRK05748 replicative DNA helicase; Provisional

Probab=99.88  E-value=2.7e-21  Score=188.09  Aligned_cols=188  Identities=15%  Similarity=0.180  Sum_probs=139.5

Q ss_pred             CCCccccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHh-cCCeEEEEecCCCCChHHHHH---c-CCC
Q 021239           97 RGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQK-LGGYCAYLDVENALDPSLAEA---M-GID  171 (315)
Q Consensus        97 ~~~~i~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~-~g~~v~~i~~E~~~~~~~~~~---~-g~~  171 (315)
                      ...+++||++.||.+++  |+++|++++|.|+||+|||+|+++++.+++. .|.+|+||++||+..+...+.   . +++
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            46789999999999986  9999999999999999999999999999874 588999999999988732221   1 221


Q ss_pred             CC-------------------------CeEEeCC--CCHHHHHHHHHHHHHcC-CccEEeehhHhhhccccccCCCccCC
Q 021239          172 AE-------------------------NLLIAQP--DSAENLLSVVDTLTKSG-SIDVIVVDSVAALIPKCEIGVPINGM  223 (315)
Q Consensus       172 ~~-------------------------~l~i~~~--~~~e~~~~~i~~l~~~~-~~~lVVIDsl~~l~~~~~~~~~~~~~  223 (315)
                      ..                         ++++.+.  .+.+++...++++.... ++++||||+++.+... .   ..++ 
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                         3445433  36788989998888776 7999999999988521 1   1001 


Q ss_pred             ChHHHHHHHHHHHHHHHHHHhccCcEEEEEeccccccCCCCCCCCCccccccccccccccceEEEEEeccc
Q 021239          224 YSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVRFSAKSGQGLGRMDEVTSGGNALKFYAALRLRMMRTRL  294 (315)
Q Consensus       224 ~~~~q~r~i~~~l~~L~~~~~~~~i~VI~inq~~~~~~~~~~~~~~~~~~~gG~~~~~~~~~rl~l~k~~~  294 (315)
                         ....++..+.+.|+.+|++++|+||+++|+++.........+.-.--.++..+.+.+|..+.+.|...
T Consensus       335 ---~r~~~i~~i~~~LK~lAke~~i~vi~lsQlnr~~~~r~~k~p~lsdlr~Sg~Ieq~AD~v~~l~r~~~  402 (448)
T PRK05748        335 ---NRQQEVSEISRSLKALAKELKVPVIALSQLSRGVEQRQDKRPVMSDIRESGSIEQDADIVAFLYRDDY  402 (448)
T ss_pred             ---CHHHHHHHHHHHHHHHHHHhCCeEEEecccChhHhhcCCCCCChHHHHhhcchhcCCCEEEEEecccc
Confidence               12335778888888889999999999999998763321100000112466788999999999998764

>TIGR00665 DnaB replicative DNA helicase

Probab=99.88  E-value=4.9e-21  Score=185.77  Aligned_cols=187  Identities=17%  Similarity=0.196  Sum_probs=139.0

Q ss_pred             CCCccccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHh-cCCeEEEEecCCCCChHH--H--HHcCCC
Q 021239           97 RGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQK-LGGYCAYLDVENALDPSL--A--EAMGID  171 (315)
Q Consensus        97 ~~~~i~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~-~g~~v~~i~~E~~~~~~~--~--~~~g~~  171 (315)
                      ...+++||++.||.+++  |+++|++++|.|+||+|||+|+++++.+++. .|.+|+||++|++..+..  +  ...+++
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            46789999999999986  9999999999999999999999999999875 588999999999887632  1  112222


Q ss_pred             CC-------------------------CeEEeCC--CCHHHHHHHHHHHHHcCCccEEeehhHhhhccccccCCCccCCC
Q 021239          172 AE-------------------------NLLIAQP--DSAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMY  224 (315)
Q Consensus       172 ~~-------------------------~l~i~~~--~~~e~~~~~i~~l~~~~~~~lVVIDsl~~l~~~~~~~~~~~~~~  224 (315)
                      ..                         ++++.+.  .+.+++...++++...+++++||||+++.+.....  .+     
T Consensus       252 ~~~~~~g~l~~~~~~~~~~a~~~l~~~~l~i~d~~~~~~~~i~~~i~~~~~~~~~~~vvID~l~~i~~~~~--~~-----  324 (434)
T TIGR00665       252 SQKLRTGKLSDEDWEKLTSAAGKLSEAPLYIDDTPGLTITELRAKARRLKREHGLGLIVIDYLQLMSGSGR--SE-----  324 (434)
T ss_pred             HHHhccCCCCHHHHHHHHHHHHHHhcCCEEEECCCCCCHHHHHHHHHHHHHhcCCCEEEEcchHhcCCCCC--CC-----
Confidence            11                         2444332  36788999999888888899999999998852111  10     


Q ss_pred             hHHHHHHHHHHHHHHHHHHhccCcEEEEEeccccccCCCCCCCCCccccccccccccccceEEEEEeccc
Q 021239          225 SDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVRFSAKSGQGLGRMDEVTSGGNALKFYAALRLRMMRTRL  294 (315)
Q Consensus       225 ~~~q~r~i~~~l~~L~~~~~~~~i~VI~inq~~~~~~~~~~~~~~~~~~~gG~~~~~~~~~rl~l~k~~~  294 (315)
                        ....++..+.+.|+.+|++++|+||+++|+++.........+...-..++..+.+.+|..+.+.|...
T Consensus       325 --~r~~~i~~i~~~Lk~lA~e~~i~vi~lsqlnr~~~~r~~~~p~lsdlr~Sg~ieq~aD~vi~l~r~~~  392 (434)
T TIGR00665       325 --NRQQEVSEISRSLKALAKELNVPVIALSQLSRSVEQREDKRPQLSDLRESGSIEQDADIVMFLYRDEY  392 (434)
T ss_pred             --CHHHHHHHHHHHHHHHHHHhCCeEEEEeccCcchhccCCCCCChHHHhhccchhhcCCEEEEeccccc
Confidence              12234667778888888999999999999998763311100011123466788999999999998753

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.

>PRK05595 replicative DNA helicase; Provisional

Probab=99.88  E-value=4.3e-21  Score=186.43  Aligned_cols=187  Identities=19%  Similarity=0.217  Sum_probs=139.8

Q ss_pred             CCCccccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHH-hcCCeEEEEecCCCCChHH----HHHcCCC
Q 021239           97 RGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQ-KLGGYCAYLDVENALDPSL----AEAMGID  171 (315)
Q Consensus        97 ~~~~i~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~-~~g~~v~~i~~E~~~~~~~----~~~~g~~  171 (315)
                      ...+++||++.||.+++  |+.+|++++|.|+||+|||+|+++++.+++ ..|.+|+||++||+..+..    +...+++
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 5689999999999887632    2222332


Q ss_pred             CC-------------------------CeEEeCC--CCHHHHHHHHHHHHHcCCccEEeehhHhhhccccccCCCccCCC
Q 021239          172 AE-------------------------NLLIAQP--DSAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMY  224 (315)
Q Consensus       172 ~~-------------------------~l~i~~~--~~~e~~~~~i~~l~~~~~~~lVVIDsl~~l~~~~~~~~~~~~~~  224 (315)
                      ..                         ++++.+.  .+.+++...++++....++++||||+++.+.....  .   +  
T Consensus       258 ~~~~~~~~l~~~e~~~~~~~~~~l~~~~l~i~d~~~~t~~~i~~~~r~~~~~~~~~~vvIDylql~~~~~~--~---~--  330 (444)
T PRK05595        258 MLRLRTGNLEDKDWENIARASGPLAAAKIFIDDTAGVSVMEMRSKCRRLKIEHGIDMILIDYLQLMSGGKG--S---E--  330 (444)
T ss_pred             HHHHhcCCCCHHHHHHHHHHHHHHhcCCEEEECCCCCCHHHHHHHHHHHHHhcCCCEEEEeHHHhccCCCC--C---c--
Confidence            11                         3445443  35778888888888778899999999998752111  0   0  


Q ss_pred             hHHHHHHHHHHHHHHHHHHhccCcEEEEEeccccccCCCCCCCCCccccccccccccccceEEEEEeccc
Q 021239          225 SDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVRFSAKSGQGLGRMDEVTSGGNALKFYAALRLRMMRTRL  294 (315)
Q Consensus       225 ~~~q~r~i~~~l~~L~~~~~~~~i~VI~inq~~~~~~~~~~~~~~~~~~~gG~~~~~~~~~rl~l~k~~~  294 (315)
                        ....++..+.+.|+.+|++++|+||+++|+++.........+.-.--.++..+.+.+|+.+.+.|...
T Consensus       331 --~r~~~v~~is~~LK~lAke~~i~vi~lsQLnR~~e~r~~~rP~lsdlr~Sg~Ieq~AD~vl~l~r~~~  398 (444)
T PRK05595        331 --SRQQEVSEISRSIKALAKEMECPVIALSQLSRAPEQRADHRPMLSDLRESGSIEQDADVVMFLYRDEY  398 (444)
T ss_pred             --cHHHHHHHHHHHHHHHHHHhCCeEEEeeccCcchhccCCCCCchhhhhhhcccccCCCEEEEEecccc
Confidence              12234677788888888999999999999998874321111011123467789999999999998764

>PRK08006 replicative DNA helicase; Provisional

Probab=99.88  E-value=5.7e-21  Score=185.85  Aligned_cols=187  Identities=14%  Similarity=0.172  Sum_probs=139.4

Q ss_pred             CCCccccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHh-cCCeEEEEecCCCCChHHHHHc----CCC
Q 021239           97 RGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQK-LGGYCAYLDVENALDPSLAEAM----GID  171 (315)
Q Consensus        97 ~~~~i~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~-~g~~v~~i~~E~~~~~~~~~~~----g~~  171 (315)
                      ...+++||+++||.+++  |+.+|++++|+|+||+|||+|++++|.+++. .|.+|+||++||+..+...+-+    +++
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            35789999999999986  9999999999999999999999999999874 5889999999999876322111    111


Q ss_pred             --------------------------CCCeEEeCC--CCHHHHHHHHHHHHHcC-CccEEeehhHhhhccccccCCCccC
Q 021239          172 --------------------------AENLLIAQP--DSAENLLSVVDTLTKSG-SIDVIVVDSVAALIPKCEIGVPING  222 (315)
Q Consensus       172 --------------------------~~~l~i~~~--~~~e~~~~~i~~l~~~~-~~~lVVIDsl~~l~~~~~~~~~~~~  222 (315)
                                                -.++++.+.  .+..++...++++..++ ++++||||+|+.+.....  .   +
T Consensus       281 ~~~i~~~~l~~~e~~~~~~a~~~~~~~~~l~I~d~~~~t~~~i~~~~r~~~~~~~~~~lvvIDYLqli~~~~~--~---~  355 (471)
T PRK08006        281 QTRIRTGQLDDEDWARISGTMGILLEKRNMYIDDSSGLTPTEVRSRARRIFREHGGLSLIMIDYLQLMRVPSL--S---D  355 (471)
T ss_pred             HHHhhcCCCCHHHHHHHHHHHHHHHhcCCEEEECCCCCCHHHHHHHHHHHHHhcCCCCEEEEccHHHccCCCC--C---C
Confidence                                      124455543  36788988888887665 699999999998752111  1   0


Q ss_pred             CChHHHHHHHHHHHHHHHHHHhccCcEEEEEeccccccCCCCCCCCCccccccccccccccceEEEEEeccc
Q 021239          223 MYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVRFSAKSGQGLGRMDEVTSGGNALKFYAALRLRMMRTRL  294 (315)
Q Consensus       223 ~~~~~q~r~i~~~l~~L~~~~~~~~i~VI~inq~~~~~~~~~~~~~~~~~~~gG~~~~~~~~~rl~l~k~~~  294 (315)
                          .+..++..+.+.|+.+|++++|+||+++|+++.........+.-.--.++-.+...+|..+.+.|...
T Consensus       356 ----~r~~ei~~isr~LK~lAkel~ipVi~LsQLnR~~e~r~dkrP~lsDLreSG~IEqdAD~v~~l~R~~~  423 (471)
T PRK08006        356 ----NRTLEIAEISRSLKALAKELQVPVVALSQLNRSLEQRADKRPVNSDLRESGSIEQDADLIMFIYRDEV  423 (471)
T ss_pred             ----CcHHHHHHHHHHHHHHHHHhCCeEEEEEecCccccccCCCCCchhhhhhcCcccccCCEEEEEecccc
Confidence                11234777888888888999999999999999875421110011123467789999999999998754

>PRK08506 replicative DNA helicase; Provisional

Probab=99.88  E-value=3.2e-21  Score=188.19  Aligned_cols=187  Identities=19%  Similarity=0.195  Sum_probs=139.8

Q ss_pred             CCCccccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCChHHHH----HcCCCC
Q 021239           97 RGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAE----AMGIDA  172 (315)
Q Consensus        97 ~~~~i~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~~~~~----~~g~~~  172 (315)
                      ...+++||++.||.+++  |+++|++++|.|+||+|||+|+++++.+++..|.+|+||++||+..+...+    ..+++.
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  999999999999999999999999999998889999999999998763221    123321


Q ss_pred             -------------------------CCeEEeCC--CCHHHHHHHHHHHHHcC-CccEEeehhHhhhccccccCCCccCCC
Q 021239          173 -------------------------ENLLIAQP--DSAENLLSVVDTLTKSG-SIDVIVVDSVAALIPKCEIGVPINGMY  224 (315)
Q Consensus       173 -------------------------~~l~i~~~--~~~e~~~~~i~~l~~~~-~~~lVVIDsl~~l~~~~~~~~~~~~~~  224 (315)
                                               .++++.+.  .+.+++...++++.... ++++||||+|+.+.......       
T Consensus       249 ~~i~~~~l~~~e~~~~~~a~~~l~~~~l~I~d~~~~ti~~I~~~~r~l~~~~~~~~lvvIDyLql~~~~~~~~-------  321 (472)
T PRK08506        249 QNLRTGDLDDDEWERLSDACDELSKKKLFVYDSGYVNIHQVRAQLRKLKSQHPEIGLAVIDYLQLMSGSGNFK-------  321 (472)
T ss_pred             HHHhcCCCCHHHHHHHHHHHHHHHcCCeEEECCCCCCHHHHHHHHHHHHHhCCCCCEEEEcChhhccCCCCCC-------
Confidence                                     13555543  36888999998887653 68999999999775211100       


Q ss_pred             hHHHHHHHHHHHHHHHHHHhccCcEEEEEeccccccCCCCCCCCCccccccccccccccceEEEEEeccc
Q 021239          225 SDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVRFSAKSGQGLGRMDEVTSGGNALKFYAALRLRMMRTRL  294 (315)
Q Consensus       225 ~~~q~r~i~~~l~~L~~~~~~~~i~VI~inq~~~~~~~~~~~~~~~~~~~gG~~~~~~~~~rl~l~k~~~  294 (315)
                        .+..++..+.+.|+.+|++++|+||+++|+++.........+.-.--.++.++.+.+|+++.+.|...
T Consensus       322 --~r~~ev~~isr~LK~lAkel~ipVi~lsQLnR~~e~r~~krP~lsDLreSg~IeqdAD~vl~l~R~~~  389 (472)
T PRK08506        322 --DRHLQISEISRGLKLLARELDIPIIALSQLNRSLESRADKRPMLSDLRESGAIEQDADIILFVYRDDV  389 (472)
T ss_pred             --CHHHHHHHHHHHHHHHHHHhCCcEEEEeecCcchhhccCCCCChHHhhcchhhhhcCCEEEEEecccc
Confidence              12234677778888888999999999999998874321111011113467789999999999999753

>TIGR03881 KaiC_arch_4 KaiC domain protein, PAE1156 family

Probab=99.88  E-value=1.6e-21  Score=173.41  Aligned_cols=168  Identities=26%  Similarity=0.320  Sum_probs=126.9

Q ss_pred             ccccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCCh--HHHHHcCCCCC----
Q 021239          100 VISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP--SLAEAMGIDAE----  173 (315)
Q Consensus       100 ~i~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~--~~~~~~g~~~~----  173 (315)
                      +++||+++||++++ ||+++|++++|+|+||+|||+|+.+++.+.+.+|.+|+|+++|++...  .+++.+|++.+    
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 999999999999999999999999999988888999999999998876  35777888754    


Q ss_pred             --CeEEeC-------------CCCHHHHHHHHHHHHHcC--CccEEeehhHhhhccccccCCCccCCChHHHHHHHHHHH
Q 021239          174 --NLLIAQ-------------PDSAENLLSVVDTLTKSG--SIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQAL  236 (315)
Q Consensus       174 --~l~i~~-------------~~~~e~~~~~i~~l~~~~--~~~lVVIDsl~~l~~~~~~~~~~~~~~~~~q~r~i~~~l  236 (315)
                        ++.+.+             ..+.+++...+++.++..  +++++||||++.+...     ++      ...+   +.+
T Consensus        80 ~~~l~i~d~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~vvIDsl~~l~~~-----~~------~~~r---~~~  145 (229)
T TIGR03881        80 EGKLVIIDALMKEKEDEWSLRELSIEELLNKVIEAKKYLGYGHARLVIDSMSAFWLD-----KP------AMAR---KYS  145 (229)
T ss_pred             cCCEEEEEccccccccccccccCCHHHHHHHHHHHHHhhccCceEEEecCchhhhcc-----Ch------HHHH---HHH
Confidence              233332             235677888888777653  5789999999998631     11      1222   345


Q ss_pred             HHHHHHHhccCcEEEEEeccccccCCCCCCCCCccccccccccccccceEEEEEecc
Q 021239          237 RKIHYSLCQSHTLIIFLNQVRFSAKSGQGLGRMDEVTSGGNALKFYAALRLRMMRTR  293 (315)
Q Consensus       237 ~~L~~~~~~~~i~VI~inq~~~~~~~~~~~~~~~~~~~gG~~~~~~~~~rl~l~k~~  293 (315)
                      ..|.+.+++.|+|+|+++|......           ...+....|.+|..|.++...
T Consensus       146 ~~l~~~l~~~~~tvil~~~~~~~~~-----------~~~~~~~~~l~D~vI~L~~~~  191 (229)
T TIGR03881       146 YYLKRVLNRWNFTILLTSQYAITTS-----------QAFGFGIEHVADGIIRFRKVV  191 (229)
T ss_pred             HHHHHHHHhCCCEEEEEecccccCC-----------CCcccceEEEEeEEEEEEEec
Confidence            5666677899999999999643221           111234678889888888654

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.

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

Probab=99.88  E-value=1.6e-21  Score=177.49  Aligned_cols=188  Identities=15%  Similarity=0.144  Sum_probs=137.9

Q ss_pred             CCCccccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHhc-CCeEEEEecCCCCChH--HHHH--cCCC
Q 021239           97 RGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKL-GGYCAYLDVENALDPS--LAEA--MGID  171 (315)
Q Consensus        97 ~~~~i~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~~-g~~v~~i~~E~~~~~~--~~~~--~g~~  171 (315)
                      +.+.+|||++.||.++|  |+++|++++|.|+||+|||+|+.+++.+++.. |.+|+||++|++....  ++..  .|++
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            44589999999999985  99999999999999999999999999999877 9999999999977552  2211  1332


Q ss_pred             C------------------------CCeEEeCCC---CHHHHHHHHHHHHHcCCccEEeehhHhhhccccccCCCccCCC
Q 021239          172 A------------------------ENLLIAQPD---SAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMY  224 (315)
Q Consensus       172 ~------------------------~~l~i~~~~---~~e~~~~~i~~l~~~~~~~lVVIDsl~~l~~~~~~~~~~~~~~  224 (315)
                      .                        .++++.+..   +.+++.+.++.++...++++||||+++.+........      
T Consensus        87 ~~~~~~~~~~~~~~~~~~~~~~~~~~~l~i~d~~~~~~~~~i~~~i~~~~~~~~~~~vvID~l~~l~~~~~~~~------  160 (271)
T cd01122          87 LHLPDTVFIYTLEEFDAAFDEFEGTGRLFMYDSFGEYSMDSVLEKVRYMAVSHGIQHIIIDNLSIMVSDERASG------  160 (271)
T ss_pred             cccCCccccccHHHHHHHHHHhcCCCcEEEEcCCCccCHHHHHHHHHHHHhcCCceEEEECCHHHHhccCCCch------
Confidence            2                        124444322   5778888888888888999999999999873211000      


Q ss_pred             hHHHHHHHHHHHHHHHHHHhccCcEEEEEeccccccCCCCCC-CCC--ccccccccccccccceEEEEEeccc
Q 021239          225 SDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVRFSAKSGQGL-GRM--DEVTSGGNALKFYAALRLRMMRTRL  294 (315)
Q Consensus       225 ~~~q~r~i~~~l~~L~~~~~~~~i~VI~inq~~~~~~~~~~~-~~~--~~~~~gG~~~~~~~~~rl~l~k~~~  294 (315)
                        .....+.++++.|+.++++++|+|++++|+++........ +.+  .....|+..+.+.+|.+|.|.+...
T Consensus       161 --~~~~~~~~~~~~L~~la~~~~vtvll~sq~~~~~~~~~~~~~~~~~~~d~~gs~~i~~~aD~vi~l~r~~~  231 (271)
T cd01122         161 --DERKALDEIMTKLRGFATEHGIHITLVSHLRRPDGDKTHEEGGEVSLSDFRGSAAIGQLADNVIALERNQQ  231 (271)
T ss_pred             --hHHHHHHHHHHHHHHHHHHhCCEEEEEecccCccCCCccccCCCceEEeccCcHhHhhhccEEEEEEecCc
Confidence              1122355667778888899999999999998754221000 001  1224677788999999999998764

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

>PRK05636 replicative DNA helicase; Provisional

Probab=99.88  E-value=6.3e-21  Score=186.71  Aligned_cols=185  Identities=17%  Similarity=0.214  Sum_probs=140.6

Q ss_pred             CCCccccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHH-hcCCeEEEEecCCCCChHHHHHc----CCC
Q 021239           97 RGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQ-KLGGYCAYLDVENALDPSLAEAM----GID  171 (315)
Q Consensus        97 ~~~~i~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~-~~g~~v~~i~~E~~~~~~~~~~~----g~~  171 (315)
                      ...+++||++.||.+++  |+.+|++++|.|+||+|||+|++++|.+++ +.+.+|+||++||+..+...+-+    +++
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            35789999999999875  999999999999999999999999999877 45789999999999876322211    111


Q ss_pred             -------------------------CCCeEEeCC--CCHHHHHHHHHHHHHcCCccEEeehhHhhhccccccCCCccCCC
Q 021239          172 -------------------------AENLLIAQP--DSAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMY  224 (315)
Q Consensus       172 -------------------------~~~l~i~~~--~~~e~~~~~i~~l~~~~~~~lVVIDsl~~l~~~~~~~~~~~~~~  224 (315)
                                               -.++++.+.  .+.+++...++++..++++++||||+|+.+.......       
T Consensus       322 ~~~i~~g~l~~~e~~~~~~a~~~l~~~~l~I~d~~~~ti~~I~~~~r~~~~~~~~~lvvIDYLql~~~~~~~~-------  394 (505)
T PRK05636        322 LSDMRGGKMDEDAWEKLVQRLGKIAQAPIFIDDSANLTMMEIRSKARRLKQKHDLKLIVVDYLQLMSSGKRVE-------  394 (505)
T ss_pred             HHHHhcCCCCHHHHHHHHHHHHHHhcCCEEEECCCCCCHHHHHHHHHHHHHhcCCCEEEEcchHhcCCCCCCC-------
Confidence                                     114555543  3578899999988888899999999999875211100       


Q ss_pred             hHHHHHHHHHHHHHHHHHHhccCcEEEEEeccccccCCCCCCCCCcc--ccccccccccccceEEEEEeccc
Q 021239          225 SDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVRFSAKSGQGLGRMDE--VTSGGNALKFYAALRLRMMRTRL  294 (315)
Q Consensus       225 ~~~q~r~i~~~l~~L~~~~~~~~i~VI~inq~~~~~~~~~~~~~~~~--~~~gG~~~~~~~~~rl~l~k~~~  294 (315)
                        .+..++..+.+.|+.+|++++|+||+++|+++........  .|.  --.++-.+.+.+|+.+.+.|...
T Consensus       395 --~r~~ei~~isr~LK~lAkel~ipVi~lsQLnR~~e~r~dk--rP~lsDLreSG~IEqdAD~vl~l~R~~~  462 (505)
T PRK05636        395 --SRQQEVSEFSRQLKLLAKELDVPLIAISQLNRGPESRTDK--RPQLADLRESGSLEQDADMVMLLYRPDS  462 (505)
T ss_pred             --cHHHHHHHHHHHHHHHHHHhCCeEEEEeecCccccccCCC--CCcHHHHhhcccccccCCEEEEEecccc
Confidence              1223578888899999999999999999999987542110  111  12467789999999999998754

>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=99.88  E-value=1.5e-21  Score=176.78  Aligned_cols=183  Identities=22%  Similarity=0.258  Sum_probs=132.3

Q ss_pred             ccccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHhc-CCeEEEEecCCCCChHH----HHHcCCCCC-
Q 021239          100 VISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKL-GGYCAYLDVENALDPSL----AEAMGIDAE-  173 (315)
Q Consensus       100 ~i~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~~-g~~v~~i~~E~~~~~~~----~~~~g~~~~-  173 (315)
                      +|+||++.||+++|  |+.+|++++|.|+||+|||+|++++|.+++.. +.+|+||++|++.....    +...+++.. 
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            48999999999996  99999999999999999999999999999987 58999999999987632    222233211 


Q ss_pred             ------------------------CeEEeC--CCCHHHHHHHHHHHHHc-CCccEEeehhHhhhccccccCCCccCCChH
Q 021239          174 ------------------------NLLIAQ--PDSAENLLSVVDTLTKS-GSIDVIVVDSVAALIPKCEIGVPINGMYSD  226 (315)
Q Consensus       174 ------------------------~l~i~~--~~~~e~~~~~i~~l~~~-~~~~lVVIDsl~~l~~~~~~~~~~~~~~~~  226 (315)
                                              .+++.+  ..+.+++.+.++.+... .++++||||+++.+.+.....+      . 
T Consensus        79 i~~g~l~~~e~~~~~~~~~~l~~~~l~i~~~~~~~~~~i~~~i~~~~~~~~~~~~v~IDyl~ll~~~~~~~~------~-  151 (259)
T PF03796_consen   79 IRSGDLSDEEFERLQAAAEKLSDLPLYIEDTPSLTIDDIESKIRRLKREGKKVDVVFIDYLQLLKSEDSSDN------R-  151 (259)
T ss_dssp             HHCCGCHHHHHHHHHHHHHHHHTSEEEEEESSS-BHHHHHHHHHHHHHHSTTEEEEEEEEGGGSBTSCSSSC------C-
T ss_pred             hhccccCHHHHHHHHHHHHHHhhCcEEEECCCCCCHHHHHHHHHHHHhhccCCCEEEechHHHhcCCCCCCC------H-
Confidence                                    234433  23678888888888776 8899999999998874321111      1 


Q ss_pred             HHHHHHHHHHHHHHHHHhccCcEEEEEeccccccCCCCCCCCCc--cccccccccccccceEEEEEecccc
Q 021239          227 AQSRIMTQALRKIHYSLCQSHTLIIFLNQVRFSAKSGQGLGRMD--EVTSGGNALKFYAALRLRMMRTRLF  295 (315)
Q Consensus       227 ~q~r~i~~~l~~L~~~~~~~~i~VI~inq~~~~~~~~~~~~~~~--~~~~gG~~~~~~~~~rl~l~k~~~~  295 (315)
                        ...+....+.|+.+|++++++||+++|+++......  ...|  ....++-.+.+.+|+.+.+.|.+..
T Consensus       152 --~~~~~~i~~~Lk~lA~~~~i~vi~~sQlnr~~~~~~--~~~p~l~dl~~sg~Ie~~AD~vl~l~r~~~~  218 (259)
T PF03796_consen  152 --RQEIGEISRELKALAKELNIPVIALSQLNREAEDRE--DKRPSLSDLRESGAIEQDADVVLFLHRDEKY  218 (259)
T ss_dssp             --HHHHHHHHHHHHHHHHHHTSEEEEEEEBSGGGGGSS--SCS--HHHHCSTSSHHHH-SEEEEEEEHCHC
T ss_pred             --HHHHHHHHHHHHHHHHHcCCeEEEccccChhhhccc--ccccchhhhhhhHHHHHHHhhhhhhccchhh
Confidence              123556677777778999999999999998763311  1011  1124677899999999999998754

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 ....

>PHA02542 41 41 helicase; Provisional

Probab=99.87  E-value=1.8e-21  Score=189.18  Aligned_cols=189  Identities=15%  Similarity=0.123  Sum_probs=140.9

Q ss_pred             CCCccccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCChH--HH--HHcCCCC
Q 021239           97 RGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPS--LA--EAMGIDA  172 (315)
Q Consensus        97 ~~~~i~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~~--~~--~~~g~~~  172 (315)
                      ...+++||++.||.+++ ||+.+|++++|+|+||+|||+|++++|.++++.|.+|+||++||+..+.  |+  ...+++.
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 8999999999999999999999999999998889999999999998863  21  2233332


Q ss_pred             C-----------------------CeEEeC----CCCHHHHHHHHHHHHHcCC--ccEEeehhHhhhccccccCCCccCC
Q 021239          173 E-----------------------NLLIAQ----PDSAENLLSVVDTLTKSGS--IDVIVVDSVAALIPKCEIGVPINGM  223 (315)
Q Consensus       173 ~-----------------------~l~i~~----~~~~e~~~~~i~~l~~~~~--~~lVVIDsl~~l~~~~~~~~~~~~~  223 (315)
                      +                       ++++..    ..+..++...++++....+  +++||||+++.+.+ ....... + 
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            1                       233332    1256788888888765444  89999999998862 1111111 1 


Q ss_pred             ChHHHHHHHHHHHHHHHHHHhccCcEEEEEeccccccCCCCCCCCCccccccccccccccceEEEEEeccc
Q 021239          224 YSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVRFSAKSGQGLGRMDEVTSGGNALKFYAALRLRMMRTRL  294 (315)
Q Consensus       224 ~~~~q~r~i~~~l~~L~~~~~~~~i~VI~inq~~~~~~~~~~~~~~~~~~~gG~~~~~~~~~rl~l~k~~~  294 (315)
                         ....++..+.+.|+.+|++++|+||+++|+++.......  +.-.-..++..+.+.+|..+.+.|...
T Consensus       324 ---nr~~ei~~Isr~LK~lAkel~vpVi~lsQLnR~~e~r~d--P~lsDLreSG~IEqdAD~vl~l~r~~~  389 (473)
T PHA02542        324 ---NSYTYVKAIAEELRGLAVEHDVVVWTAAQTTRSGWDSSD--VDMSDTAESAGLPATADFMLAVIETEE  389 (473)
T ss_pred             ---ChHHHHHHHHHHHHHHHHHhCCeEEEEEeeCccccccCC--CcchhcccccchHhhcCEEEEEecCcc
Confidence               123357788888888889999999999999998754221  111223567788999999999988653

>PRK08840 replicative DNA helicase; Provisional

Probab=99.87  E-value=2.2e-20  Score=181.50  Aligned_cols=187  Identities=14%  Similarity=0.178  Sum_probs=139.2

Q ss_pred             CCCccccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHh-cCCeEEEEecCCCCChHHHHH----cCCC
Q 021239           97 RGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQK-LGGYCAYLDVENALDPSLAEA----MGID  171 (315)
Q Consensus        97 ~~~~i~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~-~g~~v~~i~~E~~~~~~~~~~----~g~~  171 (315)
                      ...+++||++.||.+++  |+.+|++++|+|+||+|||+|++++|.+++. .|.+|+||++||+..+...+-    -+++
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 588999999999987632211    1221


Q ss_pred             C--------------------------CCeEEeCC--CCHHHHHHHHHHHHHcC-CccEEeehhHhhhccccccCCCccC
Q 021239          172 A--------------------------ENLLIAQP--DSAENLLSVVDTLTKSG-SIDVIVVDSVAALIPKCEIGVPING  222 (315)
Q Consensus       172 ~--------------------------~~l~i~~~--~~~e~~~~~i~~l~~~~-~~~lVVIDsl~~l~~~~~~~~~~~~  222 (315)
                      .                          .++++.+.  .+..++...++++..++ ++++||||+|+.+.....  .+   
T Consensus       274 ~~~i~~~~l~~~e~~~~~~a~~~l~~~~~l~I~d~~~~ti~~i~~~~r~~~~~~~~~~lvvIDYLql~~~~~~--~~---  348 (464)
T PRK08840        274 QTKIRTGQLDDEDWARISSTMGILMEKKNMYIDDSSGLTPTEVRSRARRIAREHGGLSMIMVDYLQLMRVPAL--SD---  348 (464)
T ss_pred             HHHHhcCCCCHHHHHHHHHHHHHHHhcCCEEEECCCCCCHHHHHHHHHHHHHhcCCCCEEEEccHHhcCCCCC--CC---
Confidence            1                          14555543  35778888888887654 589999999998752111  00   


Q ss_pred             CChHHHHHHHHHHHHHHHHHHhccCcEEEEEeccccccCCCCCCCCCccccccccccccccceEEEEEeccc
Q 021239          223 MYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVRFSAKSGQGLGRMDEVTSGGNALKFYAALRLRMMRTRL  294 (315)
Q Consensus       223 ~~~~~q~r~i~~~l~~L~~~~~~~~i~VI~inq~~~~~~~~~~~~~~~~~~~gG~~~~~~~~~rl~l~k~~~  294 (315)
                          ....++..+.+.|+.+|++++|+||+++|+++.........+.-.--.++..+...+|+.+.+.|...
T Consensus       349 ----~r~~ei~~isr~LK~lAkel~ipVi~LsQLnR~~e~r~~krP~lsDLreSG~IEqdAD~v~~l~R~~~  416 (464)
T PRK08840        349 ----NRTLEIAEISRSLKALAKELNVPVVALSQLNRSLEQRADKRPVNSDLRESGSIEQDADLIMFIYRDEV  416 (464)
T ss_pred             ----chHHHHHHHHHHHHHHHHHhCCeEEEEEecCccccccCCCCCchHhhhhcccccccCCEEEEEecccc
Confidence                12235778888888889999999999999998874421110001113467789999999999999754

>PRK05973 replicative DNA helicase; Provisional

Probab=99.87  E-value=1.9e-21  Score=172.53  Aligned_cols=167  Identities=20%  Similarity=0.249  Sum_probs=121.2

Q ss_pred             HHHHHHHHHHHhhCcccccccccccCCCCCCccccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHhcC
Q 021239           69 ALRLALSQLANDFGKESMLSLKRFFGSRRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLG  148 (315)
Q Consensus        69 ~l~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~i~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g  148 (315)
                      .+|.+|++++..-|-..+.-+..    .    .+-..| .|++.  ||+++|++++|+|+||+|||+|+++++.+++++|
T Consensus        24 ~~~~~~~~~a~~~g~~~w~~~~~----~----~~~~~p-~~~l~--GGl~~Gsl~LIaG~PG~GKT~lalqfa~~~a~~G   92 (237)
T PRK05973         24 PLHEALDRIAAEEGFSSWSLLAA----K----AAATTP-AEELF--SQLKPGDLVLLGARPGHGKTLLGLELAVEAMKSG   92 (237)
T ss_pred             cHHHHHHHHHHHhccchHHHHHH----h----ccCCCC-HHHhc--CCCCCCCEEEEEeCCCCCHHHHHHHHHHHHHhcC
Confidence            57889999987655544422221    1    111112 67755  5999999999999999999999999999999999


Q ss_pred             CeEEEEecCCCCCh--HHHHHcCCCCCCe----EEeC--CCCHHHHHHHHHHHHHcCCccEEeehhHhhhccccccCCCc
Q 021239          149 GYCAYLDVENALDP--SLAEAMGIDAENL----LIAQ--PDSAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPI  220 (315)
Q Consensus       149 ~~v~~i~~E~~~~~--~~~~~~g~~~~~l----~i~~--~~~~e~~~~~i~~l~~~~~~~lVVIDsl~~l~~~~~~~~~~  220 (315)
                      ++|+||++|++..+  .++..+|++.+++    .+..  ..+.++   .+++++...++++|||||++.+...  ...  
T Consensus        93 e~vlyfSlEes~~~i~~R~~s~g~d~~~~~~~~~~d~~d~~~~~~---ii~~l~~~~~~~lVVIDsLq~l~~~--~~~--  165 (237)
T PRK05973         93 RTGVFFTLEYTEQDVRDRLRALGADRAQFADLFEFDTSDAICADY---IIARLASAPRGTLVVIDYLQLLDQR--REK--  165 (237)
T ss_pred             CeEEEEEEeCCHHHHHHHHHHcCCChHHhccceEeecCCCCCHHH---HHHHHHHhhCCCEEEEEcHHHHhhc--ccc--
Confidence            99999999999876  5777888886643    2222  223333   4455555567899999999988521  110  


Q ss_pred             cCCChHHHHHHHHHHHHHHHHHHhccCcEEEEEeccccccCC
Q 021239          221 NGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVRFSAKS  262 (315)
Q Consensus       221 ~~~~~~~q~r~i~~~l~~L~~~~~~~~i~VI~inq~~~~~~~  262 (315)
                               .++...++.|+.+++++|+|||+++|+.+..+.
T Consensus       166 ---------~el~~~~~~Lk~~Ak~~gitvIl~sQl~r~~e~  198 (237)
T PRK05973        166 ---------PDLSVQVRALKSFARERGLIIVFISQIDRSFDP  198 (237)
T ss_pred             ---------hhHHHHHHHHHHHHHhCCCeEEEEecCcccccc
Confidence                     124455677888889999999999999988754

>PRK06749 replicative DNA helicase; Provisional

Probab=99.86  E-value=3.9e-20  Score=178.29  Aligned_cols=188  Identities=20%  Similarity=0.190  Sum_probs=138.8

Q ss_pred             CCCccccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCChHHHHHc----CCCC
Q 021239           97 RGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAM----GIDA  172 (315)
Q Consensus        97 ~~~~i~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~~~~~~~----g~~~  172 (315)
                      ...+++||++.||.+++  |+.+|++++|+|+||+|||+|+++++.+++..|.+|+||++||+..+...+-+    +++.
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            45789999999999986  99999999999999999999999999999988899999999999876322211    1110


Q ss_pred             ---------------------------CCeEEeCC--CCHHHHHHHHHHHHHcCC--ccEEeehhHhhhccccccCCCcc
Q 021239          173 ---------------------------ENLLIAQP--DSAENLLSVVDTLTKSGS--IDVIVVDSVAALIPKCEIGVPIN  221 (315)
Q Consensus       173 ---------------------------~~l~i~~~--~~~e~~~~~i~~l~~~~~--~~lVVIDsl~~l~~~~~~~~~~~  221 (315)
                                                 -++++.+.  .+.+++...++++...++  +.+||||+|+.+..... .   .
T Consensus       243 ~~l~~~~~~l~~~e~~~~~~a~~~l~~~~i~i~d~~~~t~~~I~~~~r~~~~~~~~~~~lvvIDyLqli~~~~~-~---~  318 (428)
T PRK06749        243 GRLKNPKHRFAMEDWEKVSKAFAEIGELPLEIYDNAGVTVQDIWMQTRKLKRKHGDKKILIIVDYLQLITGDPK-H---K  318 (428)
T ss_pred             HHHhcCcccCCHHHHHHHHHHHHHHhcCCEEEECCCCCCHHHHHHHHHHHHHhcCCCCcEEEEeChhhcCCCCC-C---C
Confidence                                       02445443  256788888888876655  55999999998752111 0   0


Q ss_pred             CCChHHHHHHHHHHHHHHHHHHhccCcEEEEEeccccccCCCCCCCCCccccccccccccccceEEEEEeccc
Q 021239          222 GMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVRFSAKSGQGLGRMDEVTSGGNALKFYAALRLRMMRTRL  294 (315)
Q Consensus       222 ~~~~~~q~r~i~~~l~~L~~~~~~~~i~VI~inq~~~~~~~~~~~~~~~~~~~gG~~~~~~~~~rl~l~k~~~  294 (315)
                      +    ....++..+.+.|+.+|++++|+||+++|+++...+.....+.-.--.++..+...+|..+.+.|...
T Consensus       319 ~----~r~~ei~~isr~LK~lAkel~vpVi~lsQLnR~~e~r~~krP~lsDLR~SG~IEqdAD~vl~l~R~~~  387 (428)
T PRK06749        319 G----NRFQEISEISRKLKLLARELNVCVVALSQLSRSVESRQDKRPLLSDLRETGQIEQDADVIMLMYREDY  387 (428)
T ss_pred             C----CHHHHHHHHHHHHHHHHHHhCCeEEEEEecCccccccCCCCCchHhhhhcccccccCCEEEEEeeccc
Confidence            0    12335778888888889999999999999999875421110000112367788999999999999764

>PRK06904 replicative DNA helicase; Validated

Probab=99.86  E-value=6.3e-20  Score=178.74  Aligned_cols=187  Identities=16%  Similarity=0.192  Sum_probs=138.4

Q ss_pred             CCCccccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHh-cCCeEEEEecCCCCChHHHHHc----CCC
Q 021239           97 RGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQK-LGGYCAYLDVENALDPSLAEAM----GID  171 (315)
Q Consensus        97 ~~~~i~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~-~g~~v~~i~~E~~~~~~~~~~~----g~~  171 (315)
                      ...+++||+++||.+++  |+++|++++|+|+||+|||+|++++|.+++. .|.+|+||++||+..+...+-+    +++
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            46789999999999986  9999999999999999999999999999875 5889999999999876322111    111


Q ss_pred             ---------------------------CCCeEEeCC--CCHHHHHHHHHHHHHcC-CccEEeehhHhhhccccccCCCcc
Q 021239          172 ---------------------------AENLLIAQP--DSAENLLSVVDTLTKSG-SIDVIVVDSVAALIPKCEIGVPIN  221 (315)
Q Consensus       172 ---------------------------~~~l~i~~~--~~~e~~~~~i~~l~~~~-~~~lVVIDsl~~l~~~~~~~~~~~  221 (315)
                                                 ..++++.+.  .+..++...++++.... ++++||||+|+.+... ...+   
T Consensus       278 ~~~i~~g~~l~~~e~~~~~~a~~~l~~~~~l~I~d~~~~t~~~i~~~~r~~~~~~~~~~lvvIDYLqli~~~-~~~~---  353 (472)
T PRK06904        278 QTKIRTGQNLDQQDWAKISSTVGMFKQKPNLYIDDSSGLTPTELRSRARRVYRENGGLSLIMVDYLQLMRAP-GFED---  353 (472)
T ss_pred             HHHhccCCCCCHHHHHHHHHHHHHHhcCCCEEEECCCCCCHHHHHHHHHHHHHhCCCCCEEEEecHHhcCCC-CCCC---
Confidence                                       113555543  36778888888876654 6999999999987531 1100   


Q ss_pred             CCChHHHHHHHHHHHHHHHHHHhccCcEEEEEeccccccCCCCCCCCCccccccccccccccceEEEEEeccc
Q 021239          222 GMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVRFSAKSGQGLGRMDEVTSGGNALKFYAALRLRMMRTRL  294 (315)
Q Consensus       222 ~~~~~~q~r~i~~~l~~L~~~~~~~~i~VI~inq~~~~~~~~~~~~~~~~~~~gG~~~~~~~~~rl~l~k~~~  294 (315)
                           ....++..+.+.|+.+|++++|+||+++|+++.+.......+.-.--.++-.+...+|..+.+.|...
T Consensus       354 -----~r~~ei~~isr~LK~lAkel~ipVi~lsQLnR~~e~r~~krP~lsDLreSG~IEqdAD~v~~l~R~~~  421 (472)
T PRK06904        354 -----NRTLEIAEISRSLKALAKELKVPVVALSQLNRTLENRGDKRPVNSDLRESGSIEQDADLIMFIYRDEV  421 (472)
T ss_pred             -----cHHHHHHHHHHHHHHHHHHhCCeEEEEEecCchhhccCCCCCchHHHhhcCccccCCcEEEEEecccc
Confidence                 12234677888888888999999999999998874421110000113467788999999999999754

>PRK06067 flagellar accessory protein FlaH; Validated

Probab=99.86  E-value=1.3e-20  Score=168.26  Aligned_cols=146  Identities=25%  Similarity=0.328  Sum_probs=111.7

Q ss_pred             CCCccccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCCh--HHHHHcCCCCCC
Q 021239           97 RGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP--SLAEAMGIDAEN  174 (315)
Q Consensus        97 ~~~~i~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~--~~~~~~g~~~~~  174 (315)
                      ..+.++||++.||.+|+ ||+|+|++++|+|+||+|||+|+.+++.+.+++|++|+|+++|+++..  ..++++|++...
T Consensus         3 ~~~~~~tGi~~LD~~l~-gG~~~g~~~~i~G~~GsGKt~l~~~~~~~~~~~g~~~~y~~~e~~~~~~~~~~~~~g~~~~~   81 (234)
T PRK06067          3 KKEIISTGNEELDRKLG-GGIPFPSLILIEGDHGTGKSVLSQQFVYGALKQGKKVYVITTENTSKSYLKQMESVKIDISD   81 (234)
T ss_pred             CceEEecCCHHHHHhhC-CCCcCCcEEEEECCCCCChHHHHHHHHHHHHhCCCEEEEEEcCCCHHHHHHHHHHCCCChhH
Confidence            45679999999999999 999999999999999999999999999999889999999999998776  456778887653


Q ss_pred             e------EEeC---------CCCHHHHHHHHHHHHHcCCccEEeehhHhhhccccccCCCccCCChHHHHHHHHHHHHHH
Q 021239          175 L------LIAQ---------PDSAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKI  239 (315)
Q Consensus       175 l------~i~~---------~~~~e~~~~~i~~l~~~~~~~lVVIDsl~~l~~~~~~~~~~~~~~~~~q~r~i~~~l~~L  239 (315)
                      .      .+..         ....++++..+.+.+++.+++++||||++.+...  ..           ...+.+++..+
T Consensus        82 ~~~~g~l~i~~~~~~~~~~~~~~~~~ll~~l~~~i~~~~~~~iviDs~t~~~~~--~~-----------~~~~~~~l~~l  148 (234)
T PRK06067         82 FFLWGYLRIFPLNTEGFEWNSTLANKLLELIIEFIKSKREDVIIIDSLTIFATY--AE-----------EDDILNFLTEA  148 (234)
T ss_pred             HHhCCCceEEeccccccccCcchHHHHHHHHHHHHHhcCCCEEEEecHHHHHhc--CC-----------HHHHHHHHHHH
Confidence            2      2211         2344678888888888889999999999977521  00           01133444434


Q ss_pred             HHHHhccCcEEEEEeccc
Q 021239          240 HYSLCQSHTLIIFLNQVR  257 (315)
Q Consensus       240 ~~~~~~~~i~VI~inq~~  257 (315)
                      ..+ ++.+++++++.|..
T Consensus       149 ~~l-~~~g~tvllt~~~~  165 (234)
T PRK06067        149 KNL-VDLGKTILITLHPY  165 (234)
T ss_pred             HHH-HhCCCEEEEEecCC
Confidence            322 45689999998864

>PRK07004 replicative DNA helicase; Provisional

Probab=99.85  E-value=2.5e-20  Score=181.28  Aligned_cols=187  Identities=16%  Similarity=0.195  Sum_probs=139.4

Q ss_pred             CCCccccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHH-hcCCeEEEEecCCCCChHHHHHc----CCC
Q 021239           97 RGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQ-KLGGYCAYLDVENALDPSLAEAM----GID  171 (315)
Q Consensus        97 ~~~~i~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~-~~g~~v~~i~~E~~~~~~~~~~~----g~~  171 (315)
                      ...+++||++.||++++  |+++|++++|+|+||+|||+|+++++.+++ ..|.+|+||++||+..+...+.+    +++
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  999999999999999999999999999876 46889999999999887332221    121


Q ss_pred             C-------------------------CCeEEeCC--CCHHHHHHHHHHHHHcC-CccEEeehhHhhhccccccCCCccCC
Q 021239          172 A-------------------------ENLLIAQP--DSAENLLSVVDTLTKSG-SIDVIVVDSVAALIPKCEIGVPINGM  223 (315)
Q Consensus       172 ~-------------------------~~l~i~~~--~~~e~~~~~i~~l~~~~-~~~lVVIDsl~~l~~~~~~~~~~~~~  223 (315)
                      .                         .++++.+.  .+..++...++++..+. ++++||||+|+.+.....     +. 
T Consensus       270 ~~~i~~g~l~~~e~~~~~~a~~~l~~~~l~I~d~~~~~~~~i~~~~r~l~~~~~~~~lviIDYLql~~~~~~-----~~-  343 (460)
T PRK07004        270 QHRMRTGRLTDEDWPKLTHAVQKMSEAQLFIDETGGLNPMELRSRARRLARQCGKLGLIIIDYLQLMSGSSQ-----GE-  343 (460)
T ss_pred             HHHHhcCCCCHHHHHHHHHHHHHHhcCCEEEECCCCCCHHHHHHHHHHHHHhCCCCCEEEEChhhhccCCCC-----CC-
Confidence            1                         13455443  35678888888887654 589999999998863211     11 


Q ss_pred             ChHHHHHHHHHHHHHHHHHHhccCcEEEEEeccccccCCCCCCCCCccccccccccccccceEEEEEeccc
Q 021239          224 YSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVRFSAKSGQGLGRMDEVTSGGNALKFYAALRLRMMRTRL  294 (315)
Q Consensus       224 ~~~~q~r~i~~~l~~L~~~~~~~~i~VI~inq~~~~~~~~~~~~~~~~~~~gG~~~~~~~~~rl~l~k~~~  294 (315)
                         ....++..+.+.|+.+|++++|+||+++|+++.........+.-.--.++.++...+|.++.+.|...
T Consensus       344 ---~r~~ei~~Isr~LK~lAkel~ipVi~lsQLnR~~e~r~~krP~lsDLreSg~IeqdAD~v~~l~R~~~  411 (460)
T PRK07004        344 ---NRATEISEISRSLKSLAKELDVPVIALSQLNRGLEQRPNKRPVMSDLRESGAIEQDADVILFIYRDEV  411 (460)
T ss_pred             ---cHHHHHHHHHHHHHHHHHHhCCeEEEEeccChhhhccCCCCCChHHHhcchhhhhcCCEEEEeccccc
Confidence               12345788888899999999999999999998874321110001112466779999999999999764

>cd00984 DnaB_C DnaB helicase C terminal domain

Probab=99.84  E-value=3.7e-20  Score=165.73  Aligned_cols=177  Identities=20%  Similarity=0.258  Sum_probs=130.4

Q ss_pred             HHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHhc-CCeEEEEecCCCCChHHH----HHcCCCCC--------
Q 021239          107 KLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKL-GGYCAYLDVENALDPSLA----EAMGIDAE--------  173 (315)
Q Consensus       107 ~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~~-g~~v~~i~~E~~~~~~~~----~~~g~~~~--------  173 (315)
                      +||.+++  |+++|++++|+|+||+|||+|+++++.+++.+ |.+|+||++|++....+.    ...+++..        
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            6899986  99999999999999999999999999999987 999999999998876322    22344321        


Q ss_pred             -----------------CeEEeC--CCCHHHHHHHHHHHHHcCCccEEeehhHhhhccccccCCCccCCChHHHHHHHHH
Q 021239          174 -----------------NLLIAQ--PDSAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQ  234 (315)
Q Consensus       174 -----------------~l~i~~--~~~~e~~~~~i~~l~~~~~~~lVVIDsl~~l~~~~~~~~~~~~~~~~~q~r~i~~  234 (315)
                                       ++++..  ..+.+++.+.++.+++..++++|||||++.+....  ..   .    .....+..
T Consensus        80 ~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~l~~~i~~~~~~~~~~~vvID~l~~l~~~~--~~---~----~~~~~~~~  150 (242)
T cd00984          80 DEDWERLAEAIGELKELPIYIDDSSSLTVSDIRSRARRLKKEHGLGLIVIDYLQLMSGSK--KK---G----NRQQEVAE  150 (242)
T ss_pred             HHHHHHHHHHHHHHhcCCEEEeCCCCCCHHHHHHHHHHHHHhcCCCEEEEcCchhcCCCC--CC---C----CHHHHHHH
Confidence                             223322  24678888888888888899999999999876321  00   0    11233566


Q ss_pred             HHHHHHHHHhccCcEEEEEeccccccCCCCCCCCCccccccccccccccceEEEEEeccc
Q 021239          235 ALRKIHYSLCQSHTLIIFLNQVRFSAKSGQGLGRMDEVTSGGNALKFYAALRLRMMRTRL  294 (315)
Q Consensus       235 ~l~~L~~~~~~~~i~VI~inq~~~~~~~~~~~~~~~~~~~gG~~~~~~~~~rl~l~k~~~  294 (315)
                      +++.|+.+++++|+++|+++|+.+.......-.+......|+..+.+.+|..+.+.+.+.
T Consensus       151 ~~~~L~~la~~~~~~ii~~~q~~r~~~~~~~~~~~~~~~~gS~~i~~~aD~vi~l~~~~~  210 (242)
T cd00984         151 ISRSLKLLAKELNVPVIALSQLSRGVESRADKRPMLSDLRESGSIEQDADVVMFLYRDEY  210 (242)
T ss_pred             HHHHHHHHHHHhCCeEEEecccChhhhccCCCCCCHHHHhhhcccccCCCEEEEEecccc
Confidence            777888888999999999999987642211000011234567788999999999999863

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.

>PRK09302 circadian clock protein KaiC; Reviewed

Probab=99.84  E-value=3.3e-20  Score=183.32  Aligned_cols=150  Identities=23%  Similarity=0.284  Sum_probs=118.7

Q ss_pred             CCCCccccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHhc-CCeEEEEecCCCCCh--HHHHHcCCCC
Q 021239           96 RRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKL-GGYCAYLDVENALDP--SLAEAMGIDA  172 (315)
Q Consensus        96 ~~~~~i~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~~-g~~v~~i~~E~~~~~--~~~~~~g~~~  172 (315)
                      ...++++||+++||++|+ ||+|+|++++|+|+||+|||+|+++++.+.+.+ |++|+||++|++..+  ..+..+|++.
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            356789999999999999 999999999999999999999999999998887 999999999999887  4677788875


Q ss_pred             CC------eEEeCC------------CCHHHHHHHHHHHHHcCCccEEeehhHhhhccccccCCCccCCChHHHHHHHHH
Q 021239          173 EN------LLIAQP------------DSAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQ  234 (315)
Q Consensus       173 ~~------l~i~~~------------~~~e~~~~~i~~l~~~~~~~lVVIDsl~~l~~~~~~~~~~~~~~~~~q~r~i~~  234 (315)
                      ++      +.+.+.            .+.+++++.+.+.+...+++.|||||++.+...  .+..       .   .+.+
T Consensus        87 ~~~~~~g~l~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~i~~~~~~~vVIDSls~l~~~--~d~~-------~---~~r~  154 (509)
T PRK09302         87 QKLIDEGKLFILDASPDPSEQEEAGEYDLEALFIRIEYAIDKIGAKRVVLDSIEALFSG--FSNE-------A---VVRR  154 (509)
T ss_pred             HHHhhCCeEEEEecCcccccccccccccHHHHHHHHHHHHHhhCCCEEEECCHHHHHhh--ccCH-------H---HHHH
Confidence            43      333221            134567778888888889999999999987631  1110       1   1234


Q ss_pred             HHHHHHHHHhccCcEEEEEecccc
Q 021239          235 ALRKIHYSLCQSHTLIIFLNQVRF  258 (315)
Q Consensus       235 ~l~~L~~~~~~~~i~VI~inq~~~  258 (315)
                      .+.++.+.+++.|+|++++.|...
T Consensus       155 ~l~~L~~~Lk~~g~TvLlt~~~~~  178 (509)
T PRK09302        155 ELRRLFAWLKQKGVTAVITGERGD  178 (509)
T ss_pred             HHHHHHHHHHhCCCEEEEEECCcc
Confidence            566666667889999999998754

>TIGR03880 KaiC_arch_3 KaiC domain protein, AF_0351 family

Probab=99.84  E-value=6e-20  Score=162.76  Aligned_cols=164  Identities=23%  Similarity=0.331  Sum_probs=118.0

Q ss_pred             CcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCCh--HHHHHcCCCCC-----CeE
Q 021239          104 GSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP--SLAEAMGIDAE-----NLL  176 (315)
Q Consensus       104 G~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~--~~~~~~g~~~~-----~l~  176 (315)
                      |+++||++++ ||+++|++++|.|+||+|||+||++++.+.+++|++|+|+++|+++..  .++..+|++.+     ++.
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 999999999999999999999999999999999999999999998876  56777887754     255


Q ss_pred             EeCCCC------HHHHHHHHHHHHHcCCccEEeehhHhhhccccccCCCccCCChHHHHHHHHHHHHHHHHHHhccCcEE
Q 021239          177 IAQPDS------AENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLI  250 (315)
Q Consensus       177 i~~~~~------~e~~~~~i~~l~~~~~~~lVVIDsl~~l~~~~~~~~~~~~~~~~~q~r~i~~~l~~L~~~~~~~~i~V  250 (315)
                      +.+..+      .+++...++..+++.+++++||||++.+.+  .....       ..   ..+.+..+.+.+++.|+++
T Consensus        80 ~~~~~~~~~~~~~~~l~~~~~~~i~~~~~~~vVIDsls~l~~--~~~~~-------~~---~r~~l~~l~~~lk~~~~tv  147 (224)
T TIGR03880        80 IVRLDPSDFKTSLNRIKNELPILIKELGASRVVIDPISLLET--LFDDD-------AE---RRTELFRFYSSLRETGVTT  147 (224)
T ss_pred             EEecCHHHHHhhHHHHHHHHHHHHHHhCCCEEEEcChHHHhh--hcCCH-------HH---HHHHHHHHHHHHHhCCCEE
Confidence            554332      334555566677778899999999998842  11110       11   1123334444447889999


Q ss_pred             EEEeccccccCCCCCCCCCccccccccccccccceEEEEE
Q 021239          251 IFLNQVRFSAKSGQGLGRMDEVTSGGNALKFYAALRLRMM  290 (315)
Q Consensus       251 I~inq~~~~~~~~~~~~~~~~~~~gG~~~~~~~~~rl~l~  290 (315)
                      +++.|......    +   .. .  -....+.+|..+.++
T Consensus       148 ll~s~~~~~~~----~---~~-~--~~~~~~l~D~vI~L~  177 (224)
T TIGR03880       148 ILTSEADKTNV----F---AS-K--YGLIEYLADGVIILK  177 (224)
T ss_pred             EEEEcccCCCC----C---cc-C--CCceEEEEeEEEEEe
Confidence            99999864210    0   00 0  122567777777775

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.

>TIGR02655 circ_KaiC circadian clock protein KaiC

Probab=99.84  E-value=3e-20  Score=182.19  Aligned_cols=148  Identities=18%  Similarity=0.219  Sum_probs=113.5

Q ss_pred             CccccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHhc-CCeEEEEecCCCCCh--HHHHHcCCCCC--
Q 021239           99 PVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKL-GGYCAYLDVENALDP--SLAEAMGIDAE--  173 (315)
Q Consensus        99 ~~i~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~~-g~~v~~i~~E~~~~~--~~~~~~g~~~~--  173 (315)
                      ++++||+++||++|+ ||+++|++++|.|+||+|||+||+|++.+.+.+ |++|+|+++|++...  ..++++|++.+  
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 999999999999999999999999999988776 899999999998877  46888998765  


Q ss_pred             ----CeEEeCC------------CCHHHHHHHHHHHHHcCCccEEeehhHhhhccccccCCCccCCChHHHHHHHHHHHH
Q 021239          174 ----NLLIAQP------------DSAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALR  237 (315)
Q Consensus       174 ----~l~i~~~------------~~~e~~~~~i~~l~~~~~~~lVVIDsl~~l~~~~~~~~~~~~~~~~~q~r~i~~~l~  237 (315)
                          ++.+.+.            ...+++.+.+...+...+++.|+|||+..+....+  ..       ..   ..+.+.
T Consensus        80 ~~~g~l~~~~~~~~~~~~~~~~~~~l~~~l~~i~~~ls~g~~qRVvIDSl~aL~~~~~--~~-------~~---~r~~l~  147 (484)
T TIGR02655        80 VDEGKLFILDASPDPEGQDVVGGFDLSALIERINYAIRKYKAKRVSIDSVTAVFQQYD--AV-------SV---VRREIF  147 (484)
T ss_pred             hhcCceEEEecCchhccccccccCCHHHHHHHHHHHHHHhCCcEEEEeehhHhhhhcC--ch-------HH---HHHHHH
Confidence                3444332            23456666777777888999999999998763111  10       11   112333


Q ss_pred             HHHHHHhccCcEEEEEeccccc
Q 021239          238 KIHYSLCQSHTLIIFLNQVRFS  259 (315)
Q Consensus       238 ~L~~~~~~~~i~VI~inq~~~~  259 (315)
                      .+.+.+++.|+|+++++|....
T Consensus       148 ~Li~~L~~~g~TvLLtsh~~~~  169 (484)
T TIGR02655       148 RLVARLKQIGVTTVMTTERIEE  169 (484)
T ss_pred             HHHHHHHHCCCEEEEEecCccc
Confidence            4444447789999999998654

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.

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

Probab=99.81  E-value=2.1e-20  Score=171.65  Aligned_cols=192  Identities=23%  Similarity=0.329  Sum_probs=147.3

Q ss_pred             CCCCccccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCCh----HHHHHcCCC
Q 021239           96 RRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP----SLAEAMGID  171 (315)
Q Consensus        96 ~~~~~i~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~----~~~~~~g~~  171 (315)
                      .....++||+.+||.+|+ ||++.|.+++|+||||+|||+||+.++..+.-.+++++|+|.+..+..    .++.+.+..
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            356779999999999999 999999999999999999999998888887555679999999986543    455666554


Q ss_pred             CC----CeEEeCCCCHHHHH---HHHHHHHHcCCccEEeehhHhhhccccccCCCccCCChHHHHHHHHHHHHHHHHHHh
Q 021239          172 AE----NLLIAQPDSAENLL---SVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLC  244 (315)
Q Consensus       172 ~~----~l~i~~~~~~e~~~---~~i~~l~~~~~~~lVVIDsl~~l~~~~~~~~~~~~~~~~~q~r~i~~~l~~L~~~~~  244 (315)
                      ..    ++.+.+....++..   ........+....++++||..+.+. ..+.+ .+ ..... .+.++..++.+++++.
T Consensus       167 ~~~~~~~l~~~~~~~~~~~l~~~~~a~~~~~~~~~~l~~vds~ta~~~-~~~~g-~~-~~~a~-~~~~~~~~~~l~~la~  242 (326)
T KOG1433|consen  167 GRDTLSNLMLARAYNLDHQLQLIQEAEIMINQSRVKLLIVDSATALYR-TTFKG-RG-ELSAR-QMLLAKFLRSLKKLAD  242 (326)
T ss_pred             hHHHHHHHHHHHHHhhHHHHHHHHHHHHHhhccceeEEEecccccccc-ccccc-cc-chHHH-HHHHHHHHHHHHHHHH
Confidence            44    33333333333222   2222334455789999999999984 45444 21 22222 2336778888888899


Q ss_pred             ccCcEEEEEeccccccCCCCCCCCCccccccccccccccceEEEEEec
Q 021239          245 QSHTLIIFLNQVRFSAKSGQGLGRMDEVTSGGNALKFYAALRLRMMRT  292 (315)
Q Consensus       245 ~~~i~VI~inq~~~~~~~~~~~~~~~~~~~gG~~~~~~~~~rl~l~k~  292 (315)
                      +++++||++||+..+.+++.+|+.++.++.||+.|+|.+.+|+.+.+.
T Consensus       243 ~~g~~vvitn~v~~~~d~~~~f~~~~~~~~~~~~~~H~~~tr~~~~~~  290 (326)
T KOG1433|consen  243 EFGVAVVITNQVTAQVDGAIMFGSDPKKPIGGNIWAHAVTTRLGLRKG  290 (326)
T ss_pred             hcCceEEEecccccccccccccCcccccccccchHHHHHHHHHHHHhc
Confidence            999999999999999998889998899999999999999999999883

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

Probab=99.81  E-value=2.1e-18  Score=163.87  Aligned_cols=187  Identities=18%  Similarity=0.197  Sum_probs=144.0

Q ss_pred             CCccccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHhc-CCeEEEEecCCCCChHHHHHc----CCCC
Q 021239           98 GPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKL-GGYCAYLDVENALDPSLAEAM----GIDA  172 (315)
Q Consensus        98 ~~~i~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~~-g~~v~~i~~E~~~~~~~~~~~----g~~~  172 (315)
                      ..++|||++.||.+++  |+.+|++++++|+||+|||+||+++|.+++.. ..+|++|++||+..+...+-+    +++.
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  89999999999999999999999999999874 567999999999987544433    2221


Q ss_pred             C-------------------------CeEEeCC--CCHHHHHHHHHHHHHcCCccEEeehhHhhhccccccCCCccCCCh
Q 021239          173 E-------------------------NLLIAQP--DSAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYS  225 (315)
Q Consensus       173 ~-------------------------~l~i~~~--~~~e~~~~~i~~l~~~~~~~lVVIDsl~~l~~~~~~~~~~~~~~~  225 (315)
                      .                         .+++.+.  .+..++...++++..+++.++++||+++.+......         
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                         2344332  356788889999988899999999999988742111         


Q ss_pred             HHHHHHHHHHHHHHHHHHhccCcEEEEEeccccccCCCCCCCCCccccccccccccccceEEEEEecccc
Q 021239          226 DAQSRIMTQALRKIHYSLCQSHTLIIFLNQVRFSAKSGQGLGRMDEVTSGGNALKFYAALRLRMMRTRLF  295 (315)
Q Consensus       226 ~~q~r~i~~~l~~L~~~~~~~~i~VI~inq~~~~~~~~~~~~~~~~~~~gG~~~~~~~~~rl~l~k~~~~  295 (315)
                      .....+++.+.+.|+.+|++.+++||.++|+++.++......+...-.....++.+-+|..+++.|...-
T Consensus       325 ~~r~qevs~iSr~LK~lAkEl~vpvialSQLsR~~E~R~dkrP~lSDLRESGsIEQDAD~VmflyRde~y  394 (435)
T COG0305         325 ENRKQEVSEISRSLKGLAKELGVPVIALSQLNRSVEQRTDKRPMLSDLRESGALEQDADIVIFLHRDEAY  394 (435)
T ss_pred             hhHHHHHHHHHHHHHHHHHhcCCcEEehhhhcccchhccccCCccccCccCCchhhhCCEEEEEechhhc
Confidence            2344568888899999999999999999999999865321111111223455778899999999998654

>PRK07773 replicative DNA helicase; Validated

Probab=99.80  E-value=1.9e-18  Score=180.31  Aligned_cols=155  Identities=16%  Similarity=0.220  Sum_probs=121.7

Q ss_pred             CCCccccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHhc-CCeEEEEecCCCCChHHHHH----cCCC
Q 021239           97 RGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKL-GGYCAYLDVENALDPSLAEA----MGID  171 (315)
Q Consensus        97 ~~~~i~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~~-g~~v~~i~~E~~~~~~~~~~----~g~~  171 (315)
                      ...+++||++.||.+++  |+++|++++|+|+||+|||+|++++|.+++.+ +.+|+||++||+..+...+.    .+++
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  99999999999999999999999999998854 78999999999998732221    2222


Q ss_pred             CC-------------------------CeEEeCC--CCHHHHHHHHHHHHHcCCccEEeehhHhhhccccccCCCccCCC
Q 021239          172 AE-------------------------NLLIAQP--DSAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMY  224 (315)
Q Consensus       172 ~~-------------------------~l~i~~~--~~~e~~~~~i~~l~~~~~~~lVVIDsl~~l~~~~~~~~~~~~~~  224 (315)
                      .+                         ++++.+.  .+.+++...++++.++.++++|||||++.+... .   . .+  
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            11                         3444433  367888888888888889999999999987521 1   0 01  


Q ss_pred             hHHHHHHHHHHHHHHHHHHhccCcEEEEEeccccccCC
Q 021239          225 SDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVRFSAKS  262 (315)
Q Consensus       225 ~~~q~r~i~~~l~~L~~~~~~~~i~VI~inq~~~~~~~  262 (315)
                        ....++.++.+.|+.+|++++|+||+++|+++.+..
T Consensus       347 --~r~~ei~~isr~LK~lAkel~vpvi~lsQLnR~~e~  382 (886)
T PRK07773        347 --NRQQEVSEISRHLKLLAKELEVPVVALSQLSRGVEQ  382 (886)
T ss_pred             --CHHHHHHHHHHHHHHHHHHHCCcEEEecccCcchhc
Confidence              123357788888888899999999999999998743

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

Probab=99.79  E-value=3.6e-18  Score=154.78  Aligned_cols=149  Identities=29%  Similarity=0.386  Sum_probs=116.6

Q ss_pred             CCccccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCCh--HHHHHcCCCCCC-
Q 021239           98 GPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP--SLAEAMGIDAEN-  174 (315)
Q Consensus        98 ~~~i~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~--~~~~~~g~~~~~-  174 (315)
                      .+++|||++.||++++ ||+|+|.+++|+|+||+|||+|++|++.+.+..|.+|+|+++++++..  ..+.++|++.+. 
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            4679999999999999 999999999999999999999999999999999999999999999987  456678887641 


Q ss_pred             -----eEEe---------------CCCCHHHHHHHHHHHHHcCCccEEeehhHhhhccccccCCCccCCChHHHHHHHHH
Q 021239          175 -----LLIA---------------QPDSAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQ  234 (315)
Q Consensus       175 -----l~i~---------------~~~~~e~~~~~i~~l~~~~~~~lVVIDsl~~l~~~~~~~~~~~~~~~~~q~r~i~~  234 (315)
                           +.+.               .+...+.+...+.+.++..++..+||||+..+....  ...       ...   ..
T Consensus        81 ~~~g~l~i~d~~~~~~~~~~~~~~~~~~~~~l~~~I~~~~~~~~~~~~ViDsi~~~~~~~--~~~-------~~~---r~  148 (260)
T COG0467          81 IEKGKLAILDAFLSEKGLVSIVVGDPLDLEELLDRIREIVEKEGADRVVIDSITELTLYL--NDP-------ALV---RR  148 (260)
T ss_pred             hhcCCEEEEEccccccccccccccCCccHHHHHHHHHHHHHHhCCCEEEEeCCchHhhhc--Cch-------HHH---HH
Confidence                 1111               123456788888888888889999999999655211  110       111   24


Q ss_pred             HHHHHHHHHhccCcEEEEEeccccc
Q 021239          235 ALRKIHYSLCQSHTLIIFLNQVRFS  259 (315)
Q Consensus       235 ~l~~L~~~~~~~~i~VI~inq~~~~  259 (315)
                      .+..+.+..++.+++.+++.+....
T Consensus       149 ~~~~l~~~~~~~~~t~~~~~~~~~~  173 (260)
T COG0467         149 ILLLLKRFLKKLGVTSLLTTEAPVE  173 (260)
T ss_pred             HHHHHHHHHHhCCCEEEEEeccccc
Confidence            5666666678889999999887433

>PRK08533 flagellar accessory protein FlaH; Reviewed

Probab=99.73  E-value=7.7e-17  Score=143.48  Aligned_cols=169  Identities=21%  Similarity=0.297  Sum_probs=115.2

Q ss_pred             CCccccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCCh--HHHHHcCCCCCC-
Q 021239           98 GPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP--SLAEAMGIDAEN-  174 (315)
Q Consensus        98 ~~~i~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~--~~~~~~g~~~~~-  174 (315)
                      ...+.+++++||..++ ||+++|++++|.|+||+|||+||++++...+++|.+++|+++|++...  ..++++|++.+. 
T Consensus         3 ~~~~~~~~~~ld~~l~-ggi~~g~~~~i~G~~G~GKTtl~~~~~~~~~~~g~~~~yi~~e~~~~~~~~~~~~~g~~~~~~   81 (230)
T PRK08533          3 LAKIELSRDELHKRLG-GGIPAGSLILIEGDESTGKSILSQRLAYGFLQNGYSVSYVSTQLTTTEFIKQMMSLGYDINKK   81 (230)
T ss_pred             eEEEEEEEeeeehhhC-CCCCCCcEEEEECCCCCCHHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHHHHHHhCCchHHH
Confidence            3457889999999999 999999999999999999999999999999889999999999998876  345677887652 


Q ss_pred             -----eEEeCC----CC---HHHHHHHHHHHHHcCCccEEeehhHhhhccccccCCCccCCChHHHHHHHHHHHHHHHHH
Q 021239          175 -----LLIAQP----DS---AENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYS  242 (315)
Q Consensus       175 -----l~i~~~----~~---~e~~~~~i~~l~~~~~~~lVVIDsl~~l~~~~~~~~~~~~~~~~~q~r~i~~~l~~L~~~  242 (315)
                           +.+.+.    ..   .+..+..+...+...+++++|||+++.... ...+        ....+.+.+.++.+   
T Consensus        82 ~~~~~l~~~~~~~~~~~~~~~~~~l~~il~~~~~~~~~~lVIDe~t~~l~-~~~d--------~~~~~~l~~~l~~l---  149 (230)
T PRK08533         82 LISGKLLYIPVYPLLSGNSEKRKFLKKLMNTRRFYEKDVIIIDSLSSLIS-NDAS--------EVAVNDLMAFFKRI---  149 (230)
T ss_pred             hhcCcEEEEEecccccChHHHHHHHHHHHHHHHhcCCCEEEEECccHHhc-CCcc--------hHHHHHHHHHHHHH---
Confidence                 222221    11   133333344444456899999999998762 1100        01223344444444   


Q ss_pred             HhccCcEEEEEeccccccCCCCCCCCCccccccccccccccceEEEEEec
Q 021239          243 LCQSHTLIIFLNQVRFSAKSGQGLGRMDEVTSGGNALKFYAALRLRMMRT  292 (315)
Q Consensus       243 ~~~~~i~VI~inq~~~~~~~~~~~~~~~~~~~gG~~~~~~~~~rl~l~k~  292 (315)
                       ++.|++++++++..... .        .. .  ....|.+|..|.|+..
T Consensus       150 -~~~g~tvi~t~~~~~~~-~--------~~-~--~~~~~~~DgvI~L~~~  186 (230)
T PRK08533        150 -SSLNKVIILTANPKELD-E--------SV-L--TILRTAATMLIRLEVK  186 (230)
T ss_pred             -HhCCCEEEEEecccccc-c--------cc-c--eeEEEeeeEEEEEEEe
Confidence             34588888877754221 0        01 1  2467788888877754

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

Probab=99.72  E-value=5.4e-18  Score=146.38  Aligned_cols=151  Identities=24%  Similarity=0.314  Sum_probs=87.8

Q ss_pred             CCCccccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHh----------cCCeEEEEecCCCCCh--HH
Q 021239           97 RGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQK----------LGGYCAYLDVENALDP--SL  164 (315)
Q Consensus        97 ~~~~i~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~----------~g~~v~~i~~E~~~~~--~~  164 (315)
                      ....++++++.+|.+++ |++++|++++|+|+||+|||+++++++...+.          .+.+|+|+++|++...  .+
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            34568999999999999 99999999999999999999999999999886          5679999999999654  33


Q ss_pred             HHHcCCCCC---C-----------eEEeCCC----CHHHHHHHHHHHHHc-CCccEEeehhHhhhccccccCCCccCCCh
Q 021239          165 AEAMGIDAE---N-----------LLIAQPD----SAENLLSVVDTLTKS-GSIDVIVVDSVAALIPKCEIGVPINGMYS  225 (315)
Q Consensus       165 ~~~~g~~~~---~-----------l~i~~~~----~~e~~~~~i~~l~~~-~~~~lVVIDsl~~l~~~~~~~~~~~~~~~  225 (315)
                      ...+.-..+   +           +.+....    ..+..++.+.+.+.. +++++||||+++.+... .  .     ..
T Consensus        89 l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~lvviD~l~~~~~~-~--~-----~~  160 (193)
T PF13481_consen   89 LRALLQDYDDDANLFFVDLSNWGCIRLFEPDSGGPLLDEDLEELEAALKELYGPDLVVIDPLQSLHDG-D--E-----NS  160 (193)
T ss_dssp             HHHHHTTS-HHHHHHHHHH--E-EE---TTS---TTSHHHHHHHHHHHTT----SEEEEE-GGGG--S----T-----T-
T ss_pred             HHHHhcccCCccceEEeeccccccceeeecccccccchHHHHHHHHHHhhcCCCcEEEEcCHHHHhcC-C--C-----CC
Confidence            333322211   1           1111111    124455666666666 78999999999999853 1  1     01


Q ss_pred             HHHHHHHHHHHHHHHHHHhccCcEEEEEeccccc
Q 021239          226 DAQSRIMTQALRKIHYSLCQSHTLIIFLNQVRFS  259 (315)
Q Consensus       226 ~~q~r~i~~~l~~L~~~~~~~~i~VI~inq~~~~  259 (315)
                         ...+.+.++.|.++++++|++|++++|.++.
T Consensus       161 ---~~~~~~~~~~l~~la~~~~~~vi~v~H~~K~  191 (193)
T PF13481_consen  161 ---NSAVAQLMQELKRLAKEYGVAVILVHHTNKS  191 (193)
T ss_dssp             ---HHHHHHHHHHHHHHHHHH--EEEEEEEE---
T ss_pred             ---HHHHHHHHHHHHHHHHHcCCEEEEEECCCCC
Confidence               1112456666777779999999999999754

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

Probab=99.64  E-value=3.3e-15  Score=128.10  Aligned_cols=143  Identities=24%  Similarity=0.340  Sum_probs=109.4

Q ss_pred             ccccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCCh--HHHHHcCCCCCC---
Q 021239          100 VISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP--SLAEAMGIDAEN---  174 (315)
Q Consensus       100 ~i~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~--~~~~~~g~~~~~---  174 (315)
                      -+++|.++||+-|| ||+|-|+++.|-|+.|+|||.|+.+++..++.+|.++.|+++|.+...  .-++.++++..+   
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            48999999999999 999999999999999999999999999999999999999999998876  456777877653   


Q ss_pred             ---eEEeCC---------CCHHHHHHHHHHHHHcCCccEEeehhHhhhccccccCCCccCCChHHHHHHHHHHHHHHHHH
Q 021239          175 ---LLIAQP---------DSAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYS  242 (315)
Q Consensus       175 ---l~i~~~---------~~~e~~~~~i~~l~~~~~~~lVVIDsl~~l~~~~~~~~~~~~~~~~~q~r~i~~~l~~L~~~  242 (315)
                         +.+.+.         .....+++.+-+..+..+.++++|||++.....++   +       .   .+.+++..+.++
T Consensus        88 ~G~l~~~~~~~~~~~~~~~~~~~~L~~l~~~~k~~~~dViIIDSls~~~~~~~---~-------~---~vl~fm~~~r~l  154 (235)
T COG2874          88 SGRLLFFPVNLEPVNWGRRSARKLLDLLLEFIKRWEKDVIIIDSLSAFATYDS---E-------D---AVLNFMTFLRKL  154 (235)
T ss_pred             cceeEEEEecccccccChHHHHHHHHHHHhhHHhhcCCEEEEecccHHhhccc---H-------H---HHHHHHHHHHHH
Confidence               333331         13346677776777777889999999998874321   0       1   244555555444


Q ss_pred             HhccCcEEEEEeccc
Q 021239          243 LCQSHTLIIFLNQVR  257 (315)
Q Consensus       243 ~~~~~i~VI~inq~~  257 (315)
                       .+.|-+||++-|..
T Consensus       155 -~d~gKvIilTvhp~  168 (235)
T COG2874         155 -SDLGKVIILTVHPS  168 (235)
T ss_pred             -HhCCCEEEEEeChh
Confidence             45677777777654

>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=99.64  E-value=5.1e-15  Score=126.96  Aligned_cols=148  Identities=20%  Similarity=0.273  Sum_probs=105.4

Q ss_pred             EEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCCh--HHHHHcCCCCCC------eEEeCCCC----H------
Q 021239          122 IVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP--SLAEAMGIDAEN------LLIAQPDS----A------  183 (315)
Q Consensus       122 i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~--~~~~~~g~~~~~------l~i~~~~~----~------  183 (315)
                      +++|+||||+|||+|+++++.+.++.|++|+|+++|++.+.  .+++++|++.+.      +.+.+...    .      
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            47899999999999999999999999999999999999877  567788887543      23332211    1      


Q ss_pred             HHHHHHHHHHHHcCCccEEeehhHhhhccccccCCCccCCChHHHHHHHHHHHHHHHHHHhccCcEEEEEeccccccCCC
Q 021239          184 ENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVRFSAKSG  263 (315)
Q Consensus       184 e~~~~~i~~l~~~~~~~lVVIDsl~~l~~~~~~~~~~~~~~~~~q~r~i~~~l~~L~~~~~~~~i~VI~inq~~~~~~~~  263 (315)
                      .++...+...+...+++++|||+++.+...    +.       ..   ....+..+...+++.|+++|+++|......  
T Consensus        81 ~~~~~~i~~~~~~~~~~~lviD~~~~~~~~----~~-------~~---~~~~i~~l~~~l~~~g~tvi~v~~~~~~~~--  144 (187)
T cd01124          81 LELIQRLKDAIEEFKAKRVVIDSVSGLLLM----EQ-------ST---ARLEIRRLLFALKRFGVTTLLTSEQSGLEG--  144 (187)
T ss_pred             HHHHHHHHHHHHHhCCCEEEEeCcHHHhhc----Ch-------HH---HHHHHHHHHHHHHHCCCEEEEEeccccCCC--
Confidence            134456666666778999999999988731    00       11   112233344444667999999999875531  


Q ss_pred             CCCCCCccccccccccccccceEEEEEecc
Q 021239          264 QGLGRMDEVTSGGNALKFYAALRLRMMRTR  293 (315)
Q Consensus       264 ~~~~~~~~~~~gG~~~~~~~~~rl~l~k~~  293 (315)
                              ...+...+.+.+|..+.+++..
T Consensus       145 --------~~~~~~~~~~~aD~ii~l~~~~  166 (187)
T cd01124         145 --------TGFGGGDVEYLVDGVIRLRLDE  166 (187)
T ss_pred             --------cccCcCceeEeeeEEEEEEEEc
Confidence                    1345567899999999998763

A related protein is found in archaea.

>cd01120 RecA-like_NTPases RecA-like NTPases

Probab=99.60  E-value=5.2e-14  Score=116.98  Aligned_cols=157  Identities=25%  Similarity=0.360  Sum_probs=110.0

Q ss_pred             EEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCChHHHHHc----CCCCCCeEEeCCC----CHHHHHHHHHHH
Q 021239          122 IVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAM----GIDAENLLIAQPD----SAENLLSVVDTL  193 (315)
Q Consensus       122 i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~~~~~~~----g~~~~~l~i~~~~----~~e~~~~~i~~l  193 (315)
                      +++|+|+||+|||+++.+++..+...+++++|++.|...........    ....++..+....    ............
T Consensus         1 ~~~i~G~~G~GKT~l~~~i~~~~~~~~~~v~~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   80 (165)
T cd01120           1 LILVFGPTGSGKTTLALQLALNIATKGGKVVYVDIEEEIEELTERLIGESLKGALDNLIIVFATADDPAAARLLSKAERL   80 (165)
T ss_pred             CeeEeCCCCCCHHHHHHHHHHHHHhcCCEEEEEECCcchHHHHHHHhhhhhccccccEEEEEcCCCCCcHHHHHHHHHHH
Confidence            47899999999999999999999989999999999998876432211    1122333333322    233333444555


Q ss_pred             HHcCCccEEeehhHhhhccccccCCCccCCChHHHHHHHHHHHHHHHHHHhccCcEEEEEeccccccCCCCCCCCCcccc
Q 021239          194 TKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVRFSAKSGQGLGRMDEVT  273 (315)
Q Consensus       194 ~~~~~~~lVVIDsl~~l~~~~~~~~~~~~~~~~~q~r~i~~~l~~L~~~~~~~~i~VI~inq~~~~~~~~~~~~~~~~~~  273 (315)
                      ....+++++|||+++.+...... ...      .....+.+.+..+...+++.++++|+++|.......  .+    ...
T Consensus        81 ~~~~~~~~lviDe~~~~~~~~~~-~~~------~~~~~~~~~l~~l~~~~~~~~~~vv~~~~~~~~~~~--~~----~~~  147 (165)
T cd01120          81 RERGGDDLIILDELTRLVRALRE-IRE------GYPGELDEELRELLERARKGGVTVIFTLQVPSGDKG--DP----RLT  147 (165)
T ss_pred             HhCCCCEEEEEEcHHHHHHHHHH-HHh------cCChHHHHHHHHHHHHHhcCCceEEEEEecCCcccc--Cc----ccc
Confidence            66789999999999998742111 000      001235567788888888899999999999876632  22    226


Q ss_pred             ccccccccccceEEEEEe
Q 021239          274 SGGNALKFYAALRLRMMR  291 (315)
Q Consensus       274 ~gG~~~~~~~~~rl~l~k  291 (315)
                      .|+..+.|.+|.++.+.|
T Consensus       148 ~~~~~~~~~~d~~~~l~~  165 (165)
T cd01120         148 RGAQNLEDIADTVIVLSR  165 (165)
T ss_pred             cCccceeeecceEEEEeC
Confidence            788999999999999875

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=99.59  E-value=2.2e-14  Score=128.47  Aligned_cols=162  Identities=19%  Similarity=0.213  Sum_probs=107.7

Q ss_pred             CcEEEEEecCCCChhHHHHHHHHHHHh------------cCCeEEEEecCCCCCh--HHHHHcCCC-----C-CCeEEe-
Q 021239          120 GRIVEIYGREASGKTTLALHVIKEAQK------------LGGYCAYLDVENALDP--SLAEAMGID-----A-ENLLIA-  178 (315)
Q Consensus       120 G~i~~i~G~~GsGKTtlal~la~~~~~------------~g~~v~~i~~E~~~~~--~~~~~~g~~-----~-~~l~i~-  178 (315)
                      |.+.+|+||||+|||+|++++|.+++.            .+++|+|++.|++.+.  .|+..++..     . +++.+. 
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            678999999999999999999988762            4679999999998864  444444321     1 222221 


Q ss_pred             ---------CCC--CHHHHHHHHHHHHHcCCccEEeehhHhhhccccccCCCccCCChHHHHHHHHHHHHHHHHHHhccC
Q 021239          179 ---------QPD--SAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSH  247 (315)
Q Consensus       179 ---------~~~--~~e~~~~~i~~l~~~~~~~lVVIDsl~~l~~~~~~~~~~~~~~~~~q~r~i~~~l~~L~~~~~~~~  247 (315)
                               ...  .....++.+.+.+...++++||||++..+....+  .+      ...   +.+++..|.++++++|
T Consensus        81 g~~~~l~~~~~~~~~~~~~~~~l~~~~~~~~~~lvviDpl~~~~~~~~--~d------~~~---~~~~~~~L~~~a~~~g  149 (239)
T cd01125          81 GRIQPISIAREGRIIVVPEFERIIEQLLIRRIDLVVIDPLVSFHGVSE--ND------NGA---MDAVIKALRRIAAQTG  149 (239)
T ss_pred             cCCCceecccCCcccccHHHHHHHHHHHhcCCCEEEECChHHhCCCCc--CC------HHH---HHHHHHHHHHHHHHhC
Confidence                     111  1122333333333456899999999988742111  11      122   3345556666668899


Q ss_pred             cEEEEEeccccccCCCCCCCCCccccccccccccccceEEEEEecccc
Q 021239          248 TLIIFLNQVRFSAKSGQGLGRMDEVTSGGNALKFYAALRLRMMRTRLF  295 (315)
Q Consensus       248 i~VI~inq~~~~~~~~~~~~~~~~~~~gG~~~~~~~~~rl~l~k~~~~  295 (315)
                      ++|++++|..+......   .......|+.+|...++..+.+.+....
T Consensus       150 ~avl~v~H~~K~~~~~~---~~~~~~rGssal~~~~r~~~~l~~~~~~  194 (239)
T cd01125         150 AAILLVHHVRKGSAKDG---DTQEAARGASALVDGARWVRALTRMTSE  194 (239)
T ss_pred             CEEEEEeccCcccccCc---ccccccCcHHHHhcccceEEEEeeCCHH
Confidence            99999999986653211   1234577899999999999999988653

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.

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

Probab=99.35  E-value=6.3e-12  Score=113.78  Aligned_cols=158  Identities=20%  Similarity=0.238  Sum_probs=105.8

Q ss_pred             CCCCCCcEEEEEecCCCChhHHHHHHHHHHHh----------cCCeEEEEecCCCCChH------HHHHcCCCCCCeEEe
Q 021239          115 GGLPKGRIVEIYGREASGKTTLALHVIKEAQK----------LGGYCAYLDVENALDPS------LAEAMGIDAENLLIA  178 (315)
Q Consensus       115 GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~----------~g~~v~~i~~E~~~~~~------~~~~~g~~~~~l~i~  178 (315)
                      +-+..|-..+|+|++|+||||+++.++..++.          ..++|+|+++|...+..      ...++|+.+.++...
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            45567888999999999999999998877653          34799999999988762      355678876654333


Q ss_pred             CCC------C-----HHHHHHHHHHHHHcCCccEEeehhHhhhccccccCCCccCCChHHHHHHHHHHHHHHHHHHhccC
Q 021239          179 QPD------S-----AENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSH  247 (315)
Q Consensus       179 ~~~------~-----~e~~~~~i~~l~~~~~~~lVVIDsl~~l~~~~~~~~~~~~~~~~~q~r~i~~~l~~L~~~~~~~~  247 (315)
                      +..      .     ...+.......+.+..|++||||++..++..        +.....|.+++.+.+++|   ++.++
T Consensus       164 dltd~~Gaa~~~d~l~pkl~rRfek~~~Q~rp~~vViDp~v~f~~G--------~s~s~vqv~~fi~~~rkl---a~~l~  232 (402)
T COG3598         164 DLTDVSGAADESDVLSPKLYRRFEKILEQKRPDFVVIDPFVAFYEG--------KSISDVQVKEFIKKTRKL---ARNLE  232 (402)
T ss_pred             eccccccCCCccccccHHHHHHHHHHHHHhCCCeEEEcchhhhcCC--------ccchhHHHHHHHHHHHHH---HHhcC
Confidence            221      1     1134444445556778999999999999842        233335555555555555   58999


Q ss_pred             cEEEEEeccccccCCCCCCCCCccccccccccccccceEEEE
Q 021239          248 TLIIFLNQVRFSAKSGQGLGRMDEVTSGGNALKFYAALRLRM  289 (315)
Q Consensus       248 i~VI~inq~~~~~~~~~~~~~~~~~~~gG~~~~~~~~~rl~l  289 (315)
                      |+||+++|.......      ++....|+..|.....+++.+
T Consensus       233 caIiy~hHtskss~~------~ksgrsGs~~dg~~l~~~l~l  268 (402)
T COG3598         233 CAIIYIHHTSKSSGK------NKSGRSGSVSDGKFLTTPLML  268 (402)
T ss_pred             CeEEEEeccccccCC------CCCCCCCccCccHHHhhHHHH
Confidence            999999999866522      222334445554444444443

>PRK04296 thymidine kinase; Provisional

Probab=99.15  E-value=5.2e-10  Score=96.77  Aligned_cols=115  Identities=17%  Similarity=0.236  Sum_probs=81.7

Q ss_pred             CcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEec--CCCC-ChHHHHHcCCCCCCeEEeCCCCHHHHHHHHHHHHHc
Q 021239          120 GRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDV--ENAL-DPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTKS  196 (315)
Q Consensus       120 G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~--E~~~-~~~~~~~~g~~~~~l~i~~~~~~e~~~~~i~~l~~~  196 (315)
                      |.+++++||+|+||||+++.++..+...|.+|+++..  +... ...++.++|+......+   ...++++..+.+  ..
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            7899999999999999999999999988999999843  3322 22456667766555322   345566666655  45


Q ss_pred             CCccEEeehhHhhhccccccCCCccCCChHHHHHHHHHHHHHHHHHHhccCcEEEEEecccccc
Q 021239          197 GSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVRFSA  260 (315)
Q Consensus       197 ~~~~lVVIDsl~~l~~~~~~~~~~~~~~~~~q~r~i~~~l~~L~~~~~~~~i~VI~inq~~~~~  260 (315)
                      .++++|+||+++.+..              .|       +..+.+.++..|++||++....+-.
T Consensus        77 ~~~dvviIDEaq~l~~--------------~~-------v~~l~~~l~~~g~~vi~tgl~~~~~  119 (190)
T PRK04296         77 EKIDCVLIDEAQFLDK--------------EQ-------VVQLAEVLDDLGIPVICYGLDTDFR  119 (190)
T ss_pred             CCCCEEEEEccccCCH--------------HH-------HHHHHHHHHHcCCeEEEEecCcccc
Confidence            6789999999975431              11       2234445578899999998876543

>KOG2373 consensus Predicted mitochondrial DNA helicase twinkle [Replication, recombination and repair]

Probab=99.04  E-value=1.6e-09  Score=99.11  Aligned_cols=180  Identities=15%  Similarity=0.112  Sum_probs=118.5

Q ss_pred             CcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCChH---HHHH-cCCCCC------
Q 021239          104 GSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPS---LAEA-MGIDAE------  173 (315)
Q Consensus       104 G~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~~---~~~~-~g~~~~------  173 (315)
                      -++.|++.|+  |.++|+++++.||.|+|||||+..++...+.+|-+.+|-++|.+....   +..+ .|+...      
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            4788999997  999999999999999999999999999999999999999999876541   1111 233221      


Q ss_pred             --------Ce--E---EeCCCCHHHHHHHHHHHHHcCCccEEeehhHhhhccccccCCCccCCChHHHHHHHHHHHHHHH
Q 021239          174 --------NL--L---IAQPDSAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIH  240 (315)
Q Consensus       174 --------~l--~---i~~~~~~e~~~~~i~~l~~~~~~~lVVIDsl~~l~~~~~~~~~~~~~~~~~q~r~i~~~l~~L~  240 (315)
                              ++  +   +......+..++.+...+--+++.-||||.++.+.....+..+.    -..|.+ +...+++++
T Consensus       337 ~HWadrFErlplyfmtfhgqq~~~~vi~~i~ha~yV~di~HViIDNLQFmmg~~~~~~Dr----f~~QD~-iig~fR~fA  411 (514)
T KOG2373|consen  337 KHWADRFERLPLYFMTFHGQQFMEKVINEIAHAIYVEDIQHVIIDNLQFMMGQGMMALDR----FHLQDR-IIGYFRQFA  411 (514)
T ss_pred             hHHHHHHhccchHhhhhcccchHHHHHHHHHHHHHHHhhhhhhhhhHHHHhccchhccch----hhhHHH-HHHHHHHHh
Confidence                    11  1   11122344455555555545678899999999998543332211    112333 444555554


Q ss_pred             HHHhccCcEEEEEeccccccCCCCCCCCCccccccccccccccceEEEEEeccccc
Q 021239          241 YSLCQSHTLIIFLNQVRFSAKSGQGLGRMDEVTSGGNALKFYAALRLRMMRTRLFK  296 (315)
Q Consensus       241 ~~~~~~~i~VI~inq~~~~~~~~~~~~~~~~~~~gG~~~~~~~~~rl~l~k~~~~k  296 (315)
                         .+++|-|-++-|.++.-....-   +....-|....+.-+|..|.+...+...
T Consensus       412 ---T~nn~HvTlVvHPRKed~d~El---~t~s~fGsAkatQEADNVliiQdkrl~~  461 (514)
T KOG2373|consen  412 ---TQNNIHVTLVVHPRKEDGDTEL---DTQSFFGSAKATQEADNVLIIQDKRLDR  461 (514)
T ss_pred             ---hccceeEEEEecccccCCCcee---eehhhccccccccccccEEEEeeccccc
Confidence               9999999999999876522100   1111234444556778888888776543

>cd00544 CobU Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU)

Probab=98.97  E-value=2.4e-09  Score=90.76  Aligned_cols=119  Identities=18%  Similarity=0.344  Sum_probs=70.8

Q ss_pred             EEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCChHHHHHcCC----CCCCeEEeCCCCHHHHHHHHHHHHHcC
Q 021239          122 IVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGI----DAENLLIAQPDSAENLLSVVDTLTKSG  197 (315)
Q Consensus       122 i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~~~~~~~g~----~~~~l~i~~~~~~e~~~~~i~~l~~~~  197 (315)
                      +++|.|++|||||+||.+++..   .+++++|+.+..+.+.++.+++..    .+......  ....++.+.+.+.   .
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   578999999999988765554321    12222221  1122333333221   2


Q ss_pred             CccEEeehhHhhhccccccCCCccCCChHHHHHHHHHHHHHHHHHHhccCcEEEEEe
Q 021239          198 SIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLN  254 (315)
Q Consensus       198 ~~~lVVIDsl~~l~~~~~~~~~~~~~~~~~q~r~i~~~l~~L~~~~~~~~i~VI~in  254 (315)
                      +.++|+||+++.+... .+..+.+..     ...+.+.+..+...+++.++++|+++
T Consensus        73 ~~~~VLIDclt~~~~n-~l~~~~~~~-----~~~~~~~i~~l~~~l~~~~~~~viVs  123 (169)
T cd00544          73 PGDVVLIDCLTLWVTN-LLFADLEEW-----EAAIADEIDALLAAVRNKPGTLILVS  123 (169)
T ss_pred             CCCEEEEEcHhHHHHH-hCCCccccc-----hhHHHHHHHHHHHHHHcCCCcEEEEE
Confidence            5779999999999843 322111000     00122334445555567777655554

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.

>PF13479 AAA_24: AAA domain

Probab=98.93  E-value=9.2e-09  Score=90.54  Aligned_cols=158  Identities=22%  Similarity=0.179  Sum_probs=95.4

Q ss_pred             CcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCChHHHHHcCCCCCCeEEeCCCCHHHHHHHHHHHHH-cCC
Q 021239          120 GRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTK-SGS  198 (315)
Q Consensus       120 G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~~~~~~~g~~~~~l~i~~~~~~e~~~~~i~~l~~-~~~  198 (315)
                      +-.++|+|+||+|||+|+..+        .+++||++|.........      .+....++.+++++.+.+..+.+ ..+
T Consensus         3 ~~~~lIyG~~G~GKTt~a~~~--------~k~l~id~E~g~~~~~~~------~~~~~i~i~s~~~~~~~~~~l~~~~~~   68 (213)
T PF13479_consen    3 PIKILIYGPPGSGKTTLAASL--------PKPLFIDTENGSDSLKFL------DDGDVIPITSWEDFLEALDELEEDEAD   68 (213)
T ss_pred             ceEEEEECCCCCCHHHHHHhC--------CCeEEEEeCCCccchhhh------cCCCeeCcCCHHHHHHHHHHHHhccCC
Confidence            346899999999999999876        689999999985431100      02223344588888887776543 468


Q ss_pred             ccEEeehhHhhhcccc--ccC-------CCccCCChHHHHHHHHHHHHHHHH-HHhccCcEEEEEeccccccC-CCCCCC
Q 021239          199 IDVIVVDSVAALIPKC--EIG-------VPINGMYSDAQSRIMTQALRKIHY-SLCQSHTLIIFLNQVRFSAK-SGQGLG  267 (315)
Q Consensus       199 ~~lVVIDsl~~l~~~~--~~~-------~~~~~~~~~~q~r~i~~~l~~L~~-~~~~~~i~VI~inq~~~~~~-~~~~~~  267 (315)
                      ++.|||||++.+....  ...       ...+..........+.+.+.++.+ +....+..||+|.|...... .++.|.
T Consensus        69 y~tiVIDsis~~~~~~~~~~~~~~~~~~~~~~~~~~~~~yg~~~~~~~~~i~~l~~~~~~~VI~tah~~~~~~~~~~~~~  148 (213)
T PF13479_consen   69 YDTIVIDSISWLEDMCLEYICRQNKKKIKRSGDPDYGKGYGELQQEFMRFIDKLLNALGKNVIFTAHAKEEEDEDGGKYT  148 (213)
T ss_pred             CCEEEEECHHHHHHHHHHHHhhhhcccccccCCCcccchHHHHHHHHHHHHHHHHHHCCCcEEEEEEEEEEEcCCCCcee
Confidence            9999999999874211  111       000111001112223444444444 34568999999999987765 222221


Q ss_pred             --CCccccccccccccccceEEEEEe
Q 021239          268 --RMDEVTSGGNALKFYAALRLRMMR  291 (315)
Q Consensus       268 --~~~~~~~gG~~~~~~~~~rl~l~k  291 (315)
                        .......-...+..++|...++..
T Consensus       149 ~~~~~l~~k~~~~l~~~~D~V~~l~~  174 (213)
T PF13479_consen  149 RYKPKLGKKVRNELPGWFDVVGRLRV  174 (213)
T ss_pred             EEeeccChhHHhhhhecccEEEEEEE
Confidence              011122334677788888877664

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

Probab=98.78  E-value=5.1e-08  Score=78.36  Aligned_cols=114  Identities=21%  Similarity=0.342  Sum_probs=78.9

Q ss_pred             CCCcEEEEEecCCCChhHHHHHHHHHHHhc-----CCeEEEEecCCCCCh-----HHHHHcCCCCCCeEEeCCCCHHHHH
Q 021239          118 PKGRIVEIYGREASGKTTLALHVIKEAQKL-----GGYCAYLDVENALDP-----SLAEAMGIDAENLLIAQPDSAENLL  187 (315)
Q Consensus       118 ~~G~i~~i~G~~GsGKTtlal~la~~~~~~-----g~~v~~i~~E~~~~~-----~~~~~~g~~~~~l~i~~~~~~e~~~  187 (315)
                      +.+.++.|+|++|+|||+++.+++......     ..+++|+........     .+++.++.....     ..+.+++.
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            356789999999999999999999988754     668888887655533     345666655444     45677888


Q ss_pred             HHHHHHHHcCCccEEeehhHhhhccccccCCCccCCChHHHHHHHHHHHHHHHHHHhccCcEEEEEecc
Q 021239          188 SVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQV  256 (315)
Q Consensus       188 ~~i~~l~~~~~~~lVVIDsl~~l~~~~~~~~~~~~~~~~~q~r~i~~~l~~L~~~~~~~~i~VI~inq~  256 (315)
                      ..+.+.+...+..+||||.++.+. .                ..+...++.+   +.+.++.+|++.+.
T Consensus        77 ~~~~~~l~~~~~~~lviDe~~~l~-~----------------~~~l~~l~~l---~~~~~~~vvl~G~~  125 (131)
T PF13401_consen   77 SLLIDALDRRRVVLLVIDEADHLF-S----------------DEFLEFLRSL---LNESNIKVVLVGTP  125 (131)
T ss_dssp             HHHHHHHHHCTEEEEEEETTHHHH-T----------------HHHHHHHHHH---TCSCBEEEEEEESS
T ss_pred             HHHHHHHHhcCCeEEEEeChHhcC-C----------------HHHHHHHHHH---HhCCCCeEEEEECh
Confidence            888888887777899999999864 1                1133444444   46889999988765

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

Probab=98.77  E-value=5e-08  Score=85.88  Aligned_cols=70  Identities=17%  Similarity=0.126  Sum_probs=45.6

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCC-C-----hHHHHHcCCCCCCeEEeCCCCHHH
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENAL-D-----PSLAEAMGIDAENLLIAQPDSAEN  185 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~-~-----~~~~~~~g~~~~~l~i~~~~~~e~  185 (315)
                      -+++|+++.|.||+|||||||+..+..-....++.+.+-..+... .     ..|.+.+|+-.++..+.+..++.+
T Consensus        27 ~i~~Ge~vaI~GpSGSGKSTLLniig~ld~pt~G~v~i~g~d~~~l~~~~~~~~R~~~iGfvFQ~~nLl~~ltv~E  102 (226)
T COG1136          27 EIEAGEFVAIVGPSGSGKSTLLNLLGGLDKPTSGEVLINGKDLTKLSEKELAKLRRKKIGFVFQNFNLLPDLTVLE  102 (226)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhcccCCCCceEEECCEEcCcCCHHHHHHHHHHhEEEECccCCCCCCCCHHH
Confidence            478999999999999999999966655544445555544323221 1     145667887777655555444443

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

Probab=98.70  E-value=8.4e-08  Score=86.08  Aligned_cols=125  Identities=19%  Similarity=0.280  Sum_probs=75.9

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCC---ChHHHHHcCCCCCC------eEEeC-------
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENAL---DPSLAEAMGIDAEN------LLIAQ-------  179 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~---~~~~~~~~g~~~~~------l~i~~-------  179 (315)
                      -+++|+++.|.||+|||||||...++.-.....+.| +++...-.   ..++|+.+++-++.      +.+.+       
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            467999999999999999999988877665444444 45543322   23677777765442      11110       


Q ss_pred             --------CC----------------------------CHHHHHHHHHHHHHcCCccEEeehhHhhhccccccCCCccCC
Q 021239          180 --------PD----------------------------SAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGM  223 (315)
Q Consensus       180 --------~~----------------------------~~e~~~~~i~~l~~~~~~~lVVIDsl~~l~~~~~~~~~~~~~  223 (315)
                              ..                            ..+...-++.+.+ ..+++++++|..+....   +       
T Consensus       103 p~~~~~~~~~~~D~~~v~~aL~~~~~~~la~r~~~~LSGGerQrv~iArAL-aQ~~~iLLLDEPTs~LD---i-------  171 (258)
T COG1120         103 PHLGLFGRPSKEDEEIVEEALELLGLEHLADRPVDELSGGERQRVLIARAL-AQETPILLLDEPTSHLD---I-------  171 (258)
T ss_pred             cccccccCCCHhHHHHHHHHHHHhCcHHHhcCcccccChhHHHHHHHHHHH-hcCCCEEEeCCCccccC---H-------
Confidence                    00                            0111111122222 24689999998887762   1       


Q ss_pred             ChHHHHHHHHHHHHHHHHHHhccCcEEEEEecccc
Q 021239          224 YSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVRF  258 (315)
Q Consensus       224 ~~~~q~r~i~~~l~~L~~~~~~~~i~VI~inq~~~  258 (315)
                        ..|. ++.+.++++.   ++.|.|||++-|--.
T Consensus       172 --~~Q~-evl~ll~~l~---~~~~~tvv~vlHDlN  200 (258)
T COG1120         172 --AHQI-EVLELLRDLN---REKGLTVVMVLHDLN  200 (258)
T ss_pred             --HHHH-HHHHHHHHHH---HhcCCEEEEEecCHH
Confidence              1233 3556666664   899999999988753

>PRK05800 cobU adenosylcobinamide kinase/adenosylcobinamide-phosphate guanylyltransferase; Validated

Probab=98.69  E-value=4.5e-08  Score=83.14  Aligned_cols=119  Identities=13%  Similarity=0.207  Sum_probs=70.7

Q ss_pred             cEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCChHHHHHcCC----CCCCeE-EeCCCCHHHHHHHHHHHHH
Q 021239          121 RIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGI----DAENLL-IAQPDSAENLLSVVDTLTK  195 (315)
Q Consensus       121 ~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~~~~~~~g~----~~~~l~-i~~~~~~e~~~~~i~~l~~  195 (315)
                      .+++|.|+||||||++|..++...   +.+++|+++....+.++.+++..    -++... +..+.+..+   .+...  
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            478999999999999999997654   55789999987777655444311    122222 222223333   23221  


Q ss_pred             cCCccEEeehhHhhhccccccCCCccCCChHHHHHHHHHHHHHHHHHHhccCcEEEEEecc
Q 021239          196 SGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQV  256 (315)
Q Consensus       196 ~~~~~lVVIDsl~~l~~~~~~~~~~~~~~~~~q~r~i~~~l~~L~~~~~~~~i~VI~inq~  256 (315)
                      ..+.++|+||+++.+.. ..+..+.        ...+...+..+...+++.++++|+++..
T Consensus        74 ~~~~~~VlID~Lt~~~~-n~l~~~~--------~~~~~~~l~~li~~L~~~~~tvVlVs~E  125 (170)
T PRK05800         74 AAPGRCVLVDCLTTWVT-NLLFEEG--------EEAIAAEIDALLAALQQLPAKIILVTNE  125 (170)
T ss_pred             cCCCCEEEehhHHHHHH-HHhcccc--------hHHHHHHHHHHHHHHHcCCCCEEEEEcC
Confidence            13467999999999973 2221110        0012233444555557778777776543

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

Probab=98.69  E-value=1.2e-07  Score=84.61  Aligned_cols=161  Identities=18%  Similarity=0.164  Sum_probs=99.0

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCC----ChHHHHHcCCCCCCe--EEeCC---------
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENAL----DPSLAEAMGIDAENL--LIAQP---------  180 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~----~~~~~~~~g~~~~~l--~i~~~---------  180 (315)
                      .+++|+.+.|.|++|||||||+..++.-.....+.+ +++.....    .....+..|+..+|-  .+..+         
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            578999999999999999999998887777666676 55544332    123445566543321  11111         


Q ss_pred             -----CCHHHHHHHHHHHHH----------------cCCccEEeehhHhhhccccccCCCccCCChHHHHHHHHHHHHHH
Q 021239          181 -----DSAENLLSVVDTLTK----------------SGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKI  239 (315)
Q Consensus       181 -----~~~e~~~~~i~~l~~----------------~~~~~lVVIDsl~~l~~~~~~~~~~~~~~~~~q~r~i~~~l~~L  239 (315)
                           .+.+++...+...++                .+..+.|.|.++-++-|.--+-+|+...++....+.+.+.+++|
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                 122333333332221                12235666666666665555555665555556566677777777


Q ss_pred             HHHHhccCcEEEEEeccccccCCCCCCCCCccccccccccccccceEEEEEecccccccC
Q 021239          240 HYSLCQSHTLIIFLNQVRFSAKSGQGLGRMDEVTSGGNALKFYAALRLRMMRTRLFKIAD  299 (315)
Q Consensus       240 ~~~~~~~~i~VI~inq~~~~~~~~~~~~~~~~~~~gG~~~~~~~~~rl~l~k~~~~k~~~  299 (315)
                      .   .+.+.|+|+++|....+..                   +++..+.+.+.+.+.++.
T Consensus       185 ~---~~~~~tii~~tHd~~~~~~-------------------~ad~v~vl~~G~i~~~g~  222 (235)
T COG1122         185 K---EEGGKTIIIVTHDLELVLE-------------------YADRVVVLDDGKILADGD  222 (235)
T ss_pred             H---hcCCCeEEEEeCcHHHHHh-------------------hCCEEEEEECCEEeecCC
Confidence            5   7778999999999876621                   556666666665545543

>smart00382 AAA ATPases associated with a variety of cellular activities

Probab=98.67  E-value=2.9e-07  Score=73.32  Aligned_cols=92  Identities=28%  Similarity=0.338  Sum_probs=60.2

Q ss_pred             CCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCChHHHHHcCCCCCCeEEeCCCCHHHHHHHHHHHHHcCC
Q 021239          119 KGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTKSGS  198 (315)
Q Consensus       119 ~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~~~~~~~g~~~~~l~i~~~~~~e~~~~~i~~l~~~~~  198 (315)
                      .+..++|+||||+|||+++..++......+..++|++.+............  ..................+...++...
T Consensus         1 ~~~~~~l~G~~G~GKTtl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~   78 (148)
T smart00382        1 PGEVILIVGPPGSGKTTLARALARELGPPGGGVIYIDGEDILEEVLDQLLL--IIVGGKKASGSGELRLRLALALARKLK   78 (148)
T ss_pred             CCCEEEEECCCCCcHHHHHHHHHhccCCCCCCEEEECCEEccccCHHHHHh--hhhhccCCCCCHHHHHHHHHHHHHhcC
Confidence            367899999999999999999998887665579999988776654333210  000000111222333334444455555


Q ss_pred             ccEEeehhHhhhcc
Q 021239          199 IDVIVVDSVAALIP  212 (315)
Q Consensus       199 ~~lVVIDsl~~l~~  212 (315)
                      +.+++||++..+..
T Consensus        79 ~~viiiDei~~~~~   92 (148)
T smart00382       79 PDVLILDEITSLLD   92 (148)
T ss_pred             CCEEEEECCcccCC
Confidence            89999999998873

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.

>TIGR01618 phage_P_loop phage nucleotide-binding protein

Probab=98.60  E-value=4.4e-07  Score=79.97  Aligned_cols=158  Identities=15%  Similarity=0.048  Sum_probs=86.7

Q ss_pred             CcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCChHHHHHcCC-CCCCeEEeCCCCHHHHHHHHHHHH-HcC
Q 021239          120 GRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGI-DAENLLIAQPDSAENLLSVVDTLT-KSG  197 (315)
Q Consensus       120 G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~~~~~~~g~-~~~~l~i~~~~~~e~~~~~i~~l~-~~~  197 (315)
                      ...++|+|+||+||||+|.+++       ++.++++++......    .|. +.+-+.+..+.+.+.+.+.+..+- ...
T Consensus        12 ~~~~liyG~~G~GKtt~a~~~~-------~~~~~~~~d~~~~~l----~g~~~~~v~~~d~~~~~~~~~d~l~~~~~~~~   80 (220)
T TIGR01618        12 PNMYLIYGKPGTGKTSTIKYLP-------GKTLVLSFDMSSKVL----IGDENVDIADHDDMPPIQAMVEFYVMQNIQAV   80 (220)
T ss_pred             CcEEEEECCCCCCHHHHHHhcC-------CCCEEEeccccchhc----cCCCCCceeecCCCCCHHHHHHHHHHHHhccc
Confidence            4679999999999999998772       567888888754321    111 111112234456677766665442 235


Q ss_pred             CccEEeehhHhhhcccc----ccCCCccCCChHHHHHHHHHHHHHHHHHHhccCcEEEEEeccccccCC---CCCCCCCc
Q 021239          198 SIDVIVVDSVAALIPKC----EIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVRFSAKS---GQGLGRMD  270 (315)
Q Consensus       198 ~~~lVVIDsl~~l~~~~----~~~~~~~~~~~~~q~r~i~~~l~~L~~~~~~~~i~VI~inq~~~~~~~---~~~~~~~~  270 (315)
                      +++.||||++..+....    .-.+..+.... .....+...+..+.+.+.+.+..||+++|.......   |+.|.  .
T Consensus        81 ~ydtVVIDsI~~l~~~~~~~~~r~~k~~~~~~-~~yg~~~~~fl~~l~~L~~~g~nII~tAhe~~~~~~de~G~~~~--r  157 (220)
T TIGR01618        81 KYDNIVIDNISALQNLWLENIGRAAKNGQPEL-QHYQKLDLWFLDLLTVLKESNKNIYATAWELTNQSSGESGQIYN--R  157 (220)
T ss_pred             cCCEEEEecHHHHHHHHHHHHhhhcCCCCccc-ccHHHHHHHHHHHHHHHHhCCCcEEEEEeeccccccCCCCCCcc--e
Confidence            68999999999886311    00011111000 001112223333333336689999999999643211   12121  1


Q ss_pred             ccccc----ccccccccceEEEEEe
Q 021239          271 EVTSG----GNALKFYAALRLRMMR  291 (315)
Q Consensus       271 ~~~~g----G~~~~~~~~~rl~l~k  291 (315)
                      ..|..    .+.+...+|...++..
T Consensus       158 ~~P~i~~K~~n~l~G~~DvV~rl~i  182 (220)
T TIGR01618       158 YQPDIREKVLNAFLGLTDVVGRIVL  182 (220)
T ss_pred             echhhhhhHHHhhcccccEEEEEEE
Confidence            22322    2345567788887763

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.

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

Probab=98.55  E-value=3.3e-07  Score=81.93  Aligned_cols=36  Identities=25%  Similarity=0.397  Sum_probs=28.8

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeE
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYC  151 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v  151 (315)
                      -+++|+++.|.||+|+|||||...++.-.....+.+
T Consensus        26 ~v~~G~~~~iiGPNGaGKSTLlK~iLGll~p~~G~i   61 (254)
T COG1121          26 SVEKGEITALIGPNGAGKSTLLKAILGLLKPSSGEI   61 (254)
T ss_pred             EEcCCcEEEEECCCCCCHHHHHHHHhCCCcCCcceE
Confidence            478999999999999999999998877554433333

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

Probab=98.54  E-value=5.6e-07  Score=79.83  Aligned_cols=72  Identities=17%  Similarity=0.164  Sum_probs=49.9

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCCh---HHHHHcCCCCCCeEEeCCCCHHHHHH
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP---SLAEAMGIDAENLLIAQPDSAENLLS  188 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~---~~~~~~g~~~~~l~i~~~~~~e~~~~  188 (315)
                      -++.|+++.+.||+||||||++..+- ........-++|+.+...+.   .+.+++|+..+++-+++..+.++.+.
T Consensus        23 ~I~~gef~vliGpSGsGKTTtLkMIN-rLiept~G~I~i~g~~i~~~d~~~LRr~IGYviQqigLFPh~Tv~eNIa   97 (309)
T COG1125          23 TIEEGEFLVLIGPSGSGKTTTLKMIN-RLIEPTSGEILIDGEDISDLDPVELRRKIGYVIQQIGLFPHLTVAENIA   97 (309)
T ss_pred             EecCCeEEEEECCCCCcHHHHHHHHh-cccCCCCceEEECCeecccCCHHHHHHhhhhhhhhcccCCCccHHHHHH
Confidence            47899999999999999999986554 34444444557777665543   56777888887766655555444433

>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=98.54  E-value=9.9e-07  Score=75.31  Aligned_cols=122  Identities=11%  Similarity=0.150  Sum_probs=68.4

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCC---------hHHHHHcCCCCC--CeEEeCCCCH-H
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALD---------PSLAEAMGIDAE--NLLIAQPDSA-E  184 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~---------~~~~~~~g~~~~--~l~i~~~~~~-e  184 (315)
                      +++|+++.|.||+|+|||||...+..    ..+.+.+........         ....+.+++...  +-........ .
T Consensus        18 i~~G~~~~l~G~nG~GKSTLl~~il~----~~G~v~~~~~~~~~~~~~~~~~~q~~~l~~~~L~~~~~~~~~~~LSgGq~   93 (176)
T cd03238          18 IPLNVLVVVTGVSGSGKSTLVNEGLY----ASGKARLISFLPKFSRNKLIFIDQLQFLIDVGLGYLTLGQKLSTLSGGEL   93 (176)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhh----cCCcEEECCcccccccccEEEEhHHHHHHHcCCCccccCCCcCcCCHHHH
Confidence            67999999999999999999987642    122332221100000         134555665421  1111111111 2


Q ss_pred             HHHHHHHHHHHcCCccEEeehhHhhhccccccCCCccCCChHHHHHHHHHHHHHHHHHHhccCcEEEEEeccccc
Q 021239          185 NLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVRFS  259 (315)
Q Consensus       185 ~~~~~i~~l~~~~~~~lVVIDsl~~l~~~~~~~~~~~~~~~~~q~r~i~~~l~~L~~~~~~~~i~VI~inq~~~~  259 (315)
                      +-+.+.+.++...+++++++|....-...             ...+.+.+.++.+    .+.+.+||+++|-...
T Consensus        94 qrl~laral~~~~~p~llLlDEPt~~LD~-------------~~~~~l~~~l~~~----~~~g~tvIivSH~~~~  151 (176)
T cd03238          94 QRVKLASELFSEPPGTLFILDEPSTGLHQ-------------QDINQLLEVIKGL----IDLGNTVILIEHNLDV  151 (176)
T ss_pred             HHHHHHHHHhhCCCCCEEEEeCCcccCCH-------------HHHHHHHHHHHHH----HhCCCEEEEEeCCHHH
Confidence            34455555655444999999987765521             2222344444444    3469999999998643

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.

>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=98.53  E-value=8.2e-07  Score=75.44  Aligned_cols=122  Identities=20%  Similarity=0.264  Sum_probs=73.4

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCC--C-hHHHHHcCCCCCCeEEeCCCCHHH--------
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENAL--D-PSLAEAMGIDAENLLIAQPDSAEN--------  185 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~--~-~~~~~~~g~~~~~l~i~~~~~~e~--------  185 (315)
                      +++|+++.|.|++|+|||||+..++.......+.+. ++.+...  . ..+.+.+++.+++..+... +..+        
T Consensus        25 i~~Ge~~~i~G~nGsGKStLl~~l~G~~~~~~G~i~-~~g~~~~~~~~~~~~~~i~~~~q~~~~~~~-tv~~~lLS~G~~  102 (173)
T cd03246          25 IEPGESLAIIGPSGSGKSTLARLILGLLRPTSGRVR-LDGADISQWDPNELGDHVGYLPQDDELFSG-SIAENILSGGQR  102 (173)
T ss_pred             ECCCCEEEEECCCCCCHHHHHHHHHhccCCCCCeEE-ECCEEcccCCHHHHHhheEEECCCCccccC-cHHHHCcCHHHH
Confidence            569999999999999999999988877655555554 4432211  1 1234455555554333322 3322        


Q ss_pred             -HHHHHHHHHHcCCccEEeehhHhhhccccccCCCccCCChHHHHHHHHHHHHHHHHHHhccCcEEEEEeccccc
Q 021239          186 -LLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVRFS  259 (315)
Q Consensus       186 -~~~~i~~l~~~~~~~lVVIDsl~~l~~~~~~~~~~~~~~~~~q~r~i~~~l~~L~~~~~~~~i~VI~inq~~~~  259 (315)
                       -+.+++.++  .+++++++|....-...             ...+.+.+.++.+    .+.+.++|+++|-...
T Consensus       103 qrv~la~al~--~~p~~lllDEPt~~LD~-------------~~~~~l~~~l~~~----~~~~~tii~~sh~~~~  158 (173)
T cd03246         103 QRLGLARALY--GNPRILVLDEPNSHLDV-------------EGERALNQAIAAL----KAAGATRIVIAHRPET  158 (173)
T ss_pred             HHHHHHHHHh--cCCCEEEEECCccccCH-------------HHHHHHHHHHHHH----HhCCCEEEEEeCCHHH
Confidence             223333333  47899999977755521             1122344555544    3458999999987543

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

>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=98.52  E-value=5e-07  Score=77.09  Aligned_cols=126  Identities=17%  Similarity=0.208  Sum_probs=72.8

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCC----ChHHHHHcCCCCCCeEEeCCCCHHH-------
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENAL----DPSLAEAMGIDAENLLIAQPDSAEN-------  185 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~----~~~~~~~~g~~~~~l~i~~~~~~e~-------  185 (315)
                      +++|+++.|.|++|+|||||+..++.......+.+.+-..+-..    ...+.+.+++.+++..+....+..+       
T Consensus        23 i~~G~~~~i~G~nGsGKSTLl~~l~G~~~~~~G~i~~~g~~~~~~~~~~~~~~~~i~~~~q~~~~~~~~t~~~~l~~~lS  102 (178)
T cd03229          23 IEAGEIVALLGPSGSGKSTLLRCIAGLEEPDSGSILIDGEDLTDLEDELPPLRRRIGMVFQDFALFPHLTVLENIALGLS  102 (178)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhCCCCCCceEEEECCEEccccchhHHHHhhcEEEEecCCccCCCCCHHHheeecCC
Confidence            57999999999999999999998887655445555442221111    1123334444444332222222222       


Q ss_pred             -----HHHHHHHHHHcCCccEEeehhHhhhccccccCCCccCCChHHHHHHHHHHHHHHHHHHhccCcEEEEEecccccc
Q 021239          186 -----LLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVRFSA  260 (315)
Q Consensus       186 -----~~~~i~~l~~~~~~~lVVIDsl~~l~~~~~~~~~~~~~~~~~q~r~i~~~l~~L~~~~~~~~i~VI~inq~~~~~  260 (315)
                           -+.+++.++  .+++++++|....-...             .....+.+.++++.   ++.+.++|+++|-....
T Consensus       103 ~G~~qr~~la~al~--~~p~llilDEP~~~LD~-------------~~~~~l~~~l~~~~---~~~~~tiii~sH~~~~~  164 (178)
T cd03229         103 GGQQQRVALARALA--MDPDVLLLDEPTSALDP-------------ITRREVRALLKSLQ---AQLGITVVLVTHDLDEA  164 (178)
T ss_pred             HHHHHHHHHHHHHH--CCCCEEEEeCCcccCCH-------------HHHHHHHHHHHHHH---HhcCCEEEEEeCCHHHH
Confidence                 222333333  47899999977654410             11223445555443   55589999999976554

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.

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

Probab=98.51  E-value=1.3e-06  Score=74.33  Aligned_cols=73  Identities=21%  Similarity=0.195  Sum_probs=53.6

Q ss_pred             cccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCCh-----HHHHHcCCCCCCe
Q 021239          101 ISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP-----SLAEAMGIDAENL  175 (315)
Q Consensus       101 i~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~-----~~~~~~g~~~~~l  175 (315)
                      .+.|-+.|+.+-=  -+++|+++.+.||+|+|||||..-+........+.+.+.+.+-+.-.     ...+++|+..++.
T Consensus        11 Y~~g~~aL~~vs~--~i~~Gef~fl~GpSGAGKSTllkLi~~~e~pt~G~i~~~~~dl~~l~~~~iP~LRR~IGvVFQD~   88 (223)
T COG2884          11 YPGGREALRDVSF--HIPKGEFVFLTGPSGAGKSTLLKLIYGEERPTRGKILVNGHDLSRLKGREIPFLRRQIGVVFQDF   88 (223)
T ss_pred             cCCCchhhhCceE--eecCceEEEEECCCCCCHHHHHHHHHhhhcCCCceEEECCeecccccccccchhhheeeeEeeec
Confidence            4556557776544  68899999999999999999999988888777778877766544321     3456677765543

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

Probab=98.51  E-value=4.2e-07  Score=83.85  Aligned_cols=130  Identities=15%  Similarity=0.180  Sum_probs=81.9

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCC-hHHHHHcCCCCCCeEEeCCCCHHHHHHHHHH--
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALD-PSLAEAMGIDAENLLIAQPDSAENLLSVVDT--  192 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~-~~~~~~~g~~~~~l~i~~~~~~e~~~~~i~~--  192 (315)
                      -+++|+++.|.||+|+||||+...++......++.+.+...+.... ....+++|+-+++..+....++.+.+..+..  
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            5789999999999999999999988887777777777666544443 2445567766654433333322222211110  


Q ss_pred             -------------HH-----------------------------HcCCccEEeehhHhhhccccccCCCccCCChHHHHH
Q 021239          193 -------------LT-----------------------------KSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSR  230 (315)
Q Consensus       193 -------------l~-----------------------------~~~~~~lVVIDsl~~l~~~~~~~~~~~~~~~~~q~r  230 (315)
                                   ++                             --.+|+++++|..+.=.             +....+
T Consensus       107 ~~~~~~~~~~~~~~l~~~~L~~~~~~~~~~lS~G~kqrl~ia~aL~~~P~lliLDEPt~GL-------------Dp~~~~  173 (293)
T COG1131         107 GLSKEEAEERIEELLELFGLEDKANKKVRTLSGGMKQRLSIALALLHDPELLILDEPTSGL-------------DPESRR  173 (293)
T ss_pred             CCChhHHHHHHHHHHHHcCCchhhCcchhhcCHHHHHHHHHHHHHhcCCCEEEECCCCcCC-------------CHHHHH
Confidence                         00                             02467888888655332             113334


Q ss_pred             HHHHHHHHHHHHHhccCcEEEEEeccccccC
Q 021239          231 IMTQALRKIHYSLCQSHTLIIFLNQVRFSAK  261 (315)
Q Consensus       231 ~i~~~l~~L~~~~~~~~i~VI~inq~~~~~~  261 (315)
                      .+.+.++.++   ++.+++|++++|....+.
T Consensus       174 ~~~~~l~~l~---~~g~~tvlissH~l~e~~  201 (293)
T COG1131         174 EIWELLRELA---KEGGVTILLSTHILEEAE  201 (293)
T ss_pred             HHHHHHHHHH---hCCCcEEEEeCCcHHHHH
Confidence            4566666664   666699999999987763

>PRK08727 hypothetical protein; Validated

Probab=98.50  E-value=9.9e-07  Score=78.71  Aligned_cols=131  Identities=18%  Similarity=0.265  Sum_probs=79.1

Q ss_pred             HHHHhhCcccccccccccCCCCCCccccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEe
Q 021239           76 QLANDFGKESMLSLKRFFGSRRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLD  155 (315)
Q Consensus        76 ~l~~~~~~~~~~~~~~~~~~~~~~~i~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~  155 (315)
                      |+..+++.....++.+|+.+.+ ..    ...+-.+.. |.  ....+.|+|++|+|||+|+..++..+...|.++.|++
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            6666777666677777653221 11    112112222 22  3467999999999999999999999888899999998


Q ss_pred             cCCCCChHHHHHcCCCCCCeEEeCCCCHHHHHHHHHHHHHcCCccEEeehhHhhhccccccCCCccCCChHHHHHHHHHH
Q 021239          156 VENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQA  235 (315)
Q Consensus       156 ~E~~~~~~~~~~~g~~~~~l~i~~~~~~e~~~~~i~~l~~~~~~~lVVIDsl~~l~~~~~~~~~~~~~~~~~q~r~i~~~  235 (315)
                      .++..                       ..+...+..+   .++++||||.+..+....            ...    ..
T Consensus        77 ~~~~~-----------------------~~~~~~~~~l---~~~dlLiIDDi~~l~~~~------------~~~----~~  114 (233)
T PRK08727         77 LQAAA-----------------------GRLRDALEAL---EGRSLVALDGLESIAGQR------------EDE----VA  114 (233)
T ss_pred             HHHhh-----------------------hhHHHHHHHH---hcCCEEEEeCcccccCCh------------HHH----HH
Confidence            53311                       1111222222   367899999987664210            111    12


Q ss_pred             HHHHHHHHhccCcEEEEEecc
Q 021239          236 LRKIHYSLCQSHTLIIFLNQV  256 (315)
Q Consensus       236 l~~L~~~~~~~~i~VI~inq~  256 (315)
                      +-.+.+..++.+..+|++++.
T Consensus       115 lf~l~n~~~~~~~~vI~ts~~  135 (233)
T PRK08727        115 LFDFHNRARAAGITLLYTARQ  135 (233)
T ss_pred             HHHHHHHHHHcCCeEEEECCC
Confidence            223444446667888887764

>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=98.49  E-value=6.6e-07  Score=76.00  Aligned_cols=124  Identities=16%  Similarity=0.211  Sum_probs=73.4

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCC--hHHHHHcCCCCCCeEEeCCCCHHHH--------
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALD--PSLAEAMGIDAENLLIAQPDSAENL--------  186 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~--~~~~~~~g~~~~~l~i~~~~~~e~~--------  186 (315)
                      +++|+++.|.|++|+|||||+..++.......+.+. ++.+....  ..+.+.+++.+++..+....+..+.        
T Consensus        23 i~~Ge~~~i~G~nGsGKStLl~~l~G~~~~~~G~i~-~~g~~~~~~~~~~~~~i~~~~q~~~~~~~~tv~~~~~LS~G~~  101 (173)
T cd03230          23 VEKGEIYGLLGPNGAGKTTLIKIILGLLKPDSGEIK-VLGKDIKKEPEEVKRRIGYLPEEPSLYENLTVRENLKLSGGMK  101 (173)
T ss_pred             EcCCcEEEEECCCCCCHHHHHHHHhCCCCCCCeEEE-ECCEEcccchHhhhccEEEEecCCccccCCcHHHHhhcCHHHH
Confidence            569999999999999999999988776554455554 43322111  2223345554444333332233222        


Q ss_pred             --HHHHHHHHHcCCccEEeehhHhhhccccccCCCccCCChHHHHHHHHHHHHHHHHHHhccCcEEEEEecccccc
Q 021239          187 --LSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVRFSA  260 (315)
Q Consensus       187 --~~~i~~l~~~~~~~lVVIDsl~~l~~~~~~~~~~~~~~~~~q~r~i~~~l~~L~~~~~~~~i~VI~inq~~~~~  260 (315)
                        +.+.+.++  .+|+++++|....-...             ...+.+.+.++++.   ++ +.++|+++|-....
T Consensus       102 qrv~laral~--~~p~illlDEPt~~LD~-------------~~~~~l~~~l~~~~---~~-g~tiii~th~~~~~  158 (173)
T cd03230         102 QRLALAQALL--HDPELLILDEPTSGLDP-------------ESRREFWELLRELK---KE-GKTILLSSHILEEA  158 (173)
T ss_pred             HHHHHHHHHH--cCCCEEEEeCCccCCCH-------------HHHHHHHHHHHHHH---HC-CCEEEEECCCHHHH
Confidence              22333333  47899999987765521             22233555555553   44 88999999876543

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.

>PRK05642 DNA replication initiation factor; Validated

Probab=98.48  E-value=1.9e-06  Score=76.95  Aligned_cols=135  Identities=15%  Similarity=0.243  Sum_probs=80.6

Q ss_pred             HHHHhhCcccccccccccCCCCCCccccCcHHHHHhhc-CCCCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEE
Q 021239           76 QLANDFGKESMLSLKRFFGSRRGPVISTGSLKLDLALG-IGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYL  154 (315)
Q Consensus        76 ~l~~~~~~~~~~~~~~~~~~~~~~~i~TG~~~LD~~l~-~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i  154 (315)
                      |+..++......++.+|+.+.+    ..-+..++.... .++++ ...+.|+|++|+|||+|+..++..+...+.+|+|+
T Consensus         5 Ql~l~~~~~~~~tfdnF~~~~~----~~a~~~~~~~~~~~~~~~-~~~l~l~G~~G~GKTHLl~a~~~~~~~~~~~v~y~   79 (234)
T PRK05642          5 QLPLGVRLRDDATFANYYPGAN----AAALGYVERLCEADAGWT-ESLIYLWGKDGVGRSHLLQAACLRFEQRGEPAVYL   79 (234)
T ss_pred             ccccCCCCCCcccccccCcCCh----HHHHHHHHHHhhccccCC-CCeEEEECCCCCCHHHHHHHHHHHHHhCCCcEEEe
Confidence            6666777666677777653321    111233333222 01222 35689999999999999998888877778899999


Q ss_pred             ecCCCCChHHHHHcCCCCCCeEEeCCCCHHHHHHHHHHHHHcCCccEEeehhHhhhccccccCCCccCCChHHHHHHHHH
Q 021239          155 DVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQ  234 (315)
Q Consensus       155 ~~E~~~~~~~~~~~g~~~~~l~i~~~~~~e~~~~~i~~l~~~~~~~lVVIDsl~~l~~~~~~~~~~~~~~~~~q~r~i~~  234 (315)
                      +.++-..                    ..+++.+.   +   .++++++||-++.+....            .    ...
T Consensus        80 ~~~~~~~--------------------~~~~~~~~---~---~~~d~LiiDDi~~~~~~~------------~----~~~  117 (234)
T PRK05642         80 PLAELLD--------------------RGPELLDN---L---EQYELVCLDDLDVIAGKA------------D----WEE  117 (234)
T ss_pred             eHHHHHh--------------------hhHHHHHh---h---hhCCEEEEechhhhcCCh------------H----HHH
Confidence            9643111                    01122222   1   146899999999775210            1    112


Q ss_pred             HHHHHHHHHhccCcEEEEEeccc
Q 021239          235 ALRKIHYSLCQSHTLIIFLNQVR  257 (315)
Q Consensus       235 ~l~~L~~~~~~~~i~VI~inq~~  257 (315)
                      .+..+.+.+.+.|..+|+++...
T Consensus       118 ~Lf~l~n~~~~~g~~ilits~~~  140 (234)
T PRK05642        118 ALFHLFNRLRDSGRRLLLAASKS  140 (234)
T ss_pred             HHHHHHHHHHhcCCEEEEeCCCC
Confidence            34445455577777777777653

>cd03216 ABC_Carb_Monos_I This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos)

Probab=98.47  E-value=5.6e-07  Score=75.77  Aligned_cols=118  Identities=15%  Similarity=0.272  Sum_probs=70.8

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCC--h-H-HHHHcCCCCCCeEEeCCCCHH-HHHHHHH
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALD--P-S-LAEAMGIDAENLLIAQPDSAE-NLLSVVD  191 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~--~-~-~~~~~g~~~~~l~i~~~~~~e-~~~~~i~  191 (315)
                      +++|+++.|.|++|+|||||+..++.......+.+. ++.+....  . . +.+.+++      +.+-...+ +-+...+
T Consensus        23 i~~Ge~~~l~G~nGsGKSTLl~~i~G~~~~~~G~v~-~~g~~~~~~~~~~~~~~~i~~------~~qLS~G~~qrl~lar   95 (163)
T cd03216          23 VRRGEVHALLGENGAGKSTLMKILSGLYKPDSGEIL-VDGKEVSFASPRDARRAGIAM------VYQLSVGERQMVEIAR   95 (163)
T ss_pred             EeCCCEEEEECCCCCCHHHHHHHHhCCCCCCCeEEE-ECCEECCcCCHHHHHhcCeEE------EEecCHHHHHHHHHHH
Confidence            679999999999999999999988776655555654 44322111  1 1 1122222      22222233 2333444


Q ss_pred             HHHHcCCccEEeehhHhhhccccccCCCccCCChHHHHHHHHHHHHHHHHHHhccCcEEEEEecccccc
Q 021239          192 TLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVRFSA  260 (315)
Q Consensus       192 ~l~~~~~~~lVVIDsl~~l~~~~~~~~~~~~~~~~~q~r~i~~~l~~L~~~~~~~~i~VI~inq~~~~~  260 (315)
                      .++  .+|+++++|....-..             ....+.+.+.++.+    .+.+.++|+++|.....
T Consensus        96 al~--~~p~illlDEP~~~LD-------------~~~~~~l~~~l~~~----~~~~~tiii~sh~~~~~  145 (163)
T cd03216          96 ALA--RNARLLILDEPTAALT-------------PAEVERLFKVIRRL----RAQGVAVIFISHRLDEV  145 (163)
T ss_pred             HHh--cCCCEEEEECCCcCCC-------------HHHHHHHHHHHHHH----HHCCCEEEEEeCCHHHH
Confidence            443  4789999997765441             02233355555555    33489999999886554

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.

>COG3845 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]

Probab=98.47  E-value=5.9e-07  Score=86.15  Aligned_cols=136  Identities=18%  Similarity=0.260  Sum_probs=83.5

Q ss_pred             CcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCCh-HHHHH--cCCCCC-------
Q 021239          104 GSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP-SLAEA--MGIDAE-------  173 (315)
Q Consensus       104 G~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~-~~~~~--~g~~~~-------  173 (315)
                      |+..+|..--  -+++|++..|.|++|+|||||+..+...+....+.+.+-.-+-.+.. .-|.+  +|+..+       
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            6777776544  68899999999999999999998887777665444433222222221 12222  222222       


Q ss_pred             -----CeE------------------------------------EeCCC-CHHHHHHHHHHHHHcCCccEEeehhHhhhc
Q 021239          174 -----NLL------------------------------------IAQPD-SAENLLSVVDTLTKSGSIDVIVVDSVAALI  211 (315)
Q Consensus       174 -----~l~------------------------------------i~~~~-~~e~~~~~i~~l~~~~~~~lVVIDsl~~l~  211 (315)
                           |+.                                    +.+.. ...+-+++++.+.  .+++++|+|..++..
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                 111                                    11111 1224455555554  378999999999887


Q ss_pred             cccccCCCccCCChHHHHHHHHHHHHHHHHHHhccCcEEEEEecccccc
Q 021239          212 PKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVRFSA  260 (315)
Q Consensus       212 ~~~~~~~~~~~~~~~~q~r~i~~~l~~L~~~~~~~~i~VI~inq~~~~~  260 (315)
                      ..             .....+.+.+++|    ++.|.+||+|+|--..+
T Consensus       172 TP-------------~E~~~lf~~l~~l----~~~G~tIi~ITHKL~Ev  203 (501)
T COG3845         172 TP-------------QEADELFEILRRL----AAEGKTIIFITHKLKEV  203 (501)
T ss_pred             CH-------------HHHHHHHHHHHHH----HHCCCEEEEEeccHHHH
Confidence            42             2334455555555    78899999999975443

>PRK06893 DNA replication initiation factor; Validated

Probab=98.47  E-value=1.4e-06  Score=77.43  Aligned_cols=75  Identities=17%  Similarity=0.111  Sum_probs=50.0

Q ss_pred             HHHHhhCcccccccccccCCCCCCccccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEe
Q 021239           76 QLANDFGKESMLSLKRFFGSRRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLD  155 (315)
Q Consensus        76 ~l~~~~~~~~~~~~~~~~~~~~~~~i~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~  155 (315)
                      |+..+++.....++.+|+.+.+..    ....+-+... +  .....+.|+||||+|||+|+..++.++..++.++.|++
T Consensus         2 Ql~l~~~~~~~~~fd~f~~~~~~~----~~~~~~~~~~-~--~~~~~l~l~G~~G~GKThL~~ai~~~~~~~~~~~~y~~   74 (229)
T PRK06893          2 QLPLPIHQIDDETLDNFYADNNLL----LLDSLRKNFI-D--LQQPFFYIWGGKSSGKSHLLKAVSNHYLLNQRTAIYIP   74 (229)
T ss_pred             CcccCCCCCCcccccccccCChHH----HHHHHHHHhh-c--cCCCeEEEECCCCCCHHHHHHHHHHHHHHcCCCeEEee
Confidence            445556665556777766433211    1122222233 2  22346899999999999999999999988888999999


Q ss_pred             cC
Q 021239          156 VE  157 (315)
Q Consensus       156 ~E  157 (315)
                      .+
T Consensus        75 ~~   76 (229)
T PRK06893         75 LS   76 (229)
T ss_pred             HH
Confidence            64

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

Probab=98.46  E-value=6.2e-07  Score=83.56  Aligned_cols=61  Identities=20%  Similarity=0.315  Sum_probs=39.5

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCC-hHHHHHcCCCCCCeEEe
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALD-PSLAEAMGIDAENLLIA  178 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~-~~~~~~~g~~~~~l~i~  178 (315)
                      ++.|+++.|.||+||||||++..+|.--...++.+ +|+.+.-.+ +..-+.+++.+++..++
T Consensus        26 i~~Gef~vllGPSGcGKSTlLr~IAGLe~~~~G~I-~i~g~~vt~l~P~~R~iamVFQ~yALy   87 (338)
T COG3839          26 IEDGEFVVLLGPSGCGKSTLLRMIAGLEEPTSGEI-LIDGRDVTDLPPEKRGIAMVFQNYALY   87 (338)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhCCCCCCCceE-EECCEECCCCChhHCCEEEEeCCcccc
Confidence            56899999999999999999988876655555554 454433222 23334455555544333

>PRK13537 nodulation ABC transporter NodI; Provisional

Probab=98.45  E-value=8.2e-07  Score=82.45  Aligned_cols=38  Identities=18%  Similarity=0.274  Sum_probs=31.0

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEE
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAY  153 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~  153 (315)
                      -+++|+++.|.||+|+|||||+..++.......+.+.+
T Consensus        29 ~i~~Gei~gllGpNGaGKSTLl~~l~Gl~~p~~G~v~i   66 (306)
T PRK13537         29 HVQRGECFGLLGPNGAGKTTTLRMLLGLTHPDAGSISL   66 (306)
T ss_pred             EEeCCcEEEEECCCCCCHHHHHHHHhcCCCCCceEEEE
Confidence            46799999999999999999999888766555555544

>PRK08084 DNA replication initiation factor; Provisional

Probab=98.45  E-value=2.5e-06  Score=76.24  Aligned_cols=77  Identities=17%  Similarity=0.260  Sum_probs=53.3

Q ss_pred             HHHHHhhCcccccccccccCCCCCCccccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEE
Q 021239           75 SQLANDFGKESMLSLKRFFGSRRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYL  154 (315)
Q Consensus        75 ~~l~~~~~~~~~~~~~~~~~~~~~~~i~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i  154 (315)
                      .|+..+++-....++.+|+.+.+...    +..+..+.. +  +.+..+.|+||+|+|||+|+..++..+...|.++.|+
T Consensus         7 ~Ql~l~~~~~~~~~fd~f~~~~n~~a----~~~l~~~~~-~--~~~~~l~l~Gp~G~GKThLl~a~~~~~~~~~~~v~y~   79 (235)
T PRK08084          7 AQLSLPLYLPDDETFASFYPGDNDSL----LAALQNALR-Q--EHSGYIYLWSREGAGRSHLLHAACAELSQRGRAVGYV   79 (235)
T ss_pred             cceecCCCCCCcCCccccccCccHHH----HHHHHHHHh-C--CCCCeEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEE
Confidence            36666666665666666654322221    244555443 1  2345899999999999999999998888888999999


Q ss_pred             ecCC
Q 021239          155 DVEN  158 (315)
Q Consensus       155 ~~E~  158 (315)
                      +.+.
T Consensus        80 ~~~~   83 (235)
T PRK08084         80 PLDK   83 (235)
T ss_pred             EHHH
Confidence            9753

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

Probab=98.44  E-value=3.7e-06  Score=72.28  Aligned_cols=125  Identities=16%  Similarity=0.217  Sum_probs=75.1

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEec-CCCCCh-HHHHHcCCCCCCeEEeCCCCHHHH-------
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDV-ENALDP-SLAEAMGIDAENLLIAQPDSAENL-------  186 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~-E~~~~~-~~~~~~g~~~~~l~i~~~~~~e~~-------  186 (315)
                      -.+.|+++.|.||+|+||||++.-++.-.....++| +++. +-...+ ...+.+|+.....-++...++++.       
T Consensus        24 ~ae~Gei~GlLG~NGAGKTT~LRmiatlL~P~~G~v-~idg~d~~~~p~~vrr~IGVl~~e~glY~RlT~rEnl~~Fa~L  102 (245)
T COG4555          24 EAEEGEITGLLGENGAGKTTLLRMIATLLIPDSGKV-TIDGVDTVRDPSFVRRKIGVLFGERGLYARLTARENLKYFARL  102 (245)
T ss_pred             EeccceEEEEEcCCCCCchhHHHHHHHhccCCCceE-EEeecccccChHHHhhhcceecCCcChhhhhhHHHHHHHHHHH
Confidence            467899999999999999999987776666555544 5554 333333 344556655443222222222211       


Q ss_pred             ---------------------------------------HHHHHHHHHcCCccEEeehhHhhhccccccCCCccCCChHH
Q 021239          187 ---------------------------------------LSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDA  227 (315)
Q Consensus       187 ---------------------------------------~~~i~~l~~~~~~~lVVIDsl~~l~~~~~~~~~~~~~~~~~  227 (315)
                                                             +.+.+.+  -++|+++|+|....=.             +-.
T Consensus       103 ~~l~~~~~kari~~l~k~l~l~~~~~rRv~~~S~G~kqkV~iARAl--vh~P~i~vlDEP~sGL-------------Di~  167 (245)
T COG4555         103 NGLSRKEIKARIAELSKRLQLLEYLDRRVGEFSTGMKQKVAIARAL--VHDPSILVLDEPTSGL-------------DIR  167 (245)
T ss_pred             hhhhhhHHHHHHHHHHHHhChHHHHHHHHhhhchhhHHHHHHHHHH--hcCCCeEEEcCCCCCc-------------cHH
Confidence                                                   1111122  2578999999654322             112


Q ss_pred             HHHHHHHHHHHHHHHHhccCcEEEEEecccccc
Q 021239          228 QSRIMTQALRKIHYSLCQSHTLIIFLNQVRFSA  260 (315)
Q Consensus       228 q~r~i~~~l~~L~~~~~~~~i~VI~inq~~~~~  260 (315)
                      ..+.+.++++++    +..|-+||+.+|....+
T Consensus       168 ~~r~~~dfi~q~----k~egr~viFSSH~m~Ev  196 (245)
T COG4555         168 TRRKFHDFIKQL----KNEGRAVIFSSHIMQEV  196 (245)
T ss_pred             HHHHHHHHHHHh----hcCCcEEEEecccHHHH
Confidence            233444555554    77899999999998877

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

Probab=98.42  E-value=4.1e-07  Score=85.21  Aligned_cols=68  Identities=19%  Similarity=0.190  Sum_probs=46.9

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCChHHHHHcCCCCCCeEEeCCCCH
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSA  183 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~~~~~~~g~~~~~l~i~~~~~~  183 (315)
                      -+++|+++.|.||+||||||++..+|.-....++.+.+-.-+-+.-+...+.+|+.+++.-+++..+.
T Consensus        27 ~i~~Gef~~lLGPSGcGKTTlLR~IAGfe~p~~G~I~l~G~~i~~lpp~kR~ig~VFQ~YALFPHltV   94 (352)
T COG3842          27 DIKKGEFVTLLGPSGCGKTTLLRMIAGFEQPSSGEILLDGEDITDVPPEKRPIGMVFQSYALFPHMTV   94 (352)
T ss_pred             eecCCcEEEEECCCCCCHHHHHHHHhCCCCCCCceEEECCEECCCCChhhcccceeecCcccCCCCcH
Confidence            57899999999999999999999888777666666543333333333445667777776555544433

>KOG2859 consensus DNA repair protein, member of the recA/RAD51 family [Replication, recombination and repair]

Probab=98.42  E-value=2.3e-06  Score=74.01  Aligned_cols=137  Identities=14%  Similarity=0.131  Sum_probs=85.0

Q ss_pred             CCCcEEEEEecCCCChhHHHHHHHHHHHh------cCCeEEEEecCCCCChHHHHH-c-----CCCC-------------
Q 021239          118 PKGRIVEIYGREASGKTTLALHVIKEAQK------LGGYCAYLDVENALDPSLAEA-M-----GIDA-------------  172 (315)
Q Consensus       118 ~~G~i~~i~G~~GsGKTtlal~la~~~~~------~g~~v~~i~~E~~~~~~~~~~-~-----g~~~-------------  172 (315)
                      ..|++++|.||.++|||.+..|+++.+..      .+..|+|++++..++..+... +     ..+.             
T Consensus        36 daG~~vEi~Gp~~sgKt~vL~ql~a~CilPk~~GGl~~~VLfidld~~fd~lrL~~~l~hrL~q~~~~e~~~~~c~te~~  115 (293)
T KOG2859|consen   36 DAGTLVEISGPGNSGKTLVLQQLVAHCILPKKFGGLQWSVLFIDLDHKFDRLRLAKSLRHRLKQYSVGEVIAAKCPTEEQ  115 (293)
T ss_pred             ccCcEEEEeCCCCccHHHHHHHHHHHeecccccCCceeEEEEEeccccccHHHHHHHHHHHHHHhhhhhhhhhcCCcHhH
Confidence            36899999999999999999999988764      235799999999998743211 1     1111             


Q ss_pred             ---------CCeEEeCCCCHHHHHHHHH---HH-HHcCCccEEeehhHhhhccccccCCCccCCChHHHHHHHHHHHHHH
Q 021239          173 ---------ENLLIAQPDSAENLLSVVD---TL-TKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKI  239 (315)
Q Consensus       173 ---------~~l~i~~~~~~e~~~~~i~---~l-~~~~~~~lVVIDsl~~l~~~~~~~~~~~~~~~~~q~r~i~~~l~~L  239 (315)
                               .++.+..+....++...+.   .. +.+.+..++++||+.+++..++...-  + ....+.+.+......|
T Consensus       116 ~eEi~~~Cm~Rf~~v~C~~s~~ll~sL~~l~y~i~~~p~~cll~~DslsaFyW~Dr~~~l--e-~~n~~~~~lr~~~q~L  192 (293)
T KOG2859|consen  116 LEEIAGECMSRFRFVNCFASDDLLTSLIDLRYAIINDPGICLLAMDSLSAFYWLDRPKIL--E-KRNSMYRHLRLLQQRL  192 (293)
T ss_pred             HHHHHHHHHhhEEEEEeeccHHHHHHHHHHHHHHhcCCceeEEeecchhhheeecccchH--h-hhhhHHHHHHHHHHHH
Confidence                     1334444443344333322   22 34556899999999999865444331  1 1112333333444455


Q ss_pred             HHHHhccCcEEEEEeccc
Q 021239          240 HYSLCQSHTLIIFLNQVR  257 (315)
Q Consensus       240 ~~~~~~~~i~VI~inq~~  257 (315)
                      .++++.+-..++.+.+..
T Consensus       193 eKL~~d~~lv~~aT~~ti  210 (293)
T KOG2859|consen  193 EKLCKDAILVGMATVETI  210 (293)
T ss_pred             HHHHhhheeeeeeehhHH
Confidence            555677777777777654

>PF01695 IstB_IS21: IstB-like ATP binding protein; InterPro: IPR002611 Proteins in this entry contain an ATP/GTP binding P-loop motif

Probab=98.42  E-value=1e-06  Score=75.44  Aligned_cols=77  Identities=23%  Similarity=0.431  Sum_probs=49.6

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCChHHHHHcCCCCCCeEEeCCCCHHHHHHHHHHHHHc
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTKS  196 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~~~~~~~g~~~~~l~i~~~~~~e~~~~~i~~l~~~  196 (315)
                      +..+.-++|+|++|+|||+||..++.++...|.+|.|++..+     +...+...      ......++.   +..+   
T Consensus        44 ~~~~~~l~l~G~~G~GKThLa~ai~~~~~~~g~~v~f~~~~~-----L~~~l~~~------~~~~~~~~~---~~~l---  106 (178)
T PF01695_consen   44 IENGENLILYGPPGTGKTHLAVAIANEAIRKGYSVLFITASD-----LLDELKQS------RSDGSYEEL---LKRL---  106 (178)
T ss_dssp             -SC--EEEEEESTTSSHHHHHHHHHHHHHHTT--EEEEEHHH-----HHHHHHCC------HCCTTHCHH---HHHH---
T ss_pred             cccCeEEEEEhhHhHHHHHHHHHHHHHhccCCcceeEeecCc-----eecccccc------ccccchhhh---cCcc---
Confidence            456778999999999999999999999999999999998533     22222110      011222333   3333   


Q ss_pred             CCccEEeehhHhhh
Q 021239          197 GSIDVIVVDSVAAL  210 (315)
Q Consensus       197 ~~~~lVVIDsl~~l  210 (315)
                      .+++++|||.+...
T Consensus       107 ~~~dlLilDDlG~~  120 (178)
T PF01695_consen  107 KRVDLLILDDLGYE  120 (178)
T ss_dssp             HTSSCEEEETCTSS
T ss_pred             ccccEeccccccee
Confidence            26899999998744

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.

>cd03256 ABC_PhnC_transporter ABC-type phosphate/phosphonate transport system

Probab=98.41  E-value=1.5e-06  Score=77.53  Aligned_cols=38  Identities=21%  Similarity=0.300  Sum_probs=30.3

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEE
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAY  153 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~  153 (315)
                      -+++|+++.|.|++|+|||||+..++.......+.+.|
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            36799999999999999999999888765444455433

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.

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

Probab=98.40  E-value=2.3e-06  Score=74.31  Aligned_cols=63  Identities=24%  Similarity=0.240  Sum_probs=41.9

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCC---h-HHHHHcCCCCCCeEEeC
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALD---P-SLAEAMGIDAENLLIAQ  179 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~---~-~~~~~~g~~~~~l~i~~  179 (315)
                      -+.+|+++.|+||+|||||||+..+..--...+ .-++++.+....   . ...+..|+..+++.+++
T Consensus        24 ~v~~Gevv~iiGpSGSGKSTlLRclN~LE~~~~-G~I~i~g~~~~~~~~~~~~R~~vGmVFQ~fnLFP   90 (240)
T COG1126          24 SVEKGEVVVIIGPSGSGKSTLLRCLNGLEEPDS-GSITVDGEDVGDKKDILKLRRKVGMVFQQFNLFP   90 (240)
T ss_pred             eEcCCCEEEEECCCCCCHHHHHHHHHCCcCCCC-ceEEECCEeccchhhHHHHHHhcCeecccccccc
Confidence            367999999999999999999987644333333 345676643322   1 34556788777655443

>cd03228 ABCC_MRP_Like The MRP (Mutidrug Resistance Protein)-like transporters are involved in drug, peptide, and lipid export

Probab=98.40  E-value=1.4e-06  Score=73.89  Aligned_cols=122  Identities=16%  Similarity=0.249  Sum_probs=72.1

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCC---ChHHHHHcCCCCCCeEEeCCCCHHHH-------
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENAL---DPSLAEAMGIDAENLLIAQPDSAENL-------  186 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~---~~~~~~~~g~~~~~l~i~~~~~~e~~-------  186 (315)
                      +++|+++.|.||+|+|||||+..++.......+.+. ++.+...   ...+.+.+++-+++..+.+ .+..+.       
T Consensus        25 i~~G~~~~l~G~nGsGKstLl~~i~G~~~~~~G~i~-~~g~~~~~~~~~~~~~~i~~~~~~~~~~~-~t~~e~lLS~G~~  102 (171)
T cd03228          25 IKPGEKVAIVGPSGSGKSTLLKLLLRLYDPTSGEIL-IDGVDLRDLDLESLRKNIAYVPQDPFLFS-GTIRENILSGGQR  102 (171)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHHcCCCCCCCEEE-ECCEEhhhcCHHHHHhhEEEEcCCchhcc-chHHHHhhCHHHH
Confidence            679999999999999999999888877655556654 4443211   1123344555444433332 233221       


Q ss_pred             --HHHHHHHHHcCCccEEeehhHhhhccccccCCCccCCChHHHHHHHHHHHHHHHHHHhccCcEEEEEecccccc
Q 021239          187 --LSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVRFSA  260 (315)
Q Consensus       187 --~~~i~~l~~~~~~~lVVIDsl~~l~~~~~~~~~~~~~~~~~q~r~i~~~l~~L~~~~~~~~i~VI~inq~~~~~  260 (315)
                        +.+.+.++  .+|+++++|....-...             .....+.+.++.+    .+ +.++|+++|.....
T Consensus       103 ~rl~la~al~--~~p~llllDEP~~gLD~-------------~~~~~l~~~l~~~----~~-~~tii~~sh~~~~~  158 (171)
T cd03228         103 QRIAIARALL--RDPPILILDEATSALDP-------------ETEALILEALRAL----AK-GKTVIVIAHRLSTI  158 (171)
T ss_pred             HHHHHHHHHh--cCCCEEEEECCCcCCCH-------------HHHHHHHHHHHHh----cC-CCEEEEEecCHHHH
Confidence              22333333  47899999977654410             1122344444444    23 58999999876544

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.

>PRK06526 transposase; Provisional

Probab=98.39  E-value=1.6e-06  Score=78.39  Aligned_cols=40  Identities=23%  Similarity=0.243  Sum_probs=35.3

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEec
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDV  156 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~  156 (315)
                      +..+..++|+||||+|||+++..++..++..|.+|+|++.
T Consensus        95 i~~~~nlll~Gp~GtGKThLa~al~~~a~~~g~~v~f~t~  134 (254)
T PRK06526         95 VTGKENVVFLGPPGTGKTHLAIGLGIRACQAGHRVLFATA  134 (254)
T ss_pred             hhcCceEEEEeCCCCchHHHHHHHHHHHHHCCCchhhhhH
Confidence            4467789999999999999999999999999999988764

>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=98.39  E-value=1.5e-06  Score=74.32  Aligned_cols=113  Identities=13%  Similarity=0.168  Sum_probs=67.7

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCChHHHHHcCCCCCCeEEeCCCCHH-HHHHHHHHHHH
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAE-NLLSVVDTLTK  195 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~~~~~~~g~~~~~l~i~~~~~~e-~~~~~i~~l~~  195 (315)
                      +++|+++.|.||+|+|||||+..++......++.+.|-..          .+++.+++..   ....+ +.+...+.++ 
T Consensus        22 i~~Ge~~~l~G~nGsGKSTLl~~l~Gl~~p~~G~i~~~g~----------~i~~~~q~~~---LSgGq~qrv~laral~-   87 (177)
T cd03222          22 VKEGEVIGIVGPNGTGKTTAVKILAGQLIPNGDNDEWDGI----------TPVYKPQYID---LSGGELQRVAIAAALL-   87 (177)
T ss_pred             ECCCCEEEEECCCCChHHHHHHHHHcCCCCCCcEEEECCE----------EEEEEcccCC---CCHHHHHHHHHHHHHh-
Confidence            6899999999999999999998887766555566544221          0111111111   11122 3344444444 


Q ss_pred             cCCccEEeehhHhhhccccccCCCccCCChHHHHHHHHHHHHHHHHHHhccCcEEEEEecccccc
Q 021239          196 SGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVRFSA  260 (315)
Q Consensus       196 ~~~~~lVVIDsl~~l~~~~~~~~~~~~~~~~~q~r~i~~~l~~L~~~~~~~~i~VI~inq~~~~~  260 (315)
                       .+++++++|....-...             ...+.+.+.++++.   ++.+.+||+++|.....
T Consensus        88 -~~p~lllLDEPts~LD~-------------~~~~~l~~~l~~~~---~~~~~tiiivsH~~~~~  135 (177)
T cd03222          88 -RNATFYLFDEPSAYLDI-------------EQRLNAARAIRRLS---EEGKKTALVVEHDLAVL  135 (177)
T ss_pred             -cCCCEEEEECCcccCCH-------------HHHHHHHHHHHHHH---HcCCCEEEEEECCHHHH
Confidence             47899999977655421             11223444454442   44458999999986554

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=98.39  E-value=1.5e-06  Score=76.14  Aligned_cols=36  Identities=28%  Similarity=0.346  Sum_probs=28.9

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeE
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYC  151 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v  151 (315)
                      -+.+|+++.|.||+|+|||||+..++.......+.+
T Consensus        20 ~i~~Ge~~~l~G~nGsGKSTLl~~l~gl~~~~~G~i   55 (211)
T cd03298          20 TFAQGEITAIVGPSGSGKSTLLNLIAGFETPQSGRV   55 (211)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhCCCCCCCceE
Confidence            367999999999999999999988876654444444

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.

>cd03259 ABC_Carb_Solutes_like ABC Carbohydrate and Solute Transporters-like subgroup

Probab=98.39  E-value=1.5e-06  Score=76.27  Aligned_cols=37  Identities=22%  Similarity=0.267  Sum_probs=29.4

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEE
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCA  152 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~  152 (315)
                      -+++|+++.|.|++|+|||||+..++.......+.+.
T Consensus        22 ~i~~Ge~~~i~G~nGsGKSTLl~~l~G~~~p~~G~i~   58 (213)
T cd03259          22 TVEPGEFLALLGPSGCGKTTLLRLIAGLERPDSGEIL   58 (213)
T ss_pred             EEcCCcEEEEECCCCCCHHHHHHHHhCCCCCCCeEEE
Confidence            3679999999999999999999888766544444443

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.

>PRK08181 transposase; Validated

Probab=98.39  E-value=2.5e-06  Score=77.64  Aligned_cols=77  Identities=18%  Similarity=0.310  Sum_probs=52.1

Q ss_pred             CCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCChHHHHHcCCCCCCeEEeCCCCHHHHHHHHHHHHHcC
Q 021239          118 PKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTKSG  197 (315)
Q Consensus       118 ~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~~~~~~~g~~~~~l~i~~~~~~e~~~~~i~~l~~~~  197 (315)
                      ..+..++|+||||+|||+|+..++..+...|.+|+|++..+     ....+...      ....+.++.   +..+   .
T Consensus       104 ~~~~nlll~Gp~GtGKTHLa~Aia~~a~~~g~~v~f~~~~~-----L~~~l~~a------~~~~~~~~~---l~~l---~  166 (269)
T PRK08181        104 AKGANLLLFGPPGGGKSHLAAAIGLALIENGWRVLFTRTTD-----LVQKLQVA------RRELQLESA---IAKL---D  166 (269)
T ss_pred             hcCceEEEEecCCCcHHHHHHHHHHHHHHcCCceeeeeHHH-----HHHHHHHH------HhCCcHHHH---HHHH---h
Confidence            46778999999999999999999999998999999998532     11111000      001122222   2222   3


Q ss_pred             CccEEeehhHhhhc
Q 021239          198 SIDVIVVDSVAALI  211 (315)
Q Consensus       198 ~~~lVVIDsl~~l~  211 (315)
                      +++++|||.+....
T Consensus       167 ~~dLLIIDDlg~~~  180 (269)
T PRK08181        167 KFDLLILDDLAYVT  180 (269)
T ss_pred             cCCEEEEecccccc
Confidence            68999999997654

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

Probab=98.39  E-value=1.1e-06  Score=77.58  Aligned_cols=123  Identities=16%  Similarity=0.240  Sum_probs=72.7

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCChHHHHHcCCCCCCeEEeCCCCHH-----------
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAE-----------  184 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~~~~~~~g~~~~~l~i~~~~~~e-----------  184 (315)
                      -+++|.+..+.|++|+||||....+..-.-...+.+-|...+-  ....-.++|+-+++--+++..+.+           
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            3679999999999999999998776655544455665555322  223344555544422211111111           


Q ss_pred             -----------------------------------HHHHHHHHHHHcCCccEEeehh-HhhhccccccCCCccCCChHHH
Q 021239          185 -----------------------------------NLLSVVDTLTKSGSIDVIVVDS-VAALIPKCEIGVPINGMYSDAQ  228 (315)
Q Consensus       185 -----------------------------------~~~~~i~~l~~~~~~~lVVIDs-l~~l~~~~~~~~~~~~~~~~~q  228 (315)
                                                         +-++.+..+  -+.|++||+|. ++.+-|              ..
T Consensus       102 m~~~e~~~~~~~wLer~~i~~~~~~kIk~LSKGnqQKIQfisav--iHePeLlILDEPFSGLDP--------------VN  165 (300)
T COG4152         102 MPKAEIQKKLQAWLERLEIVGKKTKKIKELSKGNQQKIQFISAV--IHEPELLILDEPFSGLDP--------------VN  165 (300)
T ss_pred             CcHHHHHHHHHHHHHhccccccccchHHHhhhhhhHHHHHHHHH--hcCCCEEEecCCccCCCh--------------hh
Confidence                                               111222222  26799999994 344432              22


Q ss_pred             HHHHHHHHHHHHHHHhccCcEEEEEecccccc
Q 021239          229 SRIMTQALRKIHYSLCQSHTLIIFLNQVRFSA  260 (315)
Q Consensus       229 ~r~i~~~l~~L~~~~~~~~i~VI~inq~~~~~  260 (315)
                      .+    .|+....-.++.|.|||+.+|.+..+
T Consensus       166 ~e----lLk~~I~~lk~~GatIifSsH~Me~v  193 (300)
T COG4152         166 VE----LLKDAIFELKEEGATIIFSSHRMEHV  193 (300)
T ss_pred             HH----HHHHHHHHHHhcCCEEEEecchHHHH
Confidence            22    34444444488999999999998876

>cd03301 ABC_MalK_N The N-terminal ATPase domain of the maltose transporter, MalK

Probab=98.38  E-value=1.2e-06  Score=76.79  Aligned_cols=37  Identities=22%  Similarity=0.284  Sum_probs=29.7

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEE
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCA  152 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~  152 (315)
                      -+++|+++.|.|++|+|||||+..++......++.+.
T Consensus        22 ~i~~Ge~~~l~G~nGsGKSTLl~~l~G~~~~~~G~v~   58 (213)
T cd03301          22 DIADGEFVVLLGPSGCGKTTTLRMIAGLEEPTSGRIY   58 (213)
T ss_pred             EEcCCcEEEEECCCCCCHHHHHHHHhCCCCCCceEEE
Confidence            3679999999999999999999888876544444443

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.

>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=98.38  E-value=2.7e-06  Score=68.05  Aligned_cols=113  Identities=20%  Similarity=0.247  Sum_probs=64.6

Q ss_pred             EEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCChHHHHHcCCCCCCeEEeCCCCHHHHHHHHHHHHHcCC-ccE
Q 021239          123 VEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTKSGS-IDV  201 (315)
Q Consensus       123 ~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~~~~~~~g~~~~~l~i~~~~~~e~~~~~i~~l~~~~~-~~l  201 (315)
                      ++|+||||+|||+++..++...   +.+++.++...-...               ........+...+.+ +.... +.+
T Consensus         1 ill~G~~G~GKT~l~~~la~~l---~~~~~~i~~~~~~~~---------------~~~~~~~~i~~~~~~-~~~~~~~~v   61 (132)
T PF00004_consen    1 ILLHGPPGTGKTTLARALAQYL---GFPFIEIDGSELISS---------------YAGDSEQKIRDFFKK-AKKSAKPCV   61 (132)
T ss_dssp             EEEESSTTSSHHHHHHHHHHHT---TSEEEEEETTHHHTS---------------STTHHHHHHHHHHHH-HHHTSTSEE
T ss_pred             CEEECcCCCCeeHHHHHHHhhc---ccccccccccccccc---------------ccccccccccccccc-cccccccee
Confidence            5799999999999999988776   566777775332110               011112233344444 33344 899


Q ss_pred             EeehhHhhhccccccCCCccCCChHHHHHHHHHHHHHHHHHHhc-cCcEEEEEecccccc
Q 021239          202 IVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQ-SHTLIIFLNQVRFSA  260 (315)
Q Consensus       202 VVIDsl~~l~~~~~~~~~~~~~~~~~q~r~i~~~l~~L~~~~~~-~~i~VI~inq~~~~~  260 (315)
                      ++||.+..+.+..  ...    ......+.+...+..+...... .++.||++++..+.+
T Consensus        62 l~iDe~d~l~~~~--~~~----~~~~~~~~~~~L~~~l~~~~~~~~~~~vI~ttn~~~~i  115 (132)
T PF00004_consen   62 LFIDEIDKLFPKS--QPS----SSSFEQRLLNQLLSLLDNPSSKNSRVIVIATTNSPDKI  115 (132)
T ss_dssp             EEEETGGGTSHHC--STS----SSHHHHHHHHHHHHHHHTTTTTSSSEEEEEEESSGGGS
T ss_pred             eeeccchhccccc--ccc----cccccccccceeeecccccccccccceeEEeeCChhhC
Confidence            9999999998533  111    1112222233333334322222 457888888775555

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 ....

>TIGR01277 thiQ thiamine ABC transporter, ATP-binding protein

Probab=98.38  E-value=1.7e-06  Score=75.88  Aligned_cols=36  Identities=28%  Similarity=0.372  Sum_probs=29.8

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEE
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCA  152 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~  152 (315)
                      +.+|+++.|.|++|+|||||+..++.......+.+.
T Consensus        21 i~~Ge~~~i~G~nGsGKSTLl~~l~G~~~~~~G~i~   56 (213)
T TIGR01277        21 VADGEIVAIMGPSGAGKSTLLNLIAGFIEPASGSIK   56 (213)
T ss_pred             EeCCcEEEEECCCCCCHHHHHHHHhcCCCCCCcEEE
Confidence            679999999999999999999999877655455443

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.

>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=98.37  E-value=2e-06  Score=75.59  Aligned_cols=38  Identities=29%  Similarity=0.313  Sum_probs=30.6

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEE
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAY  153 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~  153 (315)
                      -+++|+++.|.||+|+|||||+..++.......+.+.|
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            46799999999999999999999888765545555543

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.

>cd03213 ABCG_EPDR ABCG transporters are involved in eye pigment (EP) precursor transport, regulation of lipid-trafficking mechanisms, and pleiotropic drug resistance (DR)

Probab=98.37  E-value=1.7e-06  Score=74.96  Aligned_cols=123  Identities=15%  Similarity=0.187  Sum_probs=71.6

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHH--HhcCCeEEEEecCCCCChHHHHHcCCCCCCeEEeCCCCHHHHH------
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEA--QKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLL------  187 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~--~~~g~~v~~i~~E~~~~~~~~~~~g~~~~~l~i~~~~~~e~~~------  187 (315)
                      -+++|+++.|.|++|+|||||+..++...  ....+.+. ++.+........+.+++.+++..+....+..+.+      
T Consensus        31 ~i~~Ge~~~l~G~nGsGKStLl~~i~Gl~~~~~~~G~i~-~~g~~~~~~~~~~~i~~~~q~~~~~~~~t~~~~i~~~~~~  109 (194)
T cd03213          31 KAKPGELTAIMGPSGAGKSTLLNALAGRRTGLGVSGEVL-INGRPLDKRSFRKIIGYVPQDDILHPTLTVRETLMFAAKL  109 (194)
T ss_pred             EEcCCcEEEEECCCCCCHHHHHHHHhCCCCCCCCceEEE-ECCEeCchHhhhheEEEccCcccCCCCCcHHHHHHHHHHh
Confidence            36799999999999999999999888766  54455554 4433222112233455544443332222332221      


Q ss_pred             -----------HHHHHHHHcCCccEEeehhHhhhccccccCCCccCCChHHHHHHHHHHHHHHHHHHhccCcEEEEEecc
Q 021239          188 -----------SVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQV  256 (315)
Q Consensus       188 -----------~~i~~l~~~~~~~lVVIDsl~~l~~~~~~~~~~~~~~~~~q~r~i~~~l~~L~~~~~~~~i~VI~inq~  256 (315)
                                 .+.+.++  .+++++++|....-...             ...+.+.+.++++    .+.+.++|+++|-
T Consensus       110 ~~LS~G~~qrv~laral~--~~p~illlDEP~~~LD~-------------~~~~~l~~~l~~~----~~~~~tiii~sh~  170 (194)
T cd03213         110 RGLSGGERKRVSIALELV--SNPSLLFLDEPTSGLDS-------------SSALQVMSLLRRL----ADTGRTIICSIHQ  170 (194)
T ss_pred             ccCCHHHHHHHHHHHHHH--cCCCEEEEeCCCcCCCH-------------HHHHHHHHHHHHH----HhCCCEEEEEecC
Confidence                       2222222  47899999977654410             1122344555544    3348999999987


Q ss_pred             cc
Q 021239          257 RF  258 (315)
Q Consensus       257 ~~  258 (315)
                      ..
T Consensus       171 ~~  172 (194)
T cd03213         171 PS  172 (194)
T ss_pred             ch
Confidence            53

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.

>COG4604 CeuD ABC-type enterochelin transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=98.37  E-value=7.5e-07  Score=76.24  Aligned_cols=54  Identities=31%  Similarity=0.434  Sum_probs=36.5

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEec-C--CCCChHHHHHcCC
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDV-E--NALDPSLAEAMGI  170 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~-E--~~~~~~~~~~~g~  170 (315)
                      -+|+|.++.|.||+|+|||||...++.-.....+ .++++. |  .......|+.+.+
T Consensus        23 ~i~~g~iTs~IGPNGAGKSTLLS~~sRL~~~d~G-~i~i~g~~~~~~~s~~LAk~lSI   79 (252)
T COG4604          23 DIPKGGITSIIGPNGAGKSTLLSMMSRLLKKDSG-EITIDGLELTSTPSKELAKKLSI   79 (252)
T ss_pred             eecCCceeEEECCCCccHHHHHHHHHHhccccCc-eEEEeeeecccCChHHHHHHHHH
Confidence            4789999999999999999998655544444444 455553 3  3334466666543

>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=98.37  E-value=5.6e-06  Score=70.12  Aligned_cols=88  Identities=16%  Similarity=0.214  Sum_probs=55.8

Q ss_pred             EEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCCh--HHHHHcCCCCCCeEEe---CCCCHHHHHHHHHHHHHc
Q 021239          122 IVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP--SLAEAMGIDAENLLIA---QPDSAENLLSVVDTLTKS  196 (315)
Q Consensus       122 i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~--~~~~~~g~~~~~l~i~---~~~~~e~~~~~i~~l~~~  196 (315)
                      ++.+.|+||+||||++..++..+...|.++++++++.....  .....+.. ..++.+.   ...+..++..........
T Consensus         2 ~~~~~G~~G~GKTt~~~~la~~~~~~g~~v~~i~~D~~~~~~~~~l~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~   80 (173)
T cd03115           2 VILLVGLQGVGKTTTAAKLALYLKKKGKKVLLVAADTYRPAAIEQLRVLGE-QVGVPVFEEGEGKDPVSIAKRAIEHARE   80 (173)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCChHHHHHHHHhcc-cCCeEEEecCCCCCHHHHHHHHHHHHHh
Confidence            67899999999999999999999888899999998865432  11221111 1122222   223344444322222344


Q ss_pred             CCccEEeehhHhhh
Q 021239          197 GSIDVIVVDSVAAL  210 (315)
Q Consensus       197 ~~~~lVVIDsl~~l  210 (315)
                      .+.++|+||.....
T Consensus        81 ~~~d~viiDt~g~~   94 (173)
T cd03115          81 ENFDVVIVDTAGRL   94 (173)
T ss_pred             CCCCEEEEECcccc
Confidence            67899999986644

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.

>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=98.37  E-value=3.5e-06  Score=67.72  Aligned_cols=79  Identities=24%  Similarity=0.376  Sum_probs=52.4

Q ss_pred             CCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCChHHHHH-cCCCCCCeEEeCCCCHHHHHHHHHHHHHcC
Q 021239          119 KGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEA-MGIDAENLLIAQPDSAENLLSVVDTLTKSG  197 (315)
Q Consensus       119 ~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~~~~~~-~g~~~~~l~i~~~~~~e~~~~~i~~l~~~~  197 (315)
                      .+..+.|+|+||+|||+++..++......+.+++|++............ ....              ............
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            4678999999999999999999998877778888888655433211110 0000              111112222345


Q ss_pred             CccEEeehhHhhhc
Q 021239          198 SIDVIVVDSVAALI  211 (315)
Q Consensus       198 ~~~lVVIDsl~~l~  211 (315)
                      ...++++|.+..+.
T Consensus        84 ~~~~lilDe~~~~~   97 (151)
T cd00009          84 KPGVLFIDEIDSLS   97 (151)
T ss_pred             CCeEEEEeChhhhh
Confidence            68999999998773

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.

>TIGR02315 ABC_phnC phosphonate ABC transporter, ATP-binding protein

Probab=98.37  E-value=2.5e-06  Score=76.33  Aligned_cols=37  Identities=24%  Similarity=0.350  Sum_probs=29.6

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEE
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAY  153 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~  153 (315)
                      +++|+++.|.||+|+|||||+..++.......+.+.|
T Consensus        25 i~~Ge~~~l~G~nGsGKSTLl~~l~Gl~~~~~G~i~~   61 (243)
T TIGR02315        25 INPGEFVAIIGPSGAGKSTLLRCINRLVEPSSGSILL   61 (243)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhCCcCCCccEEEE
Confidence            5799999999999999999998887665444555543

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.

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

Probab=98.37  E-value=8.9e-06  Score=74.43  Aligned_cols=132  Identities=17%  Similarity=0.152  Sum_probs=90.3

Q ss_pred             CcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHhc------CCeEEEEecCCCCCh-----HHHHHcCCCC
Q 021239          104 GSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKL------GGYCAYLDVENALDP-----SLAEAMGIDA  172 (315)
Q Consensus       104 G~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~~------g~~v~~i~~E~~~~~-----~~~~~~g~~~  172 (315)
                      .+..|.+++....-.+--..+|+|+++.|||+++..++......      .-+|+++..-..++.     .....+|...
T Consensus        45 ~L~~L~~Ll~~P~~~Rmp~lLivG~snnGKT~Ii~rF~~~hp~~~d~~~~~~PVv~vq~P~~p~~~~~Y~~IL~~lgaP~  124 (302)
T PF05621_consen   45 ALDRLEELLEYPKRHRMPNLLIVGDSNNGKTMIIERFRRLHPPQSDEDAERIPVVYVQMPPEPDERRFYSAILEALGAPY  124 (302)
T ss_pred             HHHHHHHHHhCCcccCCCceEEecCCCCcHHHHHHHHHHHCCCCCCCCCccccEEEEecCCCCChHHHHHHHHHHhCccc
Confidence            34566666652333344569999999999999999998765421      136888887655554     3456677653


Q ss_pred             CCeEEeCCCCHHHHHHHHHHHHHcCCccEEeehhHhhhccccccCCCccCCChHHHHHHHHHHHHHHHHHHhccCcEEEE
Q 021239          173 ENLLIAQPDSAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIF  252 (315)
Q Consensus       173 ~~l~i~~~~~~e~~~~~i~~l~~~~~~~lVVIDsl~~l~~~~~~~~~~~~~~~~~q~r~i~~~l~~L~~~~~~~~i~VI~  252 (315)
                      .     ...+..+....+.++++..+++++|||.+..+....           ..+++++...|+.|   ..+..+++|.
T Consensus       125 ~-----~~~~~~~~~~~~~~llr~~~vrmLIIDE~H~lLaGs-----------~~~qr~~Ln~LK~L---~NeL~ipiV~  185 (302)
T PF05621_consen  125 R-----PRDRVAKLEQQVLRLLRRLGVRMLIIDEFHNLLAGS-----------YRKQREFLNALKFL---GNELQIPIVG  185 (302)
T ss_pred             C-----CCCCHHHHHHHHHHHHHHcCCcEEEeechHHHhccc-----------HHHHHHHHHHHHHH---hhccCCCeEE
Confidence            2     233455666666677788899999999999887311           14566566666655   4899999998


Q ss_pred             Ee
Q 021239          253 LN  254 (315)
Q Consensus       253 in  254 (315)
                      +-
T Consensus       186 vG  187 (302)
T PF05621_consen  186 VG  187 (302)
T ss_pred             ec
Confidence            75

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

>TIGR01188 drrA daunorubicin resistance ABC transporter ATP-binding subunit

Probab=98.36  E-value=2e-06  Score=79.72  Aligned_cols=38  Identities=18%  Similarity=0.261  Sum_probs=30.6

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEE
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAY  153 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~  153 (315)
                      -+++|+++.|.||+|+|||||+..++.......+.+.|
T Consensus        15 ~i~~Ge~~~l~G~NGaGKSTLl~~l~Gl~~p~~G~i~~   52 (302)
T TIGR01188        15 KVREGEVFGFLGPNGAGKTTTIRMLTTLLRPTSGTARV   52 (302)
T ss_pred             EEcCCcEEEEECCCCCCHHHHHHHHhCCCCCCceEEEE
Confidence            46799999999999999999998887765545555544

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.

>PRK09183 transposase/IS protein; Provisional

Probab=98.36  E-value=4.2e-06  Score=75.90  Aligned_cols=40  Identities=23%  Similarity=0.312  Sum_probs=36.6

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEec
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDV  156 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~  156 (315)
                      ++.|..+.|+||||+|||+|+..++..+...|.+|.|++.
T Consensus        99 i~~~~~v~l~Gp~GtGKThLa~al~~~a~~~G~~v~~~~~  138 (259)
T PRK09183         99 IERNENIVLLGPSGVGKTHLAIALGYEAVRAGIKVRFTTA  138 (259)
T ss_pred             hhcCCeEEEEeCCCCCHHHHHHHHHHHHHHcCCeEEEEeH
Confidence            6789999999999999999999998888888999999874

>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=98.35  E-value=3.3e-06  Score=72.20  Aligned_cols=126  Identities=18%  Similarity=0.250  Sum_probs=72.2

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCC--Ch-HH----------HHHcCCCCC-CeEEeCCC
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENAL--DP-SL----------AEAMGIDAE-NLLIAQPD  181 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~--~~-~~----------~~~~g~~~~-~l~i~~~~  181 (315)
                      -+.+|+++.|.|++|+|||||+..++.......+.+. ++.+...  .. .+          ++.+|+... +-.+....
T Consensus        21 ~i~~G~~~~l~G~nGsGKStLl~~i~G~~~~~~G~v~-~~g~~~~~~~~~~~~~~i~~~~q~l~~~gl~~~~~~~~~~LS   99 (180)
T cd03214          21 SIEAGEIVGILGPNGAGKSTLLKTLAGLLKPSSGEIL-LDGKDLASLSPKELARKIAYVPQALELLGLAHLADRPFNELS   99 (180)
T ss_pred             EECCCCEEEEECCCCCCHHHHHHHHhCCCCCCCcEEE-ECCEECCcCCHHHHHHHHhHHHHHHHHcCCHhHhcCCcccCC
Confidence            4679999999999999999999888876655556654 4432211  11 12          223333210 00111112


Q ss_pred             CHH-HHHHHHHHHHHcCCccEEeehhHhhhccccccCCCccCCChHHHHHHHHHHHHHHHHHHhccCcEEEEEecccccc
Q 021239          182 SAE-NLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVRFSA  260 (315)
Q Consensus       182 ~~e-~~~~~i~~l~~~~~~~lVVIDsl~~l~~~~~~~~~~~~~~~~~q~r~i~~~l~~L~~~~~~~~i~VI~inq~~~~~  260 (315)
                      ..+ +-+.+.+.++  .+|+++++|....-...             .....+.+.++.++   ++.+.++|+++|-....
T Consensus       100 ~G~~qrl~laral~--~~p~llllDEP~~~LD~-------------~~~~~~~~~l~~~~---~~~~~tiii~sh~~~~~  161 (180)
T cd03214         100 GGERQRVLLARALA--QEPPILLLDEPTSHLDI-------------AHQIELLELLRRLA---RERGKTVVMVLHDLNLA  161 (180)
T ss_pred             HHHHHHHHHHHHHh--cCCCEEEEeCCccCCCH-------------HHHHHHHHHHHHHH---HhcCCEEEEEeCCHHHH
Confidence            222 3344444444  47899999977655410             11223445555443   45589999999986554

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.

>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=98.35  E-value=5.1e-06  Score=72.16  Aligned_cols=87  Identities=15%  Similarity=0.241  Sum_probs=58.0

Q ss_pred             cEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCCh------HHHHHcCCCCCCeEEeCCCCH-HHHHHHHHHH
Q 021239          121 RIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP------SLAEAMGIDAENLLIAQPDSA-ENLLSVVDTL  193 (315)
Q Consensus       121 ~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~------~~~~~~g~~~~~l~i~~~~~~-e~~~~~i~~l  193 (315)
                      .++.+.||+|+||||.+..+|+....++.+|.+++++....-      .+++.+|++...  .....+. +.+.+.++..
T Consensus         2 ~vi~lvGptGvGKTTt~aKLAa~~~~~~~~v~lis~D~~R~ga~eQL~~~a~~l~vp~~~--~~~~~~~~~~~~~~l~~~   79 (196)
T PF00448_consen    2 KVIALVGPTGVGKTTTIAKLAARLKLKGKKVALISADTYRIGAVEQLKTYAEILGVPFYV--ARTESDPAEIAREALEKF   79 (196)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHHHHHTT--EEEEEESTSSTHHHHHHHHHHHHHTEEEEE--SSTTSCHHHHHHHHHHHH
T ss_pred             EEEEEECCCCCchHhHHHHHHHHHhhccccceeecCCCCCccHHHHHHHHHHHhccccch--hhcchhhHHHHHHHHHHH
Confidence            478999999999999999999999988999999998766542      356667654211  1111223 3333444443


Q ss_pred             HHcCCccEEeehhHhhh
Q 021239          194 TKSGSIDVIVVDSVAAL  210 (315)
Q Consensus       194 ~~~~~~~lVVIDsl~~l  210 (315)
                       ...+.++|+||+....
T Consensus        80 -~~~~~D~vlIDT~Gr~   95 (196)
T PF00448_consen   80 -RKKGYDLVLIDTAGRS   95 (196)
T ss_dssp             -HHTTSSEEEEEE-SSS
T ss_pred             -hhcCCCEEEEecCCcc
Confidence             4457899999986533

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 ....

>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=98.35  E-value=2.7e-06  Score=75.78  Aligned_cols=37  Identities=27%  Similarity=0.372  Sum_probs=29.8

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEE
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAY  153 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~  153 (315)
                      +++|+++.|.||+|+|||||+..++.......+.+.|
T Consensus        23 i~~Ge~~~l~G~nGsGKSTLl~~l~G~~~p~~G~i~~   59 (235)
T cd03261          23 VRRGEILAIIGPSGSGKSTLLRLIVGLLRPDSGEVLI   59 (235)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhCCCCCCceEEEE
Confidence            6799999999999999999999888665444455543

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.

>cd03215 ABC_Carb_Monos_II This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos)

Probab=98.35  E-value=2.4e-06  Score=73.13  Aligned_cols=125  Identities=14%  Similarity=0.165  Sum_probs=73.1

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCC---h-HHHHHcCCCCCCe---EEeCCCCHHHHHH
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALD---P-SLAEAMGIDAENL---LIAQPDSAENLLS  188 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~---~-~~~~~~g~~~~~l---~i~~~~~~e~~~~  188 (315)
                      -+++|+++.|.|++|+|||||+..++.......+.+. ++.+....   . .+.+.+++.+++.   .+....+..+.+.
T Consensus        22 ~i~~G~~~~i~G~nGsGKSTLl~~l~G~~~~~~G~i~-~~g~~~~~~~~~~~~~~~i~~~~q~~~~~~~~~~~t~~e~l~  100 (182)
T cd03215          22 EVRAGEIVGIAGLVGNGQTELAEALFGLRPPASGEIT-LDGKPVTRRSPRDAIRAGIAYVPEDRKREGLVLDLSVAENIA  100 (182)
T ss_pred             EEcCCcEEEEECCCCCCHHHHHHHHhCCCCCCCceEE-ECCEECCccCHHHHHhCCeEEecCCcccCcccCCCcHHHHHH
Confidence            4679999999999999999999888877655555554 44322111   1 2233455544432   2222223333221


Q ss_pred             --------------HHHHHHHcCCccEEeehhHhhhccccccCCCccCCChHHHHHHHHHHHHHHHHHHhccCcEEEEEe
Q 021239          189 --------------VVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLN  254 (315)
Q Consensus       189 --------------~i~~l~~~~~~~lVVIDsl~~l~~~~~~~~~~~~~~~~~q~r~i~~~l~~L~~~~~~~~i~VI~in  254 (315)
                                    +.+.+  -.+++++++|....-...             ...+.+.+.++.+    .+.+.++|+++
T Consensus       101 ~~~~LS~G~~qrl~la~al--~~~p~llllDEP~~~LD~-------------~~~~~l~~~l~~~----~~~~~tiii~s  161 (182)
T cd03215         101 LSSLLSGGNQQKVVLARWL--ARDPRVLILDEPTRGVDV-------------GAKAEIYRLIREL----ADAGKAVLLIS  161 (182)
T ss_pred             HHhhcCHHHHHHHHHHHHH--ccCCCEEEECCCCcCCCH-------------HHHHHHHHHHHHH----HHCCCEEEEEe
Confidence                          12222  247899999977655410             2223355555554    33489999999


Q ss_pred             cccccc
Q 021239          255 QVRFSA  260 (315)
Q Consensus       255 q~~~~~  260 (315)
                      |-....
T Consensus       162 h~~~~~  167 (182)
T cd03215         162 SELDEL  167 (182)
T ss_pred             CCHHHH
Confidence            976544

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.

>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=98.35  E-value=3.2e-06  Score=74.33  Aligned_cols=38  Identities=18%  Similarity=0.298  Sum_probs=30.6

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEE
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAY  153 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~  153 (315)
                      -+++|+++.|.|++|+|||||+..++.......+.+.|
T Consensus        27 ~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~~~~G~i~~   64 (218)
T cd03266          27 TVKPGEVTGLLGPNGAGKTTTLRMLAGLLEPDAGFATV   64 (218)
T ss_pred             EEcCCcEEEEECCCCCCHHHHHHHHhCCcCCCCceEEE
Confidence            36799999999999999999998888765545555543

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.

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

Probab=98.34  E-value=9e-07  Score=81.90  Aligned_cols=123  Identities=18%  Similarity=0.213  Sum_probs=74.1

Q ss_pred             CCCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCChHHHHHcCCCCCCeEEeCCCCHHHHHHHHHHHH
Q 021239          115 GGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLT  194 (315)
Q Consensus       115 GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~~~~~~~g~~~~~l~i~~~~~~e~~~~~i~~l~  194 (315)
                      =|+.|-.=+++|||||+|||.||..+|...     .+.||-.-.   .+..+.+           ......++.-+-++.
T Consensus       180 ~GI~PPKGVLLYGPPGTGKTLLAkAVA~~T-----~AtFIrvvg---SElVqKY-----------iGEGaRlVRelF~lA  240 (406)
T COG1222         180 LGIDPPKGVLLYGPPGTGKTLLAKAVANQT-----DATFIRVVG---SELVQKY-----------IGEGARLVRELFELA  240 (406)
T ss_pred             cCCCCCCceEeeCCCCCcHHHHHHHHHhcc-----CceEEEecc---HHHHHHH-----------hccchHHHHHHHHHH
Confidence            478888889999999999999998776554     344444211   1111111           112334455555566


Q ss_pred             HcCCccEEeehhHhhhccccccCCCccCCChHHHHHHHHHHHHHHHHHHhccCcEEEEEeccccc
Q 021239          195 KSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVRFS  259 (315)
Q Consensus       195 ~~~~~~lVVIDsl~~l~~~~~~~~~~~~~~~~~q~r~i~~~l~~L~~~~~~~~i~VI~inq~~~~  259 (315)
                      +.+.|.+|+||.+.++-. ..++...+..  ..-+|.+.+.|.++-.+=..-|+-||+-+.--+-
T Consensus       241 rekaPsIIFiDEIDAIg~-kR~d~~t~gD--rEVQRTmleLL~qlDGFD~~~nvKVI~ATNR~D~  302 (406)
T COG1222         241 REKAPSIIFIDEIDAIGA-KRFDSGTSGD--REVQRTMLELLNQLDGFDPRGNVKVIMATNRPDI  302 (406)
T ss_pred             hhcCCeEEEEechhhhhc-ccccCCCCch--HHHHHHHHHHHHhccCCCCCCCeEEEEecCCccc
Confidence            778999999999999973 4554433221  1223445555555544434567888765554333

>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=98.34  E-value=3.4e-06  Score=74.97  Aligned_cols=38  Identities=32%  Similarity=0.457  Sum_probs=30.7

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEE
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAY  153 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~  153 (315)
                      -+++|+++.|.||+|+|||||+..++.......+.+.|
T Consensus        27 ~i~~Ge~~~l~G~nGsGKSTLl~~l~G~~~~~~G~i~~   64 (233)
T cd03258          27 SVPKGEIFGIIGRSGAGKSTLIRCINGLERPTSGSVLV   64 (233)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhCCCCCCCceEEE
Confidence            36799999999999999999999888766555555543

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.

>cd03296 ABC_CysA_sulfate_importer Part of the ABC transporter complex cysAWTP involved in sulfate import

Probab=98.34  E-value=1.8e-06  Score=77.16  Aligned_cols=36  Identities=31%  Similarity=0.446  Sum_probs=29.1

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeE
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYC  151 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v  151 (315)
                      -+++|+++.|.||+|+|||||+..++.......+.+
T Consensus        24 ~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~~~~G~i   59 (239)
T cd03296          24 DIPSGELVALLGPSGSGKTTLLRLIAGLERPDSGTI   59 (239)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhCCCCCCceEE
Confidence            367999999999999999999999887654444444

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.

>COG0410 LivF ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]

Probab=98.34  E-value=2.3e-06  Score=74.94  Aligned_cols=41  Identities=27%  Similarity=0.456  Sum_probs=34.0

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecC
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVE  157 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E  157 (315)
                      +++|+++.+.|++|+||||++..++.......+.+.|-.-+
T Consensus        26 v~~Geiv~llG~NGaGKTTlLkti~Gl~~~~~G~I~~~G~d   66 (237)
T COG0410          26 VERGEIVALLGRNGAGKTTLLKTIMGLVRPRSGRIIFDGED   66 (237)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhCCCCCCCeeEEECCee
Confidence            56999999999999999999999988777666777665433

>PRK10771 thiQ thiamine transporter ATP-binding subunit; Provisional

Probab=98.34  E-value=2.2e-06  Score=76.17  Aligned_cols=37  Identities=24%  Similarity=0.295  Sum_probs=30.2

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEE
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCA  152 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~  152 (315)
                      -+.+|+++.|.|++|+|||||+..++.......+.+.
T Consensus        21 ~i~~Ge~~~l~G~nGsGKSTLl~~l~Gl~~~~~G~i~   57 (232)
T PRK10771         21 TVERGERVAILGPSGAGKSTLLNLIAGFLTPASGSLT   57 (232)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhCCCCCCCceEE
Confidence            4679999999999999999999988876655455543

>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=98.33  E-value=3.8e-06  Score=74.06  Aligned_cols=37  Identities=22%  Similarity=0.329  Sum_probs=29.4

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEE
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCA  152 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~  152 (315)
                      -+.+|+++.|.|++|+|||||+..++.......+.+.
T Consensus        22 ~i~~Ge~~~i~G~nGsGKSTLl~~i~G~~~~~~G~i~   58 (220)
T cd03265          22 RVRRGEIFGLLGPNGAGKTTTIKMLTTLLKPTSGRAT   58 (220)
T ss_pred             EECCCCEEEEECCCCCCHHHHHHHHhCCCCCCceEEE
Confidence            3679999999999999999999988776544444543

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.

>TIGR03265 PhnT2 putative 2-aminoethylphosphonate ABC transporter, ATP-binding protein

Probab=98.33  E-value=1.8e-06  Score=81.76  Aligned_cols=36  Identities=28%  Similarity=0.347  Sum_probs=29.3

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEE
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCA  152 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~  152 (315)
                      +++|+++.|.||+|+|||||+..++.......+.+.
T Consensus        27 i~~Ge~~~l~GpsGsGKSTLLr~iaGl~~p~~G~I~   62 (353)
T TIGR03265        27 VKKGEFVCLLGPSGCGKTTLLRIIAGLERQTAGTIY   62 (353)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHHCCCCCCceEEE
Confidence            568999999999999999999888876554444443

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.

>PRK08903 DnaA regulatory inactivator Hda; Validated

Probab=98.33  E-value=5.4e-06  Score=73.41  Aligned_cols=77  Identities=22%  Similarity=0.361  Sum_probs=53.7

Q ss_pred             HHHHHhhCcccccccccccCCCCCCccccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEE
Q 021239           75 SQLANDFGKESMLSLKRFFGSRRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYL  154 (315)
Q Consensus        75 ~~l~~~~~~~~~~~~~~~~~~~~~~~i~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i  154 (315)
                      .||..+|...+..++.+|..+.+...    +..+..+..  |...+..+.|+|++|+|||+|+..++..+...+..+.|+
T Consensus         3 ~ql~~~~~~~~~~~~d~f~~~~~~~~----~~~l~~~~~--~~~~~~~~~l~G~~G~GKT~La~ai~~~~~~~~~~~~~i   76 (227)
T PRK08903          3 RQLTLDLGPPPPPTFDNFVAGENAEL----VARLRELAA--GPVADRFFYLWGEAGSGRSHLLQALVADASYGGRNARYL   76 (227)
T ss_pred             cccccCCCCCChhhhcccccCCcHHH----HHHHHHHHh--ccCCCCeEEEECCCCCCHHHHHHHHHHHHHhCCCcEEEE
Confidence            36666777776677776542222211    123333333  345677899999999999999999999888888899999


Q ss_pred             ecC
Q 021239          155 DVE  157 (315)
Q Consensus       155 ~~E  157 (315)
                      +..
T Consensus        77 ~~~   79 (227)
T PRK08903         77 DAA   79 (227)
T ss_pred             ehH
Confidence            853

>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=98.33  E-value=1.3e-05  Score=70.80  Aligned_cols=105  Identities=26%  Similarity=0.351  Sum_probs=64.3

Q ss_pred             CcEEEEEecCCCChhHHHHHHHHHHHh--cCCeEEEEecCCCCChHHHHHcCCCCCCeEEeCCCCHHHHHHHHHHHHHcC
Q 021239          120 GRIVEIYGREASGKTTLALHVIKEAQK--LGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTKSG  197 (315)
Q Consensus       120 G~i~~i~G~~GsGKTtlal~la~~~~~--~g~~v~~i~~E~~~~~~~~~~~g~~~~~l~i~~~~~~e~~~~~i~~l~~~~  197 (315)
                      ...+.|+|++|+|||+|+..++..+.+  .+.+|+|++.+.-... .+..+          .....+++.+.+      .
T Consensus        34 ~~~l~l~G~~G~GKTHLL~Ai~~~~~~~~~~~~v~y~~~~~f~~~-~~~~~----------~~~~~~~~~~~~------~   96 (219)
T PF00308_consen   34 YNPLFLYGPSGLGKTHLLQAIANEAQKQHPGKRVVYLSAEEFIRE-FADAL----------RDGEIEEFKDRL------R   96 (219)
T ss_dssp             SSEEEEEESTTSSHHHHHHHHHHHHHHHCTTS-EEEEEHHHHHHH-HHHHH----------HTTSHHHHHHHH------C
T ss_pred             CCceEEECCCCCCHHHHHHHHHHHHHhccccccceeecHHHHHHH-HHHHH----------Hcccchhhhhhh------h
Confidence            346789999999999999999888775  4778999995421111 11100          001122222222      3


Q ss_pred             CccEEeehhHhhhccccccCCCccCCChHHHHHHHHHHHHHHHHHHhccCcEEEEEeccc
Q 021239          198 SIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVR  257 (315)
Q Consensus       198 ~~~lVVIDsl~~l~~~~~~~~~~~~~~~~~q~r~i~~~l~~L~~~~~~~~i~VI~inq~~  257 (315)
                      ..++++||-++.+...              +  ...+.+..+.+...+.|..+|+++...
T Consensus        97 ~~DlL~iDDi~~l~~~--------------~--~~q~~lf~l~n~~~~~~k~li~ts~~~  140 (219)
T PF00308_consen   97 SADLLIIDDIQFLAGK--------------Q--RTQEELFHLFNRLIESGKQLILTSDRP  140 (219)
T ss_dssp             TSSEEEEETGGGGTTH--------------H--HHHHHHHHHHHHHHHTTSEEEEEESS-
T ss_pred             cCCEEEEecchhhcCc--------------h--HHHHHHHHHHHHHHhhCCeEEEEeCCC
Confidence            6899999999887631              1  022344455555577788888888664

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.

>PRK11650 ugpC glycerol-3-phosphate transporter ATP-binding subunit; Provisional

Probab=98.33  E-value=1.7e-06  Score=82.00  Aligned_cols=40  Identities=20%  Similarity=0.309  Sum_probs=30.5

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEec
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDV  156 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~  156 (315)
                      -+++|+++.|.||+|+|||||+..++.......+.+ +++.
T Consensus        26 ~i~~Ge~~~llG~sGsGKSTLLr~iaGl~~p~~G~I-~~~g   65 (356)
T PRK11650         26 DVADGEFIVLVGPSGCGKSTLLRMVAGLERITSGEI-WIGG   65 (356)
T ss_pred             EEcCCCEEEEECCCCCcHHHHHHHHHCCCCCCceEE-EECC
Confidence            367999999999999999999988887655444444 3443

>PRK13536 nodulation factor exporter subunit NodI; Provisional

Probab=98.31  E-value=2.1e-06  Score=80.86  Aligned_cols=37  Identities=19%  Similarity=0.328  Sum_probs=30.2

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEE
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAY  153 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~  153 (315)
                      +++|+++.|.||+|+|||||+..++.......+.+.+
T Consensus        64 i~~Gei~gLlGpNGaGKSTLl~~L~Gl~~p~~G~i~i  100 (340)
T PRK13536         64 VASGECFGLLGPNGAGKSTIARMILGMTSPDAGKITV  100 (340)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHHcCCCCCceEEEE
Confidence            6799999999999999999999888766555555544

>PRK12377 putative replication protein; Provisional

Probab=98.30  E-value=6.4e-06  Score=74.07  Aligned_cols=75  Identities=20%  Similarity=0.281  Sum_probs=50.5

Q ss_pred             cEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCChHHHHHcCCCCCCeEEeCCCCHHHHHHHHHHHHHcCCcc
Q 021239          121 RIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTKSGSID  200 (315)
Q Consensus       121 ~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~~~~~~~g~~~~~l~i~~~~~~e~~~~~i~~l~~~~~~~  200 (315)
                      ..++|+|+||+|||+|+..++..+...|..|+|++..+-..... ..+  +       ...+.+   ..+..+   ..++
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-------NGQSGE---KFLQEL---CKVD  165 (248)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHHHHcCCCeEEEEHHHHHHHHH-HHH--h-------ccchHH---HHHHHh---cCCC
Confidence            57899999999999999999999998899999998643222111 111  0       001112   223332   4789


Q ss_pred             EEeehhHhhhc
Q 021239          201 VIVVDSVAALI  211 (315)
Q Consensus       201 lVVIDsl~~l~  211 (315)
                      ++|||.+....
T Consensus       166 LLiIDDlg~~~  176 (248)
T PRK12377        166 LLVLDEIGIQR  176 (248)
T ss_pred             EEEEcCCCCCC
Confidence            99999997553

>cd03268 ABC_BcrA_bacitracin_resist The BcrA subfamily represents ABC transporters involved in peptide antibiotic resistance

Probab=98.30  E-value=4.5e-06  Score=72.84  Aligned_cols=36  Identities=25%  Similarity=0.308  Sum_probs=29.0

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEE
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCA  152 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~  152 (315)
                      +++|+++.|.|++|+|||||+..++.......+.+.
T Consensus        23 i~~G~~~~i~G~nGsGKSTLl~~l~Gl~~~~~G~i~   58 (208)
T cd03268          23 VKKGEIYGFLGPNGAGKTTTMKIILGLIKPDSGEIT   58 (208)
T ss_pred             EcCCcEEEEECCCCCCHHHHHHHHhCCcCCCceEEE
Confidence            569999999999999999999988776544444443

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.

>cd03232 ABC_PDR_domain2 The pleiotropic drug resistance-like (PDR) family of ATP-binding cassette (ABC) transporters

Probab=98.29  E-value=4e-06  Score=72.46  Aligned_cols=122  Identities=13%  Similarity=0.147  Sum_probs=69.3

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHH--hcCCeEEEEecCCCCChHHHHHcCCCCCCeEEeCCCCHHHHHH-----
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQ--KLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLS-----  188 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~--~~g~~v~~i~~E~~~~~~~~~~~g~~~~~l~i~~~~~~e~~~~-----  188 (315)
                      -+.+|+++.|.|++|+|||||+..++....  ...+.+ +++.+.-. ..+.+.+++..++..+....+..+.+.     
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            367999999999999999999998875431  223343 44433211 222334555444332322223333222     


Q ss_pred             ------------HHHHHHHcCCccEEeehhHhhhccccccCCCccCCChHHHHHHHHHHHHHHHHHHhccCcEEEEEecc
Q 021239          189 ------------VVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQV  256 (315)
Q Consensus       189 ------------~i~~l~~~~~~~lVVIDsl~~l~~~~~~~~~~~~~~~~~q~r~i~~~l~~L~~~~~~~~i~VI~inq~  256 (315)
                                  +.+.+  -.+++++++|....-...             .....+.+.++++    .+.+.++|+++|-
T Consensus       107 ~~LSgGe~qrv~la~al--~~~p~vlllDEP~~~LD~-------------~~~~~l~~~l~~~----~~~~~tiiivtH~  167 (192)
T cd03232         107 RGLSVEQRKRLTIGVEL--AAKPSILFLDEPTSGLDS-------------QAAYNIVRFLKKL----ADSGQAILCTIHQ  167 (192)
T ss_pred             hcCCHHHhHHHHHHHHH--hcCCcEEEEeCCCcCCCH-------------HHHHHHHHHHHHH----HHcCCEEEEEEcC
Confidence                        12222  247899999977655420             1122344455544    3358999999987


Q ss_pred             cc
Q 021239          257 RF  258 (315)
Q Consensus       257 ~~  258 (315)
                      ..
T Consensus       168 ~~  169 (192)
T cd03232         168 PS  169 (192)
T ss_pred             Ch
Confidence            54

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.

>PRK11000 maltose/maltodextrin transporter ATP-binding protein; Provisional

Probab=98.29  E-value=2.7e-06  Score=81.05  Aligned_cols=36  Identities=22%  Similarity=0.263  Sum_probs=28.8

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEE
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCA  152 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~  152 (315)
                      +++|+++.|.||+|+|||||+..++.......+.+.
T Consensus        26 i~~Ge~~~l~G~nGsGKSTLL~~iaGl~~p~~G~I~   61 (369)
T PRK11000         26 IHEGEFVVFVGPSGCGKSTLLRMIAGLEDITSGDLF   61 (369)
T ss_pred             EcCCCEEEEECCCCCcHHHHHHHHhCCCCCCceEEE
Confidence            668999999999999999999888866544444443

>TIGR02211 LolD_lipo_ex lipoprotein releasing system, ATP-binding protein

Probab=98.28  E-value=3.8e-06  Score=74.00  Aligned_cols=38  Identities=32%  Similarity=0.390  Sum_probs=30.7

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEE
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAY  153 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~  153 (315)
                      -+++|+++.|.||+|+|||||+..++.......+.+.|
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            46799999999999999999999988765545555543

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.

>COG1124 DppF ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]

Probab=98.28  E-value=5.7e-06  Score=73.05  Aligned_cols=39  Identities=31%  Similarity=0.402  Sum_probs=29.7

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEec
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDV  156 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~  156 (315)
                      +.+|+...|.|++||||||++..++.-.....+. ++++.
T Consensus        30 i~~Ge~lgivGeSGsGKSTL~r~l~Gl~~p~~G~-I~~~G   68 (252)
T COG1124          30 IERGETLGIVGESGSGKSTLARLLAGLEKPSSGS-ILLDG   68 (252)
T ss_pred             ecCCCEEEEEcCCCCCHHHHHHHHhcccCCCCce-EEECC
Confidence            6799999999999999999998887655443333 34443

>PRK09452 potA putrescine/spermidine ABC transporter ATPase protein; Reviewed

Probab=98.28  E-value=3.8e-06  Score=80.14  Aligned_cols=36  Identities=19%  Similarity=0.267  Sum_probs=28.9

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeE
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYC  151 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v  151 (315)
                      -+.+|+++.|.||+|+|||||+..++.......+.+
T Consensus        36 ~i~~Ge~~~LlGpsGsGKSTLLr~IaGl~~p~~G~I   71 (375)
T PRK09452         36 TINNGEFLTLLGPSGCGKTTVLRLIAGFETPDSGRI   71 (375)
T ss_pred             EEeCCCEEEEECCCCCcHHHHHHHHhCCCCCCceEE
Confidence            367899999999999999999988887554444444

>PRK11432 fbpC ferric transporter ATP-binding subunit; Provisional

Probab=98.28  E-value=2.9e-06  Score=80.27  Aligned_cols=36  Identities=25%  Similarity=0.341  Sum_probs=28.8

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeE
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYC  151 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v  151 (315)
                      -+++|+++.|.||+|+|||||+..++.......+.+
T Consensus        28 ~i~~Ge~~~llGpsGsGKSTLLr~IaGl~~p~~G~I   63 (351)
T PRK11432         28 TIKQGTMVTLLGPSGCGKTTVLRLVAGLEKPTEGQI   63 (351)
T ss_pred             EEcCCCEEEEECCCCCcHHHHHHHHHCCCCCCceEE
Confidence            367899999999999999999988876655444443

>PRK06835 DNA replication protein DnaC; Validated

Probab=98.28  E-value=7e-06  Score=76.84  Aligned_cols=77  Identities=21%  Similarity=0.281  Sum_probs=51.5

Q ss_pred             CcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCChHHHHHcCCCCCCeEEeCCCCHHHHHHHHHHHHHcCCc
Q 021239          120 GRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTKSGSI  199 (315)
Q Consensus       120 G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~~~~~~~g~~~~~l~i~~~~~~e~~~~~i~~l~~~~~~  199 (315)
                      +..++|+|++|+|||+|+..+|..+...|..|+|++..+-........+          ..  ..+....+..+   ..+
T Consensus       183 ~~~Lll~G~~GtGKThLa~aIa~~l~~~g~~V~y~t~~~l~~~l~~~~~----------~~--~~~~~~~~~~l---~~~  247 (329)
T PRK06835        183 NENLLFYGNTGTGKTFLSNCIAKELLDRGKSVIYRTADELIEILREIRF----------NN--DKELEEVYDLL---INC  247 (329)
T ss_pred             CCcEEEECCCCCcHHHHHHHHHHHHHHCCCeEEEEEHHHHHHHHHHHHh----------cc--chhHHHHHHHh---ccC
Confidence            4679999999999999999999999999999999996442222111111          00  01111112222   368


Q ss_pred             cEEeehhHhhhc
Q 021239          200 DVIVVDSVAALI  211 (315)
Q Consensus       200 ~lVVIDsl~~l~  211 (315)
                      +++|||-+....
T Consensus       248 DLLIIDDlG~e~  259 (329)
T PRK06835        248 DLLIIDDLGTEK  259 (329)
T ss_pred             CEEEEeccCCCC
Confidence            999999997654

>cd03247 ABCC_cytochrome_bd The CYD subfamily implicated in cytochrome bd biogenesis

Probab=98.28  E-value=3.5e-06  Score=71.83  Aligned_cols=123  Identities=15%  Similarity=0.237  Sum_probs=72.6

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCC--ChHHHHHcCCCCCCeEEeCCCCHH---------
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENAL--DPSLAEAMGIDAENLLIAQPDSAE---------  184 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~--~~~~~~~~g~~~~~l~i~~~~~~e---------  184 (315)
                      -+++|+++.|.|++|+|||||+..++.......+.+. ++.....  ...+.+.+++.+++..+.. .+..         
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            4679999999999999999999998877655555654 4432111  1122344555444433332 1221         


Q ss_pred             ---HHHHHHHHHHHcCCccEEeehhHhhhccccccCCCccCCChHHHHHHHHHHHHHHHHHHhccCcEEEEEecccccc
Q 021239          185 ---NLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVRFSA  260 (315)
Q Consensus       185 ---~~~~~i~~l~~~~~~~lVVIDsl~~l~~~~~~~~~~~~~~~~~q~r~i~~~l~~L~~~~~~~~i~VI~inq~~~~~  260 (315)
                         +.+.+.+.++  .+|+++++|....-...             ...+.+.+.++.+    .+ +.+||+++|-....
T Consensus       102 G~~qrv~laral~--~~p~~lllDEP~~~LD~-------------~~~~~l~~~l~~~----~~-~~tii~~sh~~~~~  160 (178)
T cd03247         102 GERQRLALARILL--QDAPIVLLDEPTVGLDP-------------ITERQLLSLIFEV----LK-DKTLIWITHHLTGI  160 (178)
T ss_pred             HHHHHHHHHHHHh--cCCCEEEEECCcccCCH-------------HHHHHHHHHHHHH----cC-CCEEEEEecCHHHH
Confidence               1223333333  47899999987755421             1122344444444    33 78999999876543

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.

>TIGR00064 ftsY signal recognition particle-docking protein FtsY

Probab=98.27  E-value=1.7e-05  Score=72.34  Aligned_cols=90  Identities=21%  Similarity=0.289  Sum_probs=59.8

Q ss_pred             CCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCCh------HHHHHcCCCCCCeEEe-CCCCHHHHHHHHH
Q 021239          119 KGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP------SLAEAMGIDAENLLIA-QPDSAENLLSVVD  191 (315)
Q Consensus       119 ~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~------~~~~~~g~~~~~l~i~-~~~~~e~~~~~i~  191 (315)
                      ++.++.++|++|+||||++..+|..+...|.+|++++.+.....      .+++..|+..-  ... ..++.......+.
T Consensus        71 ~~~vi~l~G~~G~GKTTt~akLA~~l~~~g~~V~li~~D~~r~~a~~ql~~~~~~~~i~~~--~~~~~~dp~~~~~~~l~  148 (272)
T TIGR00064        71 KPNVILFVGVNGVGKTTTIAKLANKLKKQGKSVLLAAGDTFRAAAIEQLEEWAKRLGVDVI--KQKEGADPAAVAFDAIQ  148 (272)
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHHHhcCCEEEEEeCCCCCHHHHHHHHHHHHhCCeEEE--eCCCCCCHHHHHHHHHH
Confidence            46789999999999999999999999888999999998853221      24555553210  001 1222232333343


Q ss_pred             HHHHcCCccEEeehhHhhhc
Q 021239          192 TLTKSGSIDVIVVDSVAALI  211 (315)
Q Consensus       192 ~l~~~~~~~lVVIDsl~~l~  211 (315)
                      .. ...+.++|+||.-....
T Consensus       149 ~~-~~~~~D~ViIDT~G~~~  167 (272)
T TIGR00064       149 KA-KARNIDVVLIDTAGRLQ  167 (272)
T ss_pred             HH-HHCCCCEEEEeCCCCCc
Confidence            33 34578999999877554

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.

>PRK10867 signal recognition particle protein; Provisional

Probab=98.27  E-value=9.1e-06  Score=78.63  Aligned_cols=90  Identities=19%  Similarity=0.221  Sum_probs=62.2

Q ss_pred             CcEEEEEecCCCChhHHHHHHHHHHHhc-CCeEEEEecCCCCCh------HHHHHcCCCCCCeEEeCCCCHHHHHHHHHH
Q 021239          120 GRIVEIYGREASGKTTLALHVIKEAQKL-GGYCAYLDVENALDP------SLAEAMGIDAENLLIAQPDSAENLLSVVDT  192 (315)
Q Consensus       120 G~i~~i~G~~GsGKTtlal~la~~~~~~-g~~v~~i~~E~~~~~------~~~~~~g~~~~~l~i~~~~~~e~~~~~i~~  192 (315)
                      ..++.++|++|+||||++..+|..+... |.+|++++++.....      .+++..|++.-.  .....++.++.....+
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            4789999999999999999999998888 899999999865443      134555544210  1112344555543334


Q ss_pred             HHHcCCccEEeehhHhhhc
Q 021239          193 LTKSGSIDVIVVDSVAALI  211 (315)
Q Consensus       193 l~~~~~~~lVVIDsl~~l~  211 (315)
                      .....++++|+||.-..+.
T Consensus       178 ~a~~~~~DvVIIDTaGrl~  196 (433)
T PRK10867        178 EAKENGYDVVIVDTAGRLH  196 (433)
T ss_pred             HHHhcCCCEEEEeCCCCcc
Confidence            4455679999999877543

>TIGR03258 PhnT 2-aminoethylphosphonate ABC transport system, ATP-binding component PhnT

Probab=98.27  E-value=3.2e-06  Score=80.32  Aligned_cols=39  Identities=23%  Similarity=0.388  Sum_probs=30.1

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHhcC--CeEEEEec
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLG--GYCAYLDV  156 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~~g--~~v~~i~~  156 (315)
                      +++|+++.|.||+|+|||||+..++.......  +.+ +++.
T Consensus        28 i~~Ge~~~llGpsGsGKSTLLr~iaGl~~p~~~~G~i-~~~g   68 (362)
T TIGR03258        28 IEAGELLALIGKSGCGKTTLLRAIAGFVKAAGLTGRI-AIAD   68 (362)
T ss_pred             ECCCCEEEEECCCCCCHHHHHHHHhCCCCCCCCCEEE-EECC
Confidence            67899999999999999999988887554444  444 4443

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.

>PF13173 AAA_14: AAA domain

Probab=98.27  E-value=6.1e-06  Score=66.51  Aligned_cols=100  Identities=22%  Similarity=0.260  Sum_probs=65.8

Q ss_pred             CcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCChHHHHHcCCCCCCeEEeCCCCHHHHHHHHHHHHHcCCc
Q 021239          120 GRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTKSGSI  199 (315)
Q Consensus       120 G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~~~~~~~g~~~~~l~i~~~~~~e~~~~~i~~l~~~~~~  199 (315)
                      +.+++|.||.|+||||++.+++.... ...+++|++++.........                .+ +.+.+.+.. ..+.
T Consensus         2 ~~~~~l~G~R~vGKTtll~~~~~~~~-~~~~~~yi~~~~~~~~~~~~----------------~~-~~~~~~~~~-~~~~   62 (128)
T PF13173_consen    2 RKIIILTGPRGVGKTTLLKQLAKDLL-PPENILYINFDDPRDRRLAD----------------PD-LLEYFLELI-KPGK   62 (128)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHhc-ccccceeeccCCHHHHHHhh----------------hh-hHHHHHHhh-ccCC
Confidence            57899999999999999999998876 56789999987644321100                00 223333332 1267


Q ss_pred             cEEeehhHhhhccccccCCCccCCChHHHHHHHHHHHHHHHHHHhcc-CcEEEEEecccccc
Q 021239          200 DVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQS-HTLIIFLNQVRFSA  260 (315)
Q Consensus       200 ~lVVIDsl~~l~~~~~~~~~~~~~~~~~q~r~i~~~l~~L~~~~~~~-~i~VI~inq~~~~~  260 (315)
                      .+|+||.++.+-.                   ....++.+.   .+. ++.++++.......
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            8999999997741                   234444444   343 78888887765544

>COG4107 PhnK ABC-type phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=98.27  E-value=1.1e-05  Score=67.87  Aligned_cols=44  Identities=27%  Similarity=0.306  Sum_probs=38.4

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCC
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENAL  160 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~  160 (315)
                      +.||++..|.|++|+|||||...++.......+.+.|..-...+
T Consensus        29 l~PGeVLgiVGESGSGKtTLL~~is~rl~p~~G~v~Y~~r~~~~   72 (258)
T COG4107          29 LYPGEVLGIVGESGSGKTTLLKCISGRLTPDAGTVTYRMRDGQP   72 (258)
T ss_pred             ecCCcEEEEEecCCCcHHhHHHHHhcccCCCCCeEEEEcCCCCc
Confidence            56999999999999999999999998888888889888765544

>PRK13540 cytochrome c biogenesis protein CcmA; Provisional

Probab=98.26  E-value=7.7e-06  Score=71.05  Aligned_cols=40  Identities=25%  Similarity=0.384  Sum_probs=30.6

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecC
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVE  157 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E  157 (315)
                      +.+|+++.|.|++|+|||||+..++.......+. ++++.+
T Consensus        24 i~~Ge~~~l~G~nGsGKSTLl~~i~G~~~~~~G~-v~~~g~   63 (200)
T PRK13540         24 LPAGGLLHLKGSNGAGKTTLLKLIAGLLNPEKGE-ILFERQ   63 (200)
T ss_pred             ECCCCEEEEECCCCCCHHHHHHHHhcCCCCCCee-EEECCC
Confidence            5699999999999999999998877655444444 445543

>PRK11629 lolD lipoprotein transporter ATP-binding subunit; Provisional

Probab=98.26  E-value=4.7e-06  Score=74.11  Aligned_cols=36  Identities=25%  Similarity=0.319  Sum_probs=28.9

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeE
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYC  151 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v  151 (315)
                      -+++|+++.|.|++|+|||||+..++.......+.+
T Consensus        31 ~i~~Ge~~~l~G~nGsGKSTLl~~l~Gl~~~~~G~i   66 (233)
T PRK11629         31 SIGEGEMMAIVGSSGSGKSTLLHLLGGLDTPTSGDV   66 (233)
T ss_pred             EEcCCcEEEEECCCCCCHHHHHHHHhcCCCCCceEE
Confidence            367999999999999999999988887654444444

>PRK10584 putative ABC transporter ATP-binding protein YbbA; Provisional

Probab=98.26  E-value=5e-06  Score=73.66  Aligned_cols=36  Identities=22%  Similarity=0.358  Sum_probs=29.3

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEE
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCA  152 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~  152 (315)
                      +++|+++.|.|++|+|||||+..++.......+.+.
T Consensus        33 i~~Ge~~~i~G~nGsGKSTLl~~i~Gl~~p~~G~i~   68 (228)
T PRK10584         33 VKRGETIALIGESGSGKSTLLAILAGLDDGSSGEVS   68 (228)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHHcCCCCCCeeEE
Confidence            569999999999999999999988876544445543

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

Probab=98.26  E-value=4.8e-06  Score=79.95  Aligned_cols=124  Identities=17%  Similarity=0.194  Sum_probs=67.9

Q ss_pred             CCCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCChHHHHHcCCCCCCeEEeCCCCHHHHHHHHHHHH
Q 021239          115 GGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLT  194 (315)
Q Consensus       115 GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~~~~~~~g~~~~~l~i~~~~~~e~~~~~i~~l~  194 (315)
                      -|++++.-++|+||||+|||+++..+|....   ...+.+..     ......+           ....+..+..+-...
T Consensus       174 ~Gl~~pkgvLL~GppGTGKT~LAkalA~~l~---~~fi~i~~-----s~l~~k~-----------~ge~~~~lr~lf~~A  234 (398)
T PTZ00454        174 IGIDPPRGVLLYGPPGTGKTMLAKAVAHHTT---ATFIRVVG-----SEFVQKY-----------LGEGPRMVRDVFRLA  234 (398)
T ss_pred             cCCCCCceEEEECCCCCCHHHHHHHHHHhcC---CCEEEEeh-----HHHHHHh-----------cchhHHHHHHHHHHH
Confidence            4788889999999999999999999877642   22222221     1111110           011122222222334


Q ss_pred             HcCCccEEeehhHhhhccccccCCCccCCChHHHHHHHHHHHHHHHHHHhccCcEEEEEecccccc
Q 021239          195 KSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVRFSA  260 (315)
Q Consensus       195 ~~~~~~lVVIDsl~~l~~~~~~~~~~~~~~~~~q~r~i~~~l~~L~~~~~~~~i~VI~inq~~~~~  260 (315)
                      ....+.+|+||.+..+... ..+...+  ......+.+.+.+..+..+-...++.||++++--+.+
T Consensus       235 ~~~~P~ILfIDEID~i~~~-r~~~~~~--~d~~~~r~l~~LL~~ld~~~~~~~v~VI~aTN~~d~L  297 (398)
T PTZ00454        235 RENAPSIIFIDEVDSIATK-RFDAQTG--ADREVQRILLELLNQMDGFDQTTNVKVIMATNRADTL  297 (398)
T ss_pred             HhcCCeEEEEECHhhhccc-cccccCC--ccHHHHHHHHHHHHHhhccCCCCCEEEEEecCCchhC
Confidence            4568899999999998742 2221111  1112223345555555433334577777776644444

>PRK13635 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=98.26  E-value=3.8e-06  Score=76.95  Aligned_cols=38  Identities=29%  Similarity=0.276  Sum_probs=30.9

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEE
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAY  153 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~  153 (315)
                      -+.+|+++.|.|++|+|||||+..++.......+.+.|
T Consensus        29 ~i~~Ge~~~i~G~nGaGKSTLl~~i~G~~~p~~G~i~~   66 (279)
T PRK13635         29 SVYEGEWVAIVGHNGSGKSTLAKLLNGLLLPEAGTITV   66 (279)
T ss_pred             EEcCCCEEEEECCCCCcHHHHHHHHhcCCCCCCcEEEE
Confidence            46799999999999999999998887766555555544

>COG4608 AppF ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]

Probab=98.26  E-value=6.4e-06  Score=73.96  Aligned_cols=127  Identities=16%  Similarity=0.227  Sum_probs=79.8

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCC--Ch-------HHHHHcCCCCCCeEEe-CCCC--H
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENAL--DP-------SLAEAMGIDAENLLIA-QPDS--A  183 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~--~~-------~~~~~~g~~~~~l~i~-~~~~--~  183 (315)
                      -+.+|++..|.|++||||||++..++.-....++.+.|=.-+-..  ..       +..+..|...+.+.-+ ...+  .
T Consensus        35 ~i~~ge~~glVGESG~GKSTlgr~i~~L~~pt~G~i~f~g~~i~~~~~~~~~~~v~elL~~Vgl~~~~~~ryPhelSGGQ  114 (268)
T COG4608          35 SIKEGETLGLVGESGCGKSTLGRLILGLEEPTSGEILFEGKDITKLSKEERRERVLELLEKVGLPEEFLYRYPHELSGGQ  114 (268)
T ss_pred             EEcCCCEEEEEecCCCCHHHHHHHHHcCcCCCCceEEEcCcchhhcchhHHHHHHHHHHHHhCCCHHHhhcCCcccCchh
Confidence            477999999999999999999988877666566665543322111  11       2344556444332211 1112  1


Q ss_pred             HHHHHHHHHHHHcCCccEEeehhHhhhccccccCCCccCCChHHHHHHHHHHHHHHHHHHhccCcEEEEEecccccc
Q 021239          184 ENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVRFSA  260 (315)
Q Consensus       184 e~~~~~i~~l~~~~~~~lVVIDsl~~l~~~~~~~~~~~~~~~~~q~r~i~~~l~~L~~~~~~~~i~VI~inq~~~~~  260 (315)
                      .+-+.+.+.++  .+|+++|.|.......-            ..|+. +...|+.+.   ++.|++.++++|.-..+
T Consensus       115 rQRi~IARALa--l~P~liV~DEpvSaLDv------------Siqaq-IlnLL~dlq---~~~~lt~lFIsHDL~vv  173 (268)
T COG4608         115 RQRIGIARALA--LNPKLIVADEPVSALDV------------SVQAQ-ILNLLKDLQ---EELGLTYLFISHDLSVV  173 (268)
T ss_pred             hhhHHHHHHHh--hCCcEEEecCchhhcch------------hHHHH-HHHHHHHHH---HHhCCeEEEEEEEHHhh
Confidence            23344445443  47999999988776621            13333 556666666   88999999999976554

>COG1135 AbcC ABC-type metal ion transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=98.25  E-value=7e-06  Score=74.85  Aligned_cols=136  Identities=15%  Similarity=0.239  Sum_probs=81.1

Q ss_pred             CcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCC----h--HHHHHcCCCCCCeEE
Q 021239          104 GSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALD----P--SLAEAMGIDAENLLI  177 (315)
Q Consensus       104 G~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~----~--~~~~~~g~~~~~l~i  177 (315)
                      .+..||..--  -+++|+++.|.|.+|+|||||...+-.--....+++. ++.++-..    .  ...+.+|+-++++.+
T Consensus        18 ~~~al~~vsL--~I~~GeI~GIIG~SGAGKSTLiR~iN~Le~PtsG~v~-v~G~di~~l~~~~Lr~~R~~IGMIFQhFnL   94 (339)
T COG1135          18 TVTALDDVSL--EIPKGEIFGIIGYSGAGKSTLLRLINLLERPTSGSVF-VDGQDLTALSEAELRQLRQKIGMIFQHFNL   94 (339)
T ss_pred             ceeeeccceE--EEcCCcEEEEEcCCCCcHHHHHHHHhccCCCCCceEE-EcCEecccCChHHHHHHHhhccEEeccccc
Confidence            3555665433  5889999999999999999999765333333455554 44432221    1  234456766654432


Q ss_pred             eCCC---------------CHHHH-------------------------------HHHHHHHHHcCCccEEeehhHhhhc
Q 021239          178 AQPD---------------SAENL-------------------------------LSVVDTLTKSGSIDVIVVDSVAALI  211 (315)
Q Consensus       178 ~~~~---------------~~e~~-------------------------------~~~i~~l~~~~~~~lVVIDsl~~l~  211 (315)
                      ....               +-++.                               +.+.+.+  ..+|+++..|..++..
T Consensus        95 LssrTV~~NvA~PLeiag~~k~ei~~RV~elLelVgL~dk~~~yP~qLSGGQKQRVaIARAL--a~~P~iLL~DEaTSAL  172 (339)
T COG1135          95 LSSRTVFENVAFPLELAGVPKAEIKQRVAELLELVGLSDKADRYPAQLSGGQKQRVAIARAL--ANNPKILLCDEATSAL  172 (339)
T ss_pred             cccchHHhhhhhhHhhcCCCHHHHHHHHHHHHHHcCChhhhccCchhcCcchhhHHHHHHHH--hcCCCEEEecCccccC
Confidence            2211               11111                               2222222  2578899999877655


Q ss_pred             cccccCCCccCCChHHHHHHHHHHHHHHHHHHhccCcEEEEEecccccc
Q 021239          212 PKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVRFSA  260 (315)
Q Consensus       212 ~~~~~~~~~~~~~~~~q~r~i~~~l~~L~~~~~~~~i~VI~inq~~~~~  260 (315)
                      .       +      .-.+.+.+.|+.+.   +++|+||++++|-++.+
T Consensus       173 D-------P------~TT~sIL~LL~~In---~~lglTIvlITHEm~Vv  205 (339)
T COG1135         173 D-------P------ETTQSILELLKDIN---RELGLTIVLITHEMEVV  205 (339)
T ss_pred             C-------h------HHHHHHHHHHHHHH---HHcCCEEEEEechHHHH
Confidence            2       1      22334666677776   89999999999987654

>PRK10851 sulfate/thiosulfate transporter subunit; Provisional

Probab=98.25  E-value=3.7e-06  Score=79.62  Aligned_cols=36  Identities=31%  Similarity=0.482  Sum_probs=29.3

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEE
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCA  152 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~  152 (315)
                      +.+|+++.|.||+|+|||||+..++.......+.+.
T Consensus        25 i~~Ge~~~llGpsGsGKSTLLr~IaGl~~p~~G~I~   60 (353)
T PRK10851         25 IPSGQMVALLGPSGSGKTTLLRIIAGLEHQTSGHIR   60 (353)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhCCCCCCCcEEE
Confidence            568999999999999999999988876554445543

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

Probab=98.25  E-value=1.1e-05  Score=78.19  Aligned_cols=123  Identities=18%  Similarity=0.205  Sum_probs=69.0

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCChHHHHHcCCCCCCeEEeCCCCHHHHHHHHHHHHH
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTK  195 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~~~~~~~g~~~~~l~i~~~~~~e~~~~~i~~l~~  195 (315)
                      |+.++.-++|+||||+|||+++..++....   ...+.+...+     ....+           ....+..+..+-....
T Consensus       213 gi~~p~gVLL~GPPGTGKT~LAraIA~el~---~~fi~V~~se-----L~~k~-----------~Ge~~~~vr~lF~~A~  273 (438)
T PTZ00361        213 GIKPPKGVILYGPPGTGKTLLAKAVANETS---ATFLRVVGSE-----LIQKY-----------LGDGPKLVRELFRVAE  273 (438)
T ss_pred             CCCCCcEEEEECCCCCCHHHHHHHHHHhhC---CCEEEEecch-----hhhhh-----------cchHHHHHHHHHHHHH
Confidence            677888899999999999999999987653   2222222111     00000           0111222332323344


Q ss_pred             cCCccEEeehhHhhhccccccCCCccCCChHHHHHHHHHHHHHHHHHHhccCcEEEEEecccccc
Q 021239          196 SGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVRFSA  260 (315)
Q Consensus       196 ~~~~~lVVIDsl~~l~~~~~~~~~~~~~~~~~q~r~i~~~l~~L~~~~~~~~i~VI~inq~~~~~  260 (315)
                      ...+.+|+||.+..+... ......+..  ....+.+.+.+..+..+....++.||++++-...+
T Consensus       274 ~~~P~ILfIDEID~l~~k-R~~~~sgg~--~e~qr~ll~LL~~Ldg~~~~~~V~VI~ATNr~d~L  335 (438)
T PTZ00361        274 ENAPSIVFIDEIDAIGTK-RYDATSGGE--KEIQRTMLELLNQLDGFDSRGDVKVIMATNRIESL  335 (438)
T ss_pred             hCCCcEEeHHHHHHHhcc-CCCCCCccc--HHHHHHHHHHHHHHhhhcccCCeEEEEecCChHHh
Confidence            567899999999988742 211111111  12233455556555444445678888777644443

>TIGR00960 3a0501s02 Type II (General) Secretory Pathway (IISP) Family protein

Probab=98.25  E-value=4.7e-06  Score=73.18  Aligned_cols=37  Identities=22%  Similarity=0.348  Sum_probs=29.7

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEE
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCA  152 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~  152 (315)
                      -+++|+++.|.|++|+|||||+..++.......+.+.
T Consensus        25 ~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~~~~G~i~   61 (216)
T TIGR00960        25 HITKGEMVFLVGHSGAGKSTFLKLILGIEKPTRGKIR   61 (216)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhCCCCCCceEEE
Confidence            3679999999999999999999888876544445543

>PRK11144 modC molybdate transporter ATP-binding protein; Provisional

Probab=98.25  E-value=4.1e-06  Score=79.30  Aligned_cols=36  Identities=31%  Similarity=0.451  Sum_probs=29.1

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEE
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCA  152 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~  152 (315)
                      +++|+++.|.||+|+|||||+..++.......+.+.
T Consensus        21 i~~Ge~~~l~G~nGsGKSTLl~~iaGl~~p~~G~I~   56 (352)
T PRK11144         21 LPAQGITAIFGRSGAGKTSLINAISGLTRPQKGRIV   56 (352)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhCCCCCCceEEE
Confidence            579999999999999999999888776544444543

>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=98.25  E-value=5.2e-06  Score=68.81  Aligned_cols=34  Identities=29%  Similarity=0.318  Sum_probs=28.0

Q ss_pred             EEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEe
Q 021239          122 IVEIYGREASGKTTLALHVIKEAQKLGGYCAYLD  155 (315)
Q Consensus       122 i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~  155 (315)
                      -+.|+|+||+||||+++.++..+...|-+|.=|-
T Consensus         7 ki~ITG~PGvGKtTl~~ki~e~L~~~g~kvgGf~   40 (179)
T COG1618           7 KIFITGRPGVGKTTLVLKIAEKLREKGYKVGGFI   40 (179)
T ss_pred             EEEEeCCCCccHHHHHHHHHHHHHhcCceeeeEE
Confidence            4789999999999999999988887766655333

>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=98.24  E-value=5.4e-06  Score=73.73  Aligned_cols=36  Identities=22%  Similarity=0.294  Sum_probs=30.0

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEE
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCA  152 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~  152 (315)
                      +.+|+++.|.|++|+|||||+..++.......+.+.
T Consensus        23 i~~Ge~~~i~G~nGsGKSTLl~~l~g~~~~~~G~i~   58 (232)
T cd03300          23 IKEGEFFTLLGPSGCGKTTLLRLIAGFETPTSGEIL   58 (232)
T ss_pred             ECCCCEEEEECCCCCCHHHHHHHHhcCCCCCceEEE
Confidence            569999999999999999999998877665555543

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.

>COG1129 MglA ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]

Probab=98.24  E-value=3.7e-06  Score=81.85  Aligned_cols=135  Identities=20%  Similarity=0.302  Sum_probs=81.6

Q ss_pred             CcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCC--ChHHHHHcCCCC---------
Q 021239          104 GSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENAL--DPSLAEAMGIDA---------  172 (315)
Q Consensus       104 G~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~--~~~~~~~~g~~~---------  172 (315)
                      |+..||..-=  -+.+|+++.|.|++|+|||||+..++..+....+. ++++.+...  .+.-++..|+..         
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            4455554432  46799999999999999999999988877765543 445543221  223344444310         


Q ss_pred             -----CCeEEeC------------------------------CCC--------HHHHHHHHHHHHHcCCccEEeehhHhh
Q 021239          173 -----ENLLIAQ------------------------------PDS--------AENLLSVVDTLTKSGSIDVIVVDSVAA  209 (315)
Q Consensus       173 -----~~l~i~~------------------------------~~~--------~e~~~~~i~~l~~~~~~~lVVIDsl~~  209 (315)
                           +|+++-+                              ++.        ..+++++.+.+.  .+++++|+|..++
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                 1221111                              110        113444444443  3788999998887


Q ss_pred             hccccccCCCccCCChHHHHHHHHHHHHHHHHHHhccCcEEEEEecccccc
Q 021239          210 LIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVRFSA  260 (315)
Q Consensus       210 l~~~~~~~~~~~~~~~~~q~r~i~~~l~~L~~~~~~~~i~VI~inq~~~~~  260 (315)
                      ....             .....+.+.+++|    ++.|+++|+|+|-...+
T Consensus       175 aLt~-------------~E~~~Lf~~ir~L----k~~Gv~ii~ISHrl~Ei  208 (500)
T COG1129         175 ALTV-------------KETERLFDLIRRL----KAQGVAIIYISHRLDEV  208 (500)
T ss_pred             cCCH-------------HHHHHHHHHHHHH----HhCCCEEEEEcCcHHHH
Confidence            7642             2333455555555    78999999999975553

>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=98.24  E-value=3.3e-06  Score=74.43  Aligned_cols=36  Identities=22%  Similarity=0.344  Sum_probs=28.6

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeE
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYC  151 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v  151 (315)
                      -+++|+++.|.|++|+|||||+..++.......+.+
T Consensus        26 ~i~~G~~~~i~G~nGsGKSTLl~~l~Gl~~~~~G~i   61 (220)
T cd03293          26 SVEEGEFVALVGPSGCGKSTLLRIIAGLERPTSGEV   61 (220)
T ss_pred             EEeCCcEEEEECCCCCCHHHHHHHHhCCCCCCceEE
Confidence            367999999999999999999988876544334443

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

>PRK11247 ssuB aliphatic sulfonates transport ATP-binding subunit; Provisional

Probab=98.24  E-value=4.5e-06  Score=75.58  Aligned_cols=36  Identities=28%  Similarity=0.418  Sum_probs=29.1

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeE
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYC  151 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v  151 (315)
                      -+++|+++.|.|++|+|||||+..++.......+.+
T Consensus        34 ~i~~Ge~~~I~G~NGsGKSTLlk~l~Gl~~p~~G~i   69 (257)
T PRK11247         34 HIPAGQFVAVVGRSGCGKSTLLRLLAGLETPSAGEL   69 (257)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhcCCCCCCeEE
Confidence            367999999999999999999998887654444444

>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=98.24  E-value=7.6e-06  Score=68.19  Aligned_cols=118  Identities=19%  Similarity=0.255  Sum_probs=68.9

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCC---hHHHHHcCCCCCCeEEeCCCCHH-HHHHHHHH
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALD---PSLAEAMGIDAENLLIAQPDSAE-NLLSVVDT  192 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~---~~~~~~~g~~~~~l~i~~~~~~e-~~~~~i~~  192 (315)
                      +++|+++.|.|++|+|||||+..++...-...+.+ +++.+....   ..+...+++.+      +-...+ +.+.+.+.
T Consensus        22 i~~g~~~~i~G~nGsGKStll~~l~g~~~~~~G~i-~~~~~~~~~~~~~~~~~~i~~~~------qlS~G~~~r~~l~~~   94 (157)
T cd00267          22 LKAGEIVALVGPNGSGKSTLLRAIAGLLKPTSGEI-LIDGKDIAKLPLEELRRRIGYVP------QLSGGQRQRVALARA   94 (157)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhCCCCCCccEE-EECCEEcccCCHHHHHhceEEEe------eCCHHHHHHHHHHHH
Confidence            56899999999999999999998877654444444 555433221   11222222222      222233 22333444


Q ss_pred             HHHcCCccEEeehhHhhhccccccCCCccCCChHHHHHHHHHHHHHHHHHHhccCcEEEEEecccccc
Q 021239          193 LTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVRFSA  260 (315)
Q Consensus       193 l~~~~~~~lVVIDsl~~l~~~~~~~~~~~~~~~~~q~r~i~~~l~~L~~~~~~~~i~VI~inq~~~~~  260 (315)
                      ++  .+++++++|....-...             .....+.+.++.+.   .. +.++++++|.....
T Consensus        95 l~--~~~~i~ilDEp~~~lD~-------------~~~~~l~~~l~~~~---~~-~~tii~~sh~~~~~  143 (157)
T cd00267          95 LL--LNPDLLLLDEPTSGLDP-------------ASRERLLELLRELA---EE-GRTVIIVTHDPELA  143 (157)
T ss_pred             Hh--cCCCEEEEeCCCcCCCH-------------HHHHHHHHHHHHHH---HC-CCEEEEEeCCHHHH
Confidence            43  36899999977755420             11222444444442   33 78999999986554

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.

>TIGR03499 FlhF flagellar biosynthetic protein FlhF

Probab=98.24  E-value=7.2e-06  Score=75.27  Aligned_cols=82  Identities=20%  Similarity=0.303  Sum_probs=58.6

Q ss_pred             CCCcEEEEEecCCCChhHHHHHHHHHHHhc-C-CeEEEEecCCCCCh------HHHHHcCCCCCCeEEeCCCCHHHHHHH
Q 021239          118 PKGRIVEIYGREASGKTTLALHVIKEAQKL-G-GYCAYLDVENALDP------SLAEAMGIDAENLLIAQPDSAENLLSV  189 (315)
Q Consensus       118 ~~G~i~~i~G~~GsGKTtlal~la~~~~~~-g-~~v~~i~~E~~~~~------~~~~~~g~~~~~l~i~~~~~~e~~~~~  189 (315)
                      +.+.++.|+||+|+||||++..++..+... | .+|.+++++.....      .+++.+|++.     ....+..++...
T Consensus       192 ~~~~vi~~vGptGvGKTTt~~kLa~~~~~~~g~~~V~li~~D~~r~~a~eql~~~~~~~~~p~-----~~~~~~~~l~~~  266 (282)
T TIGR03499       192 EQGGVIALVGPTGVGKTTTLAKLAARFVLEHGNKKVALITTDTYRIGAVEQLKTYAKILGVPV-----KVARDPKELRKA  266 (282)
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHHHHcCCCeEEEEECCccchhHHHHHHHHHHHhCCce-----eccCCHHHHHHH
Confidence            467899999999999999999999988876 4 79999998864321      2344455443     222344566666


Q ss_pred             HHHHHHcCCccEEeehhH
Q 021239          190 VDTLTKSGSIDVIVVDSV  207 (315)
Q Consensus       190 i~~l~~~~~~~lVVIDsl  207 (315)
                      +..+   .+.++|+||..
T Consensus       267 l~~~---~~~d~vliDt~  281 (282)
T TIGR03499       267 LDRL---RDKDLILIDTA  281 (282)
T ss_pred             HHHc---cCCCEEEEeCC
Confidence            6554   35899999964

>TIGR01288 nodI ATP-binding ABC transporter family nodulation protein NodI

Probab=98.23  E-value=5e-06  Score=77.06  Aligned_cols=38  Identities=18%  Similarity=0.305  Sum_probs=30.3

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEE
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAY  153 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~  153 (315)
                      -+++|+++.|.||+|+|||||+..++.......+.+.+
T Consensus        26 ~i~~Ge~~~l~G~NGaGKSTLl~~l~Gl~~p~~G~i~~   63 (303)
T TIGR01288        26 TIARGECFGLLGPNGAGKSTIARMLLGMISPDRGKITV   63 (303)
T ss_pred             EEcCCcEEEEECCCCCCHHHHHHHHhCCCCCCceEEEE
Confidence            36799999999999999999998888765444555543

This model does not recognize the highly divergent NodI from Azorhizobium caulinodans.

>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=98.23  E-value=7e-06  Score=71.87  Aligned_cols=36  Identities=28%  Similarity=0.383  Sum_probs=29.4

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEE
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCA  152 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~  152 (315)
                      +++|+++.|.|++|+|||||+..++.......+.+.
T Consensus        24 i~~G~~~~i~G~nGsGKSTLl~~l~G~~~~~~G~i~   59 (214)
T cd03292          24 ISAGEFVFLVGPSGAGKSTLLKLIYKEELPTSGTIR   59 (214)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhcCCCCCceEEE
Confidence            679999999999999999999988876544445543

The FtsE/X transporter is thought to be involved in cell division and is important for assembly or stability of the septal ring.

>PRK10416 signal recognition particle-docking protein FtsY; Provisional

Probab=98.23  E-value=2.7e-05  Score=72.60  Aligned_cols=91  Identities=19%  Similarity=0.247  Sum_probs=60.4

Q ss_pred             CCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCC----h--HHHHHcCCCCCCeEEe-CCCCHHHHHHHH
Q 021239          118 PKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALD----P--SLAEAMGIDAENLLIA-QPDSAENLLSVV  190 (315)
Q Consensus       118 ~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~----~--~~~~~~g~~~~~l~i~-~~~~~e~~~~~i  190 (315)
                      .+|.++.+.||+|+||||++..+|..+...|++|++++.+....    +  .++++.++..  +... ..++.....+.+
T Consensus       112 ~~~~vi~lvGpnGsGKTTt~~kLA~~l~~~g~~V~Li~~D~~r~~a~eql~~~a~~~~i~~--~~~~~~~dpa~~v~~~l  189 (318)
T PRK10416        112 KKPFVILVVGVNGVGKTTTIGKLAHKYKAQGKKVLLAAGDTFRAAAIEQLQVWGERVGVPV--IAQKEGADPASVAFDAI  189 (318)
T ss_pred             CCCeEEEEECCCCCcHHHHHHHHHHHHHhcCCeEEEEecCccchhhHHHHHHHHHHcCceE--EEeCCCCCHHHHHHHHH
Confidence            46889999999999999999999999988899999999875322    1  2445555331  0111 112222233333


Q ss_pred             HHHHHcCCccEEeehhHhhhc
Q 021239          191 DTLTKSGSIDVIVVDSVAALI  211 (315)
Q Consensus       191 ~~l~~~~~~~lVVIDsl~~l~  211 (315)
                      ... ...+.++|+||.-..+.
T Consensus       190 ~~~-~~~~~D~ViIDTaGr~~  209 (318)
T PRK10416        190 QAA-KARGIDVLIIDTAGRLH  209 (318)
T ss_pred             HHH-HhCCCCEEEEeCCCCCc
Confidence            332 34678999999877654

>PRK12724 flagellar biosynthesis regulator FlhF; Provisional

Probab=98.23  E-value=9.1e-06  Score=77.85  Aligned_cols=83  Identities=18%  Similarity=0.260  Sum_probs=56.0

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHH-HhcCCeEEEEecCCCCCh------HHHHHcCCCCCCeEEeCCCCHHHHHH
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEA-QKLGGYCAYLDVENALDP------SLAEAMGIDAENLLIAQPDSAENLLS  188 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~-~~~g~~v~~i~~E~~~~~------~~~~~~g~~~~~l~i~~~~~~e~~~~  188 (315)
                      |..++.++.|.||+|+||||++.++|... ...|.+|+++++|.....      .+++.+|++..     .   ..+...
T Consensus       219 g~~~~~vi~lvGptGvGKTTtaaKLA~~~~~~~G~~V~Lit~Dt~R~aA~eQLk~yAe~lgvp~~-----~---~~~~~~  290 (432)
T PRK12724        219 GKNQRKVVFFVGPTGSGKTTSIAKLAAKYFLHMGKSVSLYTTDNYRIAAIEQLKRYADTMGMPFY-----P---VKDIKK  290 (432)
T ss_pred             ccCCCeEEEEECCCCCCHHHHHHHHHHHHHHhcCCeEEEecccchhhhHHHHHHHHHHhcCCCee-----e---hHHHHH
Confidence            34567899999999999999999999876 567889999998873322      23455555431     1   112222


Q ss_pred             HHHHHHHcCCccEEeehhH
Q 021239          189 VVDTLTKSGSIDVIVVDSV  207 (315)
Q Consensus       189 ~i~~l~~~~~~~lVVIDsl  207 (315)
                      .. ..+...+.++|+||+-
T Consensus       291 l~-~~l~~~~~D~VLIDTa  308 (432)
T PRK12724        291 FK-ETLARDGSELILIDTA  308 (432)
T ss_pred             HH-HHHHhCCCCEEEEeCC
Confidence            22 2223467899999983

>cd03237 ABC_RNaseL_inhibitor_domain2 The ATPase domain 2 of RNase L inhibitor

Probab=98.23  E-value=6.9e-06  Score=73.91  Aligned_cols=32  Identities=22%  Similarity=0.389  Sum_probs=27.6

Q ss_pred             CCCCCCcEEEEEecCCCChhHHHHHHHHHHHh
Q 021239          115 GGLPKGRIVEIYGREASGKTTLALHVIKEAQK  146 (315)
Q Consensus       115 GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~  146 (315)
                      |=+.+|+++.|.|++|+|||||+..++.....
T Consensus        20 ~~i~~Ge~~~i~G~NGsGKSTLlk~L~G~~~p   51 (246)
T cd03237          20 GSISESEVIGILGPNGIGKTTFIKMLAGVLKP   51 (246)
T ss_pred             CCcCCCCEEEEECCCCCCHHHHHHHHhCCCcC
Confidence            46789999999999999999999988766543

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.

>TIGR03420 DnaA_homol_Hda DnaA regulatory inactivator Hda

Probab=98.23  E-value=1.4e-05  Score=70.48  Aligned_cols=74  Identities=22%  Similarity=0.297  Sum_probs=50.8

Q ss_pred             HHHhhCcccccccccccCCCCCCccccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEec
Q 021239           77 LANDFGKESMLSLKRFFGSRRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDV  156 (315)
Q Consensus        77 l~~~~~~~~~~~~~~~~~~~~~~~i~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~  156 (315)
                      +..+|+.....++.+|..+    .-..-+..+...+. +  ..+..+.|+|++|+|||+++..++..+...+.+++|+++
T Consensus         2 ~~~~~~~~~~~~~~~~~~~----~~~~~~~~l~~~~~-~--~~~~~lll~G~~G~GKT~la~~~~~~~~~~~~~~~~i~~   74 (226)
T TIGR03420         2 LPLDVGLPDDPTFDNFYAG----GNAELLAALRQLAA-G--KGDRFLYLWGESGSGKSHLLQAACAAAEERGKSAIYLPL   74 (226)
T ss_pred             CCCCCCCCCchhhcCcCcC----CcHHHHHHHHHHHh-c--CCCCeEEEECCCCCCHHHHHHHHHHHHHhcCCcEEEEeH
Confidence            3345555555556555421    11223456666654 2  356789999999999999999999888777888999885


Q ss_pred             C
Q 021239          157 E  157 (315)
Q Consensus       157 E  157 (315)
                      .
T Consensus        75 ~   75 (226)
T TIGR03420        75 A   75 (226)
T ss_pred             H
Confidence            3

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.

>PRK12726 flagellar biosynthesis regulator FlhF; Provisional

Probab=98.23  E-value=9.2e-06  Score=76.79  Aligned_cols=90  Identities=20%  Similarity=0.307  Sum_probs=66.5

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCC--hH----HHHHcCCCCCCeEEeCCCCHHHHHHHH
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALD--PS----LAEAMGIDAENLLIAQPDSAENLLSVV  190 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~--~~----~~~~~g~~~~~l~i~~~~~~e~~~~~i  190 (315)
                      +.+|.++.|+||+|+||||++..+|..+..+|.+|.+++.+....  .+    +++.+++.     +....+..++...+
T Consensus       203 ~~~~~ii~lvGptGvGKTTt~akLA~~l~~~g~~V~lItaDtyR~gAveQLk~yae~lgvp-----v~~~~dp~dL~~al  277 (407)
T PRK12726        203 LSNHRIISLIGQTGVGKTTTLVKLGWQLLKQNRTVGFITTDTFRSGAVEQFQGYADKLDVE-----LIVATSPAELEEAV  277 (407)
T ss_pred             ecCCeEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEeCCccCccHHHHHHHHhhcCCCC-----EEecCCHHHHHHHH
Confidence            467999999999999999999999998888899999999986543  22    33334432     22234567777777


Q ss_pred             HHHHHcCCccEEeehhHhhhc
Q 021239          191 DTLTKSGSIDVIVVDSVAALI  211 (315)
Q Consensus       191 ~~l~~~~~~~lVVIDsl~~l~  211 (315)
                      ..+....+.++|+||......
T Consensus       278 ~~l~~~~~~D~VLIDTAGr~~  298 (407)
T PRK12726        278 QYMTYVNCVDHILIDTVGRNY  298 (407)
T ss_pred             HHHHhcCCCCEEEEECCCCCc
Confidence            666544578999999877543

>PRK11607 potG putrescine transporter ATP-binding subunit; Provisional

Probab=98.23  E-value=3.9e-06  Score=80.13  Aligned_cols=39  Identities=31%  Similarity=0.369  Sum_probs=29.8

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEec
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDV  156 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~  156 (315)
                      +++|+++.|.||+|+|||||+..++.......+.+ +++.
T Consensus        42 i~~Ge~~~llGpsGsGKSTLLr~IaGl~~p~~G~I-~i~g   80 (377)
T PRK11607         42 IYKGEIFALLGASGCGKSTLLRMLAGFEQPTAGQI-MLDG   80 (377)
T ss_pred             EcCCCEEEEECCCCCcHHHHHHHHhCCCCCCceEE-EECC
Confidence            67899999999999999999988876654444443 4443

>cd03269 ABC_putative_ATPase This subfamily is involved in drug resistance, nodulation, lipid transport, and bacteriocin and lantibiotic immunity

Probab=98.22  E-value=5e-06  Score=72.66  Aligned_cols=35  Identities=26%  Similarity=0.329  Sum_probs=28.2

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeE
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYC  151 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v  151 (315)
                      +.+|+++.|.|++|+|||||+..++.......+.+
T Consensus        23 i~~G~~~~i~G~nGsGKSTLl~~l~G~~~~~~G~i   57 (210)
T cd03269          23 VEKGEIFGLLGPNGAGKTTTIRMILGIILPDSGEV   57 (210)
T ss_pred             EcCCcEEEEECCCCCCHHHHHHHHhCCCCCCceEE
Confidence            57999999999999999999998887654333433

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.

>cd03231 ABC_CcmA_heme_exporter CcmA, the ATP-binding component of the bacterial CcmAB transporter

Probab=98.22  E-value=7.6e-06  Score=71.19  Aligned_cols=36  Identities=31%  Similarity=0.398  Sum_probs=29.2

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEE
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCA  152 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~  152 (315)
                      +++|+++.|.|++|+|||||+..++.......+.+.
T Consensus        23 i~~Ge~~~i~G~nGsGKSTLl~~l~G~~~~~~G~i~   58 (201)
T cd03231          23 LAAGEALQVTGPNGSGKTTLLRILAGLSPPLAGRVL   58 (201)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhCCCCCCCcEEE
Confidence            679999999999999999999888776544445543

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.

>TIGR03608 L_ocin_972_ABC putative bacteriocin export ABC transporter, lactococcin 972 group

Probab=98.22  E-value=4.3e-06  Score=72.80  Aligned_cols=36  Identities=28%  Similarity=0.296  Sum_probs=29.6

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEE
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCA  152 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~  152 (315)
                      +++|+++.|.||+|+|||||+..++.......+.+.
T Consensus        21 i~~Ge~~~i~G~nGsGKSTLl~~l~G~~~~~~G~i~   56 (206)
T TIGR03608        21 IEKGKMYAIIGESGSGKSTLLNIIGLLEKFDSGQVY   56 (206)
T ss_pred             EeCCcEEEEECCCCCCHHHHHHHHhcCCCCCCeEEE
Confidence            569999999999999999999988876654455543

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.

>TIGR03864 PQQ_ABC_ATP ABC transporter, ATP-binding subunit, PQQ-dependent alcohol dehydrogenase system

Probab=98.22  E-value=7.4e-06  Score=73.02  Aligned_cols=37  Identities=22%  Similarity=0.295  Sum_probs=29.7

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEE
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCA  152 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~  152 (315)
                      -+.+|+++.|.|++|+|||||+..++.......+.+.
T Consensus        23 ~i~~Ge~~~i~G~nGsGKSTLl~~l~G~~~p~~G~i~   59 (236)
T TIGR03864        23 TVRPGEFVALLGPNGAGKSTLFSLLTRLYVAQEGQIS   59 (236)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhCCcCCCceEEE
Confidence            3679999999999999999999988866544444443

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.

>cd03294 ABC_Pro_Gly_Bertaine This family comprises the glycine betaine/L-proline ATP binding subunit in bacteria and its equivalents in archaea

Probab=98.22  E-value=5.9e-06  Score=75.28  Aligned_cols=37  Identities=27%  Similarity=0.348  Sum_probs=29.5

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEE
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCA  152 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~  152 (315)
                      -+++|+++.|.|++|+|||||+..++.......+.+.
T Consensus        46 ~i~~Ge~~~l~G~nGsGKSTLl~~L~Gl~~p~~G~i~   82 (269)
T cd03294          46 DVREGEIFVIMGLSGSGKSTLLRCINRLIEPTSGKVL   82 (269)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhcCCCCCCeEEE
Confidence            3679999999999999999999988776544444443

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.

>PRK06921 hypothetical protein; Provisional

Probab=98.21  E-value=7.8e-06  Score=74.41  Aligned_cols=38  Identities=24%  Similarity=0.346  Sum_probs=34.4

Q ss_pred             CCcEEEEEecCCCChhHHHHHHHHHHHhc-CCeEEEEec
Q 021239          119 KGRIVEIYGREASGKTTLALHVIKEAQKL-GGYCAYLDV  156 (315)
Q Consensus       119 ~G~i~~i~G~~GsGKTtlal~la~~~~~~-g~~v~~i~~  156 (315)
                      .+..++|+|++|+|||+|+..++.++... |..|+|++.
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            36789999999999999999999998887 889999996

>TIGR01184 ntrCD nitrate transport ATP-binding subunits C and D

Probab=98.21  E-value=8.1e-06  Score=72.57  Aligned_cols=36  Identities=25%  Similarity=0.372  Sum_probs=29.3

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEE
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCA  152 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~  152 (315)
                      +++|+++.|.|++|+|||||+..++.......+.+.
T Consensus         8 i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~p~~G~i~   43 (230)
T TIGR01184         8 IQQGEFISLIGHSGCGKSTLLNLISGLAQPTSGGVI   43 (230)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhCCCCCCCceEE
Confidence            568999999999999999999988776554445544

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.

>TIGR03410 urea_trans_UrtE urea ABC transporter, ATP-binding protein UrtE

Probab=98.21  E-value=7.7e-06  Score=72.53  Aligned_cols=38  Identities=29%  Similarity=0.418  Sum_probs=31.0

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEE
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAY  153 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~  153 (315)
                      -+.+|+++.|.|++|+|||||+..++.......+.+.|
T Consensus        22 ~i~~Ge~~~l~G~nGsGKSTLl~~l~G~~~~~~G~i~~   59 (230)
T TIGR03410        22 EVPKGEVTCVLGRNGVGKTTLLKTLMGLLPVKSGSIRL   59 (230)
T ss_pred             EECCCCEEEEECCCCCCHHHHHHHHhCCCCCCCCEEEE
Confidence            46799999999999999999999888766555556544

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.

>PRK13650 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=98.21  E-value=5.9e-06  Score=75.71  Aligned_cols=37  Identities=22%  Similarity=0.247  Sum_probs=30.0

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEE
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCA  152 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~  152 (315)
                      -+++|+++.|.|++|+|||||+..++.......+.+.
T Consensus        29 ~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~p~~G~i~   65 (279)
T PRK13650         29 HVKQGEWLSIIGHNGSGKSTTVRLIDGLLEAESGQII   65 (279)
T ss_pred             EEeCCCEEEEECCCCCCHHHHHHHHhcCCCCCCcEEE
Confidence            4679999999999999999999988776554455543

>COG4586 ABC-type uncharacterized transport system, ATPase component [General function prediction only]

Probab=98.20  E-value=1.6e-05  Score=71.41  Aligned_cols=43  Identities=23%  Similarity=0.287  Sum_probs=36.0

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCC
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVEN  158 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~  158 (315)
                      -+|+|+++.+.|++|+||||+...+..-....+++|-.-..+.
T Consensus        46 ~IP~G~ivgflGaNGAGKSTtLKmLTGll~p~~G~v~V~G~~P   88 (325)
T COG4586          46 EIPKGEIVGFLGANGAGKSTTLKMLTGLLLPTSGKVRVNGKDP   88 (325)
T ss_pred             ecCCCcEEEEEcCCCCcchhhHHHHhCccccCCCeEEecCcCc
Confidence            4789999999999999999999888877777778876555443

>PRK10253 iron-enterobactin transporter ATP-binding protein; Provisional

Probab=98.20  E-value=9.7e-06  Score=73.63  Aligned_cols=37  Identities=24%  Similarity=0.359  Sum_probs=29.6

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEE
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCA  152 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~  152 (315)
                      -+.+|+++.|.|++|+|||||+..++.......+.+.
T Consensus        29 ~i~~Ge~~~i~G~nGsGKSTLl~~i~G~~~~~~G~i~   65 (265)
T PRK10253         29 EIPDGHFTAIIGPNGCGKSTLLRTLSRLMTPAHGHVW   65 (265)
T ss_pred             EECCCCEEEEECCCCCCHHHHHHHHcCCCCCCCcEEE
Confidence            3569999999999999999999988776544445543

>TIGR02314 ABC_MetN D-methionine ABC transporter, ATP-binding protein

Probab=98.20  E-value=5.9e-06  Score=77.89  Aligned_cols=40  Identities=28%  Similarity=0.371  Sum_probs=31.0

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEec
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDV  156 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~  156 (315)
                      -+++|+++.|.|++|+|||||+..++.......+.+ +++.
T Consensus        27 ~i~~Gei~gIiG~sGaGKSTLlr~I~gl~~p~~G~I-~i~G   66 (343)
T TIGR02314        27 HVPAGQIYGVIGASGAGKSTLIRCVNLLERPTSGSV-IVDG   66 (343)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhcCCCCCceEE-EECC
Confidence            367999999999999999999988876654445554 4443

Members of this family are the ATP-binding protein of the D-methionine ABC transporter complex. Known members belong to the Proteobacteria.

>TIGR02142 modC_ABC molybdenum ABC transporter, ATP-binding protein

Probab=98.20  E-value=5.3e-06  Score=78.65  Aligned_cols=36  Identities=33%  Similarity=0.434  Sum_probs=29.3

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEE
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCA  152 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~  152 (315)
                      +++|+++.|.||+|+|||||+..++.......+.+.
T Consensus        20 i~~Gei~~l~G~nGsGKSTLl~~iaGl~~p~~G~I~   55 (354)
T TIGR02142        20 LPGQGVTAIFGRSGSGKTTLIRLIAGLTRPDEGEIV   55 (354)
T ss_pred             ECCCCEEEEECCCCCCHHHHHHHHhCCCCCCceEEE
Confidence            679999999999999999999888776554445544

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.

>PRK10247 putative ABC transporter ATP-binding protein YbbL; Provisional

Probab=98.20  E-value=1.3e-05  Score=70.92  Aligned_cols=37  Identities=27%  Similarity=0.248  Sum_probs=29.7

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEE
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCA  152 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~  152 (315)
                      =+++|+++.|.|++|+|||||+..++.......+.+.
T Consensus        29 ~i~~Ge~~~i~G~nGsGKSTLl~~l~G~~~~~~G~i~   65 (225)
T PRK10247         29 SLRAGEFKLITGPSGCGKSTLLKIVASLISPTSGTLL   65 (225)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhcccCCCCCeEE
Confidence            3679999999999999999999988876544445543

>PRK11264 putative amino-acid ABC transporter ATP-binding protein YecC; Provisional

Probab=98.20  E-value=9.5e-06  Score=72.89  Aligned_cols=37  Identities=32%  Similarity=0.339  Sum_probs=29.5

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEE
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCA  152 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~  152 (315)
                      -+++|+++.|.|++|+|||||+..++.......+.+.
T Consensus        25 ~i~~Ge~~~i~G~nGsGKSTLl~~l~G~~~~~~G~i~   61 (250)
T PRK11264         25 EVKPGEVVAIIGPSGSGKTTLLRCINLLEQPEAGTIR   61 (250)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhcCCCCCCeEEE
Confidence            4679999999999999999999988766544444443

>PF07088 GvpD: GvpD gas vesicle protein; InterPro: IPR009788 This family consists of several archaeal GvpD gas vesicle proteins

Probab=98.19  E-value=1.7e-05  Score=74.53  Aligned_cols=134  Identities=18%  Similarity=0.239  Sum_probs=83.8

Q ss_pred             CCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCChHHHHH----cCCCCCCe---------------EEe
Q 021239          118 PKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEA----MGIDAENL---------------LIA  178 (315)
Q Consensus       118 ~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~~~~~~----~g~~~~~l---------------~i~  178 (315)
                      ..|...+|-|.||+|||+|++.++..... .+.++|+++--..+.....-    -.++..++               ...
T Consensus         8 ~~G~TLLIKG~PGTGKTtfaLelL~~l~~-~~~v~YISTRVd~d~vy~~y~~~~~~i~~~~vlDatQd~~~~~~~~~vp~   86 (484)
T PF07088_consen    8 EPGQTLLIKGEPGTGKTTFALELLNSLKD-HGNVMYISTRVDQDTVYEMYPWIEESIDPTNVLDATQDPFELPLDKDVPF   86 (484)
T ss_pred             CCCcEEEEecCCCCCceeeehhhHHHHhc-cCCeEEEEeccCHHHHHHhhhhhccccChhhhhhhccchhhccccccCcc
Confidence            57999999999999999999999877754 45889999864443321110    01111111               111


Q ss_pred             CCCCHHHHHHHHHHHHHcCCccEEeehhHhhhccccccCCCccCCChHHHHHHHHHHHHHHHHHHhccCcEEEEEecccc
Q 021239          179 QPDSAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVRF  258 (315)
Q Consensus       179 ~~~~~e~~~~~i~~l~~~~~~~lVVIDsl~~l~~~~~~~~~~~~~~~~~q~r~i~~~l~~L~~~~~~~~i~VI~inq~~~  258 (315)
                      .....+.+.+++.+.-...+.-+|++||..++...  ...+.+.      ...+-.....|..+|++.++-+|++.....
T Consensus        87 ~~l~~ds~~~f~~~i~~~~k~~iI~~DSWdaiiey--la~~~~~------~ed~e~l~~dLv~lard~g~~LIlVsEsa~  158 (484)
T PF07088_consen   87 ERLDIDSFRDFVDKINEAGKKPIIAFDSWDAIIEY--LAEEHDE------PEDIETLTNDLVELARDMGINLILVSESAE  158 (484)
T ss_pred             cccCHHHHHHHHHHhhhcccCcEEEEecHHHHHHH--hhhhhcC------cHHHHHHHHHHHHHHhhcCceEEEEEecCC
Confidence            12346677777775433467789999995555421  1111111      111445566777788999999999998865


Q ss_pred             cc
Q 021239          259 SA  260 (315)
Q Consensus       259 ~~  260 (315)
                      ..
T Consensus       159 ~~  160 (484)
T PF07088_consen  159 NE  160 (484)
T ss_pred             CC
Confidence            54

GvpD is thought to be involved in the regulation of gas vesicle formation [,].; GO: 0005524 ATP binding

>PRK11153 metN DL-methionine transporter ATP-binding subunit; Provisional

Probab=98.19  E-value=5.3e-06  Score=78.31  Aligned_cols=38  Identities=24%  Similarity=0.357  Sum_probs=30.3

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEE
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAY  153 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~  153 (315)
                      -+++|+++.|.|++|+|||||+..++.......+.+.|
T Consensus        27 ~i~~Gei~~iiG~nGsGKSTLlk~L~Gl~~p~~G~I~~   64 (343)
T PRK11153         27 HIPAGEIFGVIGASGAGKSTLIRCINLLERPTSGRVLV   64 (343)
T ss_pred             EEcCCCEEEEECCCCCcHHHHHHHHhCCCCCCceEEEE
Confidence            36799999999999999999998887665544555544

>TIGR02673 FtsE cell division ATP-binding protein FtsE

Probab=98.19  E-value=8.5e-06  Score=71.39  Aligned_cols=37  Identities=24%  Similarity=0.281  Sum_probs=29.6

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEE
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCA  152 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~  152 (315)
                      -+++|+++.|.|++|+|||||+..++.......+.+.
T Consensus        24 ~i~~G~~~~l~G~nGsGKSTLl~~i~Gl~~~~~G~i~   60 (214)
T TIGR02673        24 HIRKGEFLFLTGPSGAGKTTLLKLLYGALTPSRGQVR   60 (214)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhCCCCCCCceEE
Confidence            4679999999999999999999888766544445543

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.

>cd03225 ABC_cobalt_CbiO_domain1 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota

Probab=98.19  E-value=1e-05  Score=70.66  Aligned_cols=38  Identities=29%  Similarity=0.270  Sum_probs=30.2

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEE
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAY  153 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~  153 (315)
                      -+++|+++.|.||+|+|||||+..++.......+.+.|
T Consensus        23 ~i~~G~~~~l~G~nGsGKSTLl~~l~G~~~~~~G~i~~   60 (211)
T cd03225          23 TIKKGEFVLIVGPNGSGKSTLLRLLNGLLGPTSGEVLV   60 (211)
T ss_pred             EEcCCcEEEEECCCCCCHHHHHHHHhcCCCCCCceEEE
Confidence            36799999999999999999998888765544555443

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.

>COG1127 Ttg2A ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]

Probab=98.19  E-value=7.7e-06  Score=72.11  Aligned_cols=42  Identities=26%  Similarity=0.354  Sum_probs=34.3

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecC
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVE  157 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E  157 (315)
                      -+++|+++.|.|++|+||||+...++.......+.+.++..+
T Consensus        30 ~V~~Gei~~iiGgSGsGKStlLr~I~Gll~P~~GeI~i~G~~   71 (263)
T COG1127          30 DVPRGEILAILGGSGSGKSTLLRLILGLLRPDKGEILIDGED   71 (263)
T ss_pred             eecCCcEEEEECCCCcCHHHHHHHHhccCCCCCCeEEEcCcc
Confidence            368999999999999999999999988877766666554433

>PRK09984 phosphonate/organophosphate ester transporter subunit; Provisional

Probab=98.19  E-value=1.4e-05  Score=72.31  Aligned_cols=29  Identities=31%  Similarity=0.487  Sum_probs=26.0

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHH
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQ  145 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~  145 (315)
                      +.+|+++.|.|++|+|||||+..++....
T Consensus        27 i~~Ge~~~i~G~nGsGKSTLl~~i~G~~~   55 (262)
T PRK09984         27 IHHGEMVALLGPSGSGKSTLLRHLSGLIT   55 (262)
T ss_pred             EcCCcEEEEECCCCCCHHHHHHHHhccCC
Confidence            56999999999999999999998887654

>PRK10575 iron-hydroxamate transporter ATP-binding subunit; Provisional

Probab=98.18  E-value=8.4e-06  Score=74.03  Aligned_cols=37  Identities=24%  Similarity=0.397  Sum_probs=29.4

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEE
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCA  152 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~  152 (315)
                      -+.+|+++.|.|++|+|||||+..++.......+.+.
T Consensus        33 ~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~~~~G~i~   69 (265)
T PRK10575         33 TFPAGKVTGLIGHNGSGKSTLLKMLGRHQPPSEGEIL   69 (265)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHcCCCCCCCCEEE
Confidence            3669999999999999999999988876544444443

>PRK11300 livG leucine/isoleucine/valine transporter ATP-binding subunit; Provisional

Probab=98.18  E-value=9.2e-06  Score=73.18  Aligned_cols=38  Identities=24%  Similarity=0.275  Sum_probs=30.2

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEE
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAY  153 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~  153 (315)
                      -+.+|+++.|.|++|+|||||+..++.......+.+.|
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            35699999999999999999999888765544455443

>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=98.18  E-value=1.1e-05  Score=71.71  Aligned_cols=36  Identities=25%  Similarity=0.270  Sum_probs=29.0

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEE
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCA  152 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~  152 (315)
                      +++|+++.|.|++|+|||||+..++.......+.+.
T Consensus        23 i~~Ge~~~l~G~nGsGKSTLl~~l~Gl~~~~~G~i~   58 (236)
T cd03219          23 VRPGEIHGLIGPNGAGKTTLFNLISGFLRPTSGSVL   58 (236)
T ss_pred             ecCCcEEEEECCCCCCHHHHHHHHcCCCCCCCceEE
Confidence            679999999999999999999988766544444443

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).

>TIGR01166 cbiO cobalt transport protein ATP-binding subunit

Probab=98.18  E-value=1e-05  Score=69.65  Aligned_cols=37  Identities=24%  Similarity=0.434  Sum_probs=29.2

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEE
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCA  152 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~  152 (315)
                      -+++|+++.|.|++|+|||||+..++.......+.+.
T Consensus        14 ~i~~Ge~~~i~G~nGsGKSTLl~~i~G~~~~~~G~i~   50 (190)
T TIGR01166        14 AAERGEVLALLGANGAGKSTLLLHLNGLLRPQSGAVL   50 (190)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhCCCCCCceeEE
Confidence            3679999999999999999999887765544444543

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.

>TIGR00959 ffh signal recognition particle protein

Probab=98.18  E-value=2.2e-05  Score=75.96  Aligned_cols=90  Identities=19%  Similarity=0.232  Sum_probs=61.1

Q ss_pred             CcEEEEEecCCCChhHHHHHHHHHHH-hcCCeEEEEecCCCCCh------HHHHHcCCCCCCeEEeCCCCHHHHHHHHHH
Q 021239          120 GRIVEIYGREASGKTTLALHVIKEAQ-KLGGYCAYLDVENALDP------SLAEAMGIDAENLLIAQPDSAENLLSVVDT  192 (315)
Q Consensus       120 G~i~~i~G~~GsGKTtlal~la~~~~-~~g~~v~~i~~E~~~~~------~~~~~~g~~~~~l~i~~~~~~e~~~~~i~~  192 (315)
                      ..++.++|++|+||||++..+|..+. +.|.+|++++++.....      .+++..|++.-  ......++.++.....+
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 PTVILMVGLQGSGKTTTCGKLAYYLKKKQGKKVLLVACDLYRPAAIEQLKVLGQQVGVPVF--ALGKGQSPVEIARRALE  176 (428)
T ss_pred             CEEEEEECCCCCcHHHHHHHHHHHHHHhCCCeEEEEeccccchHHHHHHHHHHHhcCCceE--ecCCCCCHHHHHHHHHH
Confidence            46899999999999999999999876 57889999999865442      23455554421  11222344455433333


Q ss_pred             HHHcCCccEEeehhHhhhc
Q 021239          193 LTKSGSIDVIVVDSVAALI  211 (315)
Q Consensus       193 l~~~~~~~lVVIDsl~~l~  211 (315)
                      .....++++|+||+-..+.
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.

>cd03262 ABC_HisP_GlnQ_permeases HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively

Probab=98.17  E-value=1.1e-05  Score=70.71  Aligned_cols=38  Identities=29%  Similarity=0.308  Sum_probs=30.5

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEE
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAY  153 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~  153 (315)
                      -+++|+++.|.|++|+|||||+..++.......+.+.|
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            36799999999999999999999888765544555543

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

>cd03299 ABC_ModC_like Archeal protein closely related to ModC

Probab=98.17  E-value=8e-06  Score=72.82  Aligned_cols=35  Identities=23%  Similarity=0.271  Sum_probs=28.2

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeE
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYC  151 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v  151 (315)
                      +.+|+++.|.|++|+|||||+..++.......+.+
T Consensus        22 i~~Ge~~~i~G~nG~GKStLl~~l~G~~~p~~G~v   56 (235)
T cd03299          22 VERGDYFVILGPTGSGKSVLLETIAGFIKPDSGKI   56 (235)
T ss_pred             EcCCcEEEEECCCCCCHHHHHHHHhCCcCCCceEE
Confidence            56899999999999999999998877654444443

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.

>PRK13548 hmuV hemin importer ATP-binding subunit; Provisional

Probab=98.17  E-value=1e-05  Score=73.17  Aligned_cols=38  Identities=29%  Similarity=0.364  Sum_probs=30.0

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEE
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAY  153 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~  153 (315)
                      -+++|+++.|.|++|+|||||+..++.......+.+.|
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            36799999999999999999998888765444455443

>cd03283 ABC_MutS-like MutS-like homolog in eukaryotes

Probab=98.17  E-value=1.6e-05  Score=69.29  Aligned_cols=28  Identities=25%  Similarity=0.256  Sum_probs=24.4

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHH
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEA  144 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~  144 (315)
                      +..|+++.|.||+|+|||||+..++...
T Consensus        22 l~~g~~~~ltGpNg~GKSTllr~i~~~~   49 (199)
T cd03283          22 MEKKNGILITGSNMSGKSTFLRTIGVNV   49 (199)
T ss_pred             EcCCcEEEEECCCCCChHHHHHHHHHHH
Confidence            3457999999999999999999998765

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

>COG3638 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=98.17  E-value=1.4e-05  Score=70.29  Aligned_cols=52  Identities=21%  Similarity=0.216  Sum_probs=36.4

Q ss_pred             cCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecC
Q 021239          103 TGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVE  157 (315)
Q Consensus       103 TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E  157 (315)
                      .|-..|+.+-=  -+++|+++.|.|++|+|||||...+....-...+ -+++..+
T Consensus        15 ~~~~aL~~Vnl--~I~~GE~VaiIG~SGaGKSTLLR~lngl~d~t~G-~i~~~g~   66 (258)
T COG3638          15 GGHQALKDVNL--EINQGEMVAIIGPSGAGKSTLLRSLNGLVDPTSG-EILFNGV   66 (258)
T ss_pred             CCceeeeeEeE--EeCCCcEEEEECCCCCcHHHHHHHHhcccCCCcc-eEEeccc
Confidence            44455554422  5789999999999999999999998874433334 4445543

>PRK11248 tauB taurine transporter ATP-binding subunit; Provisional

Probab=98.17  E-value=8.1e-06  Score=73.78  Aligned_cols=37  Identities=24%  Similarity=0.279  Sum_probs=29.6

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEE
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCA  152 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~  152 (315)
                      -+++|+++.|.|++|+|||||+..++.......+.+.
T Consensus        23 ~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~p~~G~i~   59 (255)
T PRK11248         23 TLESGELLVVLGPSGCGKTTLLNLIAGFVPYQHGSIT   59 (255)
T ss_pred             EECCCCEEEEECCCCCCHHHHHHHHhCCCCCCCcEEE
Confidence            3679999999999999999999988876544444443

>COG1118 CysA ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]

Probab=98.16  E-value=3.5e-06  Score=76.70  Aligned_cols=57  Identities=18%  Similarity=0.216  Sum_probs=39.4

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecC---CC-CChHHHHHcCCCCC
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVE---NA-LDPSLAEAMGIDAE  173 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E---~~-~~~~~~~~~g~~~~  173 (315)
                      -++.|+++.+.||+|+||||++..+|.--....+.+. ++.+   +. .-..+.+++|+..+
T Consensus        24 ~i~~Ge~vaLlGpSGaGKsTlLRiIAGLe~p~~G~I~-~~~~~l~D~~~~~~~~R~VGfvFQ   84 (345)
T COG1118          24 DIKSGELVALLGPSGAGKSTLLRIIAGLETPDAGRIR-LNGRVLFDVSNLAVRDRKVGFVFQ   84 (345)
T ss_pred             eecCCcEEEEECCCCCcHHHHHHHHhCcCCCCCceEE-ECCEeccchhccchhhcceeEEEe
Confidence            4779999999999999999999988876665555543 3333   11 12345666676554

>PRK11831 putative ABC transporter ATP-binding protein YrbF; Provisional

Probab=98.16  E-value=1e-05  Score=73.60  Aligned_cols=37  Identities=30%  Similarity=0.362  Sum_probs=29.6

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEE
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCA  152 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~  152 (315)
                      =+++|+++.|.|++|+|||||+..++.......+.+.
T Consensus        29 ~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~p~~G~i~   65 (269)
T PRK11831         29 TVPRGKITAIMGPSGIGKTTLLRLIGGQIAPDHGEIL   65 (269)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhCCCCCCCceEE
Confidence            3679999999999999999999988876544444443

>COG4181 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]

Probab=98.16  E-value=2.5e-06  Score=71.52  Aligned_cols=64  Identities=22%  Similarity=0.247  Sum_probs=42.6

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecC------CCCChHHHHHcCCCCCCeEEeCC
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVE------NALDPSLAEAMGIDAENLLIAQP  180 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E------~~~~~~~~~~~g~~~~~l~i~~~  180 (315)
                      +.+|+.+.|.||+|+|||||..-+|.--...++.|..+...      +.....|.+..|+.++.+++.+.
T Consensus        33 v~~Ge~vaiVG~SGSGKSTLl~vlAGLd~~ssGeV~l~G~~L~~ldEd~rA~~R~~~vGfVFQSF~Lip~  102 (228)
T COG4181          33 VKRGETVAIVGPSGSGKSTLLAVLAGLDDPSSGEVRLLGQPLHKLDEDARAALRARHVGFVFQSFHLIPN  102 (228)
T ss_pred             ecCCceEEEEcCCCCcHHhHHHHHhcCCCCCCceEEEcCcchhhcCHHHHHHhhccceeEEEEeeecccc
Confidence            56999999999999999999977765544455566554432      11222456667777666555443

>TIGR00968 3a0106s01 sulfate ABC transporter, ATP-binding protein

Probab=98.16  E-value=9.1e-06  Score=72.56  Aligned_cols=35  Identities=31%  Similarity=0.442  Sum_probs=29.0

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeE
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYC  151 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v  151 (315)
                      +.+|+++.|.|++|+|||||+..++.......+.+
T Consensus        23 i~~Ge~~~l~G~nGsGKSTLl~~i~G~~~~~~G~i   57 (237)
T TIGR00968        23 VPTGSLVALLGPSGSGKSTLLRIIAGLEQPDSGRI   57 (237)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhcCCCCCceEE
Confidence            67999999999999999999999987654444444

>cd03233 ABC_PDR_domain1 The pleiotropic drug resistance (PDR) family of ATP-binding cassette (ABC) transporters

Probab=98.15  E-value=6.4e-06  Score=71.78  Aligned_cols=30  Identities=27%  Similarity=0.403  Sum_probs=26.5

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHH
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQ  145 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~  145 (315)
                      -+++|+++.|.|++|+|||||+..++....
T Consensus        29 ~i~~Ge~~~i~G~nGsGKSTLl~~l~G~~~   58 (202)
T cd03233          29 VVKPGEMVLVLGRPGSGCSTLLKALANRTE   58 (202)
T ss_pred             EECCCcEEEEECCCCCCHHHHHHHhcccCC
Confidence            367999999999999999999988877665

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.

>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=98.15  E-value=1e-05  Score=70.93  Aligned_cols=36  Identities=25%  Similarity=0.396  Sum_probs=28.7

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEE
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAY  153 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~  153 (315)
                      +.+ +++.|.|++|+|||||+..++.......+.+.|
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            568 999999999999999999887765544555543

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.

>cd03263 ABC_subfamily_A The ABCA subfamily mediates the transport of a variety of lipid compounds

Probab=98.15  E-value=1.2e-05  Score=70.72  Aligned_cols=38  Identities=26%  Similarity=0.342  Sum_probs=30.6

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEE
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAY  153 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~  153 (315)
                      -+++|+++.|.||+|+|||||+..++.......+.+.|
T Consensus        24 ~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~~~~G~i~~   61 (220)
T cd03263          24 NVYKGEIFGLLGHNGAGKTTTLKMLTGELRPTSGTAYI   61 (220)
T ss_pred             EEcCCcEEEEECCCCCCHHHHHHHHhCCCCCCCcEEEE
Confidence            36799999999999999999998888765555555543

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.

>COG4619 ABC-type uncharacterized transport system, ATPase component [General function prediction only]

Probab=98.15  E-value=1.8e-05  Score=66.27  Aligned_cols=125  Identities=16%  Similarity=0.331  Sum_probs=74.5

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCC--h-HHHHH----------cCCC-CCCeEEe---
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALD--P-SLAEA----------MGID-AENLLIA---  178 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~--~-~~~~~----------~g~~-~~~l~i~---  178 (315)
                      -+.+|+.+.|.||+|+|||||..++|.-..... ..+||..|.-..  + ....+          +|-. .+|+.+.   
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 SVRAGEFIAITGPSGCGKSTLLKIVASLISPTS-GTLLFEGEDVSTLKPEAYRQQVSYCAQTPALFGDTVEDNLIFPWQI  103 (223)
T ss_pred             eecCCceEEEeCCCCccHHHHHHHHHhccCCCC-ceEEEcCccccccChHHHHHHHHHHHcCccccccchhhccccchHH
Confidence            467999999999999999999988876655444 445555543321  1 11111          1211 1222211   


Q ss_pred             ---CCC--------------------------CHH-HHHHHHHHHHHcCCccEEeehhHhhhccccccCCCccCCChHHH
Q 021239          179 ---QPD--------------------------SAE-NLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQ  228 (315)
Q Consensus       179 ---~~~--------------------------~~e-~~~~~i~~l~~~~~~~lVVIDsl~~l~~~~~~~~~~~~~~~~~q  228 (315)
                         +++                          ..| +...+++.+  +..|+++.+|.+++...  +           ..
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--E-----------SN  168 (223)
T ss_pred             hccCCChHHHHHHHHHcCCchhhhcchhhhccchHHHHHHHHHHh--hcCCceEEecCchhhcC--h-----------hh
Confidence               011                          111 334445554  46899999999987762  1           11


Q ss_pred             HHHHHHHHHHHHHHHhccCcEEEEEeccccc
Q 021239          229 SRIMTQALRKIHYSLCQSHTLIIFLNQVRFS  259 (315)
Q Consensus       229 ~r~i~~~l~~L~~~~~~~~i~VI~inq~~~~  259 (315)
                      .+.+-..+.++.   ++.+++|+-++|--+.
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            233555555554   7899999999987654

>PRK09536 btuD corrinoid ABC transporter ATPase; Reviewed

Probab=98.15  E-value=8.3e-06  Score=78.43  Aligned_cols=38  Identities=24%  Similarity=0.332  Sum_probs=30.5

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEE
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAY  153 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~  153 (315)
                      -+++|+++.|.||+|+|||||+..++.......+.+.+
T Consensus        25 ~i~~Geiv~liGpNGaGKSTLLk~LaGll~p~sG~I~l   62 (402)
T PRK09536         25 SVREGSLVGLVGPNGAGKTTLLRAINGTLTPTAGTVLV   62 (402)
T ss_pred             EECCCCEEEEECCCCchHHHHHHHHhcCCCCCCcEEEE
Confidence            36799999999999999999999888765544555543

>PRK03992 proteasome-activating nucleotidase; Provisional

Probab=98.15  E-value=1.1e-05  Score=77.35  Aligned_cols=123  Identities=19%  Similarity=0.154  Sum_probs=64.9

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCChHHHHHcCCCCCCeEEeCCCCHHHHHHHHHHHHH
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTK  195 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~~~~~~~g~~~~~l~i~~~~~~e~~~~~i~~l~~  195 (315)
                      |+++..-++|+||||+|||++|..++...   +...+.++..+     ....+           ....+.....+-....
T Consensus       161 g~~~p~gvLL~GppGtGKT~lAkaia~~~---~~~~i~v~~~~-----l~~~~-----------~g~~~~~i~~~f~~a~  221 (389)
T PRK03992        161 GIEPPKGVLLYGPPGTGKTLLAKAVAHET---NATFIRVVGSE-----LVQKF-----------IGEGARLVRELFELAR  221 (389)
T ss_pred             CCCCCCceEEECCCCCChHHHHHHHHHHh---CCCEEEeehHH-----HhHhh-----------ccchHHHHHHHHHHHH
Confidence            56666679999999999999999987765   33444443211     11100           1112223333333344


Q ss_pred             cCCccEEeehhHhhhccccccCCCccCCChHHHHHHHHHHHHHHHHHHhccCcEEEEEecccccc
Q 021239          196 SGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVRFSA  260 (315)
Q Consensus       196 ~~~~~lVVIDsl~~l~~~~~~~~~~~~~~~~~q~r~i~~~l~~L~~~~~~~~i~VI~inq~~~~~  260 (315)
                      ...+.+|+||.+..+.........   .......+.+.+.+..+...-...++.||.++.....+
T Consensus       222 ~~~p~IlfiDEiD~l~~~r~~~~~---~~~~~~~~~l~~lL~~ld~~~~~~~v~VI~aTn~~~~l  283 (389)
T PRK03992        222 EKAPSIIFIDEIDAIAAKRTDSGT---SGDREVQRTLMQLLAEMDGFDPRGNVKIIAATNRIDIL  283 (389)
T ss_pred             hcCCeEEEEechhhhhcccccCCC---CccHHHHHHHHHHHHhccccCCCCCEEEEEecCChhhC
Confidence            567899999999998743211111   11112233344444433222223467777666544333

>PRK13543 cytochrome c biogenesis protein CcmA; Provisional

Probab=98.15  E-value=1.5e-05  Score=70.02  Aligned_cols=35  Identities=23%  Similarity=0.249  Sum_probs=28.5

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCe
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGY  150 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~  150 (315)
                      -+.+|+++.|.|++|+|||||+..++.......+.
T Consensus        33 ~i~~Ge~~~i~G~nGsGKSTLl~~i~G~~~~~~G~   67 (214)
T PRK13543         33 HVDAGEALLVQGDNGAGKTTLLRVLAGLLHVESGQ   67 (214)
T ss_pred             EECCCCEEEEEcCCCCCHHHHHHHHhCCCCCCCee
Confidence            46799999999999999999999888765443343

>PF09807 DUF2348: Uncharacterized conserved protein (DUF2348); InterPro: IPR018627 Members of this family of putative uncharacterised proteins have no known function

Probab=98.14  E-value=5e-05  Score=68.37  Aligned_cols=169  Identities=15%  Similarity=0.227  Sum_probs=118.4

Q ss_pred             cHHHHHhhcC--CCCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCCh--HHHHHcCCCCC------C
Q 021239          105 SLKLDLALGI--GGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP--SLAEAMGIDAE------N  174 (315)
Q Consensus       105 ~~~LD~~l~~--GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~--~~~~~~g~~~~------~  174 (315)
                      +++|+.+|++  +..++|.+++|... ++-=|.|..++...+.+.+.+|+++.+..++.-  ..++++|+++.      +
T Consensus         2 f~eln~ll~~~~~~~~~g~~ili~d~-~~dgsFLlh~~L~~~Lk~~~~V~fv~~~q~~~HY~~v~~KLG~NL~~~~~~gq   80 (249)
T PF09807_consen    2 FPELNSLLNWSPDSVPPGKLILIEDC-ETDGSFLLHHFLSQYLKAGCKVCFVAFSQSFSHYNNVAQKLGVNLSAAKEKGQ   80 (249)
T ss_pred             chHHHHHhcCCCCCCCCCeEEEEEcC-CCCchhHHHHHHHHHhcCCCcEEEEEccCCHHHHHHHHHhhEecchHhccCCc
Confidence            4788877753  57889999999999 999999999999999999999999999998764  67888888753      2


Q ss_pred             eEEeCC----------------------------CCHHHHHHHHHHHHHc---CCccEEeehhHhhhccccccCCCccCC
Q 021239          175 LLIAQP----------------------------DSAENLLSVVDTLTKS---GSIDVIVVDSVAALIPKCEIGVPINGM  223 (315)
Q Consensus       175 l~i~~~----------------------------~~~e~~~~~i~~l~~~---~~~~lVVIDsl~~l~~~~~~~~~~~~~  223 (315)
                      +.+.+.                            .+...+++.+++.+..   .+..+||||.++.+.. ....      
T Consensus        81 l~fiD~l~~~~~~l~~~~~~~~~~~~~~l~~~~~~~L~~L~~~I~~~l~~~~~~~~~~liIDdls~Ll~-lG~s------  153 (249)
T PF09807_consen   81 LVFIDGLKSSLDLLFDEDSSDEPNPLKFLREDNASSLRSLYEFIQEALSPADSNGSVVLIIDDLSVLLS-LGVS------  153 (249)
T ss_pred             EEEeehhhhhhhhhhccccccCCccccccccCCcchHHHHHHHHHHHHhhccCCCCeEEEEeCHHHHHH-cCCC------
Confidence            221110                            1245666666666543   4568999999999883 1110      


Q ss_pred             ChHHHHHHHHHHHHHHH-HHHhccCcEEEEEeccccccCCCCCCCCCcccc-ccccccccccceEEEEEeccc
Q 021239          224 YSDAQSRIMTQALRKIH-YSLCQSHTLIIFLNQVRFSAKSGQGLGRMDEVT-SGGNALKFYAALRLRMMRTRL  294 (315)
Q Consensus       224 ~~~~q~r~i~~~l~~L~-~~~~~~~i~VI~inq~~~~~~~~~~~~~~~~~~-~gG~~~~~~~~~rl~l~k~~~  294 (315)
                           ...+.++++.+. .++.+.+..+|++.|.....        ..+.. ...+.+.|.++.+|.++.-..
T Consensus       154 -----~~~vldF~~ycra~l~~~~~~~lVvl~h~d~~~--------~~e~~~~l~~~L~h~a~l~i~v~~L~T  213 (249)
T PF09807_consen  154 -----SNDVLDFIHYCRATLCSESNGSLVVLVHCDIDD--------EDEENDLLLNSLAHMADLVITVEPLPT  213 (249)
T ss_pred             -----HHHHHHHHHHHHHHhccccCCCEEEEEecCCCC--------ccchHHHHHHHHHHHhcEEEEecCCCC
Confidence                 123556666664 34566677777777765433        11222 367889999999998876543

>TIGR03005 ectoine_ehuA ectoine/hydroxyectoine ABC transporter, ATP-binding protein

Probab=98.14  E-value=1.1e-05  Score=72.59  Aligned_cols=37  Identities=22%  Similarity=0.274  Sum_probs=29.7

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEE
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCA  152 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~  152 (315)
                      -+++|+++.|.|++|+|||||+..++.......+.+.
T Consensus        22 ~i~~Ge~~~i~G~nGsGKSTLl~~l~G~~~~~~G~i~   58 (252)
T TIGR03005        22 SVAAGEKVALIGPSGSGKSTILRILMTLEPIDEGQIQ   58 (252)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhCCCCCCceEEE
Confidence            3679999999999999999999988866544445543

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.

>cd03226 ABC_cobalt_CbiO_domain2 Domain II of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota

Probab=98.14  E-value=6.9e-06  Score=71.58  Aligned_cols=36  Identities=31%  Similarity=0.420  Sum_probs=28.9

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeE
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYC  151 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v  151 (315)
                      -+++|+++.|.||+|+|||||+..++.......+.+
T Consensus        22 ~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~p~~G~i   57 (205)
T cd03226          22 DLYAGEIIALTGKNGAGKTTLAKILAGLIKESSGSI   57 (205)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhcCCCCCceEE
Confidence            367999999999999999999998877654444444

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.

>COG0411 LivG ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]

Probab=98.14  E-value=6.3e-06  Score=72.75  Aligned_cols=50  Identities=22%  Similarity=0.220  Sum_probs=37.2

Q ss_pred             CcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEe
Q 021239          104 GSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLD  155 (315)
Q Consensus       104 G~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~  155 (315)
                      |+..+|..-=  -+++|+++.|.||+|+||||+...+...+...++.+.|-.
T Consensus        16 Gl~Al~~Vsl--~v~~Gei~~LIGPNGAGKTTlfNlitG~~~P~~G~v~~~G   65 (250)
T COG0411          16 GLTAVNDVSL--EVRPGEIVGLIGPNGAGKTTLFNLITGFYKPSSGTVIFRG   65 (250)
T ss_pred             CEEEEeceeE--EEcCCeEEEEECCCCCCceeeeeeecccccCCCceEEECC
Confidence            4444444433  5789999999999999999999777777766667765544

>PRK13652 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=98.14  E-value=2e-05  Score=72.12  Aligned_cols=36  Identities=22%  Similarity=0.332  Sum_probs=29.7

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEE
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCA  152 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~  152 (315)
                      +++|+++.|.|++|+|||||+..++.......+.+.
T Consensus        27 i~~Ge~~~i~G~NGsGKSTLl~~l~Gl~~p~~G~i~   62 (277)
T PRK13652         27 APRNSRIAVIGPNGAGKSTLFRHFNGILKPTSGSVL   62 (277)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhcCCCCCceEEE
Confidence            679999999999999999999988876554555543

>PRK08116 hypothetical protein; Validated

Probab=98.13  E-value=2.6e-05  Score=71.12  Aligned_cols=38  Identities=21%  Similarity=0.277  Sum_probs=33.7

Q ss_pred             CcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecC
Q 021239          120 GRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVE  157 (315)
Q Consensus       120 G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E  157 (315)
                      +..++|+|++|+|||+|+..++..+...+.+|+|++..
T Consensus       114 ~~gl~l~G~~GtGKThLa~aia~~l~~~~~~v~~~~~~  151 (268)
T PRK08116        114 NVGLLLWGSVGTGKTYLAACIANELIEKGVPVIFVNFP  151 (268)
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEEHH
Confidence            44689999999999999999999998888999999853

>TIGR03522 GldA_ABC_ATP gliding motility-associated ABC transporter ATP-binding subunit GldA

Probab=98.13  E-value=1.3e-05  Score=74.30  Aligned_cols=38  Identities=26%  Similarity=0.283  Sum_probs=30.1

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEE
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAY  153 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~  153 (315)
                      -+++|+++.|.||+|+|||||+..++.......+.+.+
T Consensus        24 ~i~~Gei~~l~G~NGaGKTTLl~~l~Gl~~~~~G~i~i   61 (301)
T TIGR03522        24 EAQKGRIVGFLGPNGAGKSTTMKIITGYLPPDSGSVQV   61 (301)
T ss_pred             EEeCCeEEEEECCCCCCHHHHHHHHhCCCCCCceEEEE
Confidence            36799999999999999999998887655444555543

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.

>COG4618 ArpD ABC-type protease/lipase transport system, ATPase and permease components [General function prediction only]

Probab=98.13  E-value=2.2e-05  Score=75.86  Aligned_cols=123  Identities=17%  Similarity=0.207  Sum_probs=75.2

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCC---CChHHHHHcCCCCCCeEEeC------------CC
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENA---LDPSLAEAMGIDAENLLIAQ------------PD  181 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~---~~~~~~~~~g~~~~~l~i~~------------~~  181 (315)
                      +++|+...|.||+|+|||||+..+........+.| -+|.-+-   .....-+.+|+-++++.+++            ..
T Consensus       359 l~~G~~lgIIGPSgSGKSTLaR~lvG~w~p~~G~V-RLDga~l~qWd~e~lG~hiGYLPQdVeLF~GTIaeNIaRf~~~~  437 (580)
T COG4618         359 LQAGEALGIIGPSGSGKSTLARLLVGIWPPTSGSV-RLDGADLRQWDREQLGRHIGYLPQDVELFDGTIAENIARFGEEA  437 (580)
T ss_pred             ecCCceEEEECCCCccHHHHHHHHHcccccCCCcE-EecchhhhcCCHHHhccccCcCcccceecCCcHHHHHHhccccC
Confidence            56899999999999999999998887766544443 4443211   11234566777777654432            22


Q ss_pred             CHHHHHHHHH-----HHH-------------------------------HcCCccEEeehhHhhhccccccCCCccCCCh
Q 021239          182 SAENLLSVVD-----TLT-------------------------------KSGSIDVIVVDSVAALIPKCEIGVPINGMYS  225 (315)
Q Consensus       182 ~~e~~~~~i~-----~l~-------------------------------~~~~~~lVVIDsl~~l~~~~~~~~~~~~~~~  225 (315)
                      +.+.+++..+     +++                               --++|.+||+|..++-..     .       
T Consensus       438 d~~kIieAA~lAgvHelIl~lP~GYdT~iG~~G~~LSgGQRQRIaLARAlYG~P~lvVLDEPNsNLD-----~-------  505 (580)
T COG4618         438 DPEKVIEAARLAGVHELILRLPQGYDTRIGEGGATLSGGQRQRIALARALYGDPFLVVLDEPNSNLD-----S-------  505 (580)
T ss_pred             CHHHHHHHHHHcChHHHHHhCcCCccCccCCCCCCCCchHHHHHHHHHHHcCCCcEEEecCCCCCcc-----h-------
Confidence            3333332221     111                               025789999997765441     1       


Q ss_pred             HHHHHHHHHHHHHHHHHHhccCcEEEEEeccc
Q 021239          226 DAQSRIMTQALRKIHYSLCQSHTLIIFLNQVR  257 (315)
Q Consensus       226 ~~q~r~i~~~l~~L~~~~~~~~i~VI~inq~~  257 (315)
                       .-...+...+..+    +..|+++|++.|--
T Consensus       506 -~GE~AL~~Ai~~~----k~rG~~vvviaHRP  532 (580)
T COG4618         506 -EGEAALAAAILAA----KARGGTVVVIAHRP  532 (580)
T ss_pred             -hHHHHHHHHHHHH----HHcCCEEEEEecCH
Confidence             1122355555555    78899999999853

>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=98.13  E-value=2e-05  Score=64.93  Aligned_cols=107  Identities=16%  Similarity=0.214  Sum_probs=63.5

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCChHHHHHcCCCCCCeEEeCCCCHH--HHHHHHHHH
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAE--NLLSVVDTL  193 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~~~~~~~g~~~~~l~i~~~~~~e--~~~~~i~~l  193 (315)
                      -+++|+++.|.|++|+|||||+..++.......+.+ +++..               ..+.+....+.-  +-+.+.+.+
T Consensus        22 ~~~~Ge~~~i~G~nGsGKStLl~~l~G~~~~~~G~i-~~~~~---------------~~i~~~~~lS~G~~~rv~laral   85 (144)
T cd03221          22 TINPGDRIGLVGRNGAGKSTLLKLIAGELEPDEGIV-TWGST---------------VKIGYFEQLSGGEKMRLALAKLL   85 (144)
T ss_pred             EECCCCEEEEECCCCCCHHHHHHHHcCCCCCCceEE-EECCe---------------EEEEEEccCCHHHHHHHHHHHHH
Confidence            367999999999999999999988877655444444 44421               112222212222  333444444


Q ss_pred             HHcCCccEEeehhHhhhccccccCCCccCCChHHHHHHHHHHHHHHHHHHhccCcEEEEEecccccc
Q 021239          194 TKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVRFSA  260 (315)
Q Consensus       194 ~~~~~~~lVVIDsl~~l~~~~~~~~~~~~~~~~~q~r~i~~~l~~L~~~~~~~~i~VI~inq~~~~~  260 (315)
                      +  .+++++++|....-...             .....+.+.++       +.+.++++++|-....
T Consensus        86 ~--~~p~illlDEP~~~LD~-------------~~~~~l~~~l~-------~~~~til~~th~~~~~  130 (144)
T cd03221          86 L--ENPNLLLLDEPTNHLDL-------------ESIEALEEALK-------EYPGTVILVSHDRYFL  130 (144)
T ss_pred             h--cCCCEEEEeCCccCCCH-------------HHHHHHHHHHH-------HcCCEEEEEECCHHHH
Confidence            4  47899999977654410             11122333333       3357899998876544

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.

>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=98.13  E-value=1.5e-05  Score=70.73  Aligned_cols=36  Identities=25%  Similarity=0.363  Sum_probs=29.4

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEE
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCA  152 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~  152 (315)
                      +++|+++.|.|++|+|||||+..++.......+.+.
T Consensus        23 i~~Ge~~~l~G~nGsGKSTLl~~l~Gl~~p~~G~i~   58 (232)
T cd03218          23 VKQGEIVGLLGPNGAGKTTTFYMIVGLVKPDSGKIL   58 (232)
T ss_pred             ecCCcEEEEECCCCCCHHHHHHHHhCCCCCCCcEEE
Confidence            679999999999999999999888876554455543

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.

>COG3840 ThiQ ABC-type thiamine transport system, ATPase component [Coenzyme metabolism]

Probab=98.13  E-value=1.9e-05  Score=66.99  Aligned_cols=44  Identities=27%  Similarity=0.360  Sum_probs=31.8

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCC
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENA  159 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~  159 (315)
                      -++.|+++.|.||+|+|||||..-+|.-.....+.+..-+-+++
T Consensus        21 ~v~~ge~vAi~GpSGaGKSTLLnLIAGF~~P~~G~i~i~g~d~t   64 (231)
T COG3840          21 TVPAGEIVAILGPSGAGKSTLLNLIAGFETPASGEILINGVDHT   64 (231)
T ss_pred             eecCCcEEEEECCCCccHHHHHHHHHhccCCCCceEEEcCeecC
Confidence            36799999999999999999997766655555555443333333

>TIGR02324 CP_lyasePhnL phosphonate C-P lyase system protein PhnL

Probab=98.13  E-value=1.5e-05  Score=70.38  Aligned_cols=37  Identities=22%  Similarity=0.249  Sum_probs=30.2

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEE
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAY  153 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~  153 (315)
                      +.+|+++.|.|++|+|||||+..++.......+.+.|
T Consensus        31 i~~Ge~~~l~G~nGsGKSTLl~~i~G~~~~~~G~i~~   67 (224)
T TIGR02324        31 VNAGECVALSGPSGAGKSTLLKSLYANYLPDSGRILV   67 (224)
T ss_pred             ECCCCEEEEECCCCCCHHHHHHHHhCCCCCCCCeEEE
Confidence            5799999999999999999999887765555556544

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.

>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=98.13  E-value=3.1e-05  Score=65.31  Aligned_cols=36  Identities=19%  Similarity=0.138  Sum_probs=29.1

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeE
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYC  151 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v  151 (315)
                      -+++|+++.|.|++|+|||||+..++.......+.+
T Consensus        23 ~i~~Ge~~~i~G~nGsGKSTLl~~l~G~~~~~~G~i   58 (166)
T cd03223          23 EIKPGDRLLITGPSGTGKSSLFRALAGLWPWGSGRI   58 (166)
T ss_pred             EECCCCEEEEECCCCCCHHHHHHHHhcCCCCCCceE
Confidence            367999999999999999999998887655444433

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

>PRK14250 phosphate ABC transporter ATP-binding protein; Provisional

Probab=98.13  E-value=1.1e-05  Score=72.33  Aligned_cols=37  Identities=24%  Similarity=0.289  Sum_probs=29.6

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEE
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAY  153 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~  153 (315)
                      +.+|+++.|.|++|+|||||+..++.......+.+.|
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            5689999999999999999999888765444455443

>TIGR01186 proV glycine betaine/L-proline transport ATP binding subunit

Probab=98.12  E-value=8.1e-06  Score=77.49  Aligned_cols=41  Identities=29%  Similarity=0.418  Sum_probs=32.5

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecC
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVE  157 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E  157 (315)
                      -+++|+++.|.|++|+|||||+..++.......+.+ +++.+
T Consensus        15 ~i~~Gei~~l~G~sGsGKSTLLr~L~Gl~~p~~G~I-~i~G~   55 (363)
T TIGR01186        15 AIAKGEIFVIMGLSGSGKSTTVRMLNRLIEPTAGQI-FIDGE   55 (363)
T ss_pred             EEcCCCEEEEECCCCChHHHHHHHHhCCCCCCceEE-EECCE
Confidence            367999999999999999999998887776555555 44443

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

>PRK14974 cell division protein FtsY; Provisional

Probab=98.12  E-value=4e-05  Score=71.88  Aligned_cols=91  Identities=20%  Similarity=0.223  Sum_probs=59.1

Q ss_pred             CCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCCh------HHHHHcCCCCCCeEEeCCCCHHHHHHHHHH
Q 021239          119 KGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP------SLAEAMGIDAENLLIAQPDSAENLLSVVDT  192 (315)
Q Consensus       119 ~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~------~~~~~~g~~~~~l~i~~~~~~e~~~~~i~~  192 (315)
                      ++.++.+.|+||+||||++..++..+...|.+|++++.+.-...      .+++.+|+..-... ...++..-+.+.+..
T Consensus       139 ~~~vi~~~G~~GvGKTTtiakLA~~l~~~g~~V~li~~Dt~R~~a~eqL~~~a~~lgv~v~~~~-~g~dp~~v~~~ai~~  217 (336)
T PRK14974        139 KPVVIVFVGVNGTGKTTTIAKLAYYLKKNGFSVVIAAGDTFRAGAIEQLEEHAERLGVKVIKHK-YGADPAAVAYDAIEH  217 (336)
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEecCCcCcHHHHHHHHHHHHHcCCceeccc-CCCCHHHHHHHHHHH
Confidence            35799999999999999999999888888889999887743221      24555665432111 111222223333333


Q ss_pred             HHHcCCccEEeehhHhhhc
Q 021239          193 LTKSGSIDVIVVDSVAALI  211 (315)
Q Consensus       193 l~~~~~~~lVVIDsl~~l~  211 (315)
                       ....+.++|+||.-..+.
T Consensus       218 -~~~~~~DvVLIDTaGr~~  235 (336)
T PRK14974        218 -AKARGIDVVLIDTAGRMH  235 (336)
T ss_pred             -HHhCCCCEEEEECCCccC
Confidence             234578999999877554

>TIGR01189 ccmA heme ABC exporter, ATP-binding protein CcmA

Probab=98.12  E-value=1.4e-05  Score=69.18  Aligned_cols=35  Identities=26%  Similarity=0.280  Sum_probs=28.6

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeE
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYC  151 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v  151 (315)
                      +.+|+++.|.||+|+|||||+..++.......+.+
T Consensus        23 i~~Ge~~~i~G~nGsGKSTLl~~l~G~~~~~~G~i   57 (198)
T TIGR01189        23 LNAGEALQVTGPNGIGKTTLLRILAGLLRPDSGEV   57 (198)
T ss_pred             EcCCcEEEEECCCCCCHHHHHHHHhCCCCCCccEE
Confidence            66999999999999999999998887654444443

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.

>PRK13634 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=98.11  E-value=1.1e-05  Score=74.37  Aligned_cols=37  Identities=35%  Similarity=0.492  Sum_probs=30.1

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEE
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCA  152 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~  152 (315)
                      -+++|+++.|.|++|+|||||+..++.......+.+.
T Consensus        29 ~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~p~~G~i~   65 (290)
T PRK13634         29 SIPSGSYVAIIGHTGSGKSTLLQHLNGLLQPTSGTVT   65 (290)
T ss_pred             EEcCCCEEEEECCCCCcHHHHHHHHhcCCCCCCcEEE
Confidence            4779999999999999999999988876554444443

>PRK13648 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=98.11  E-value=1.3e-05  Score=72.94  Aligned_cols=40  Identities=30%  Similarity=0.476  Sum_probs=30.9

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEec
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDV  156 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~  156 (315)
                      -+++|+++.|.||+|+|||||+..++.......+.+ +++.
T Consensus        31 ~i~~Ge~~~I~G~nGsGKSTLl~~i~Gl~~~~~G~i-~~~g   70 (269)
T PRK13648         31 NIPKGQWTSIVGHNGSGKSTIAKLMIGIEKVKSGEI-FYNN   70 (269)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhcCCCCCceEE-EECC
Confidence            367999999999999999999988877654444444 4443

>cd03235 ABC_Metallic_Cations ABC component of the metal-type transporters

Probab=98.11  E-value=1.4e-05  Score=70.03  Aligned_cols=36  Identities=22%  Similarity=0.361  Sum_probs=28.9

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeE
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYC  151 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v  151 (315)
                      -+++|+++.|.|++|+|||||+..++.......+.+
T Consensus        21 ~i~~Ge~~~l~G~nGsGKSTLl~~l~G~~~p~~G~i   56 (213)
T cd03235          21 EVKPGEFLAIVGPNGAGKSTLLKAILGLLKPTSGSI   56 (213)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHcCCCCCCCCEE
Confidence            367999999999999999999998877654444444

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.

>PRK13640 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=98.11  E-value=1.4e-05  Score=73.39  Aligned_cols=32  Identities=22%  Similarity=0.352  Sum_probs=27.5

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhc
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKL  147 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~  147 (315)
                      -+++|+++.|.|++|+|||||+..++......
T Consensus        29 ~i~~Ge~~~I~G~nGaGKSTLl~~l~G~~~p~   60 (282)
T PRK13640         29 SIPRGSWTALIGHNGSGKSTISKLINGLLLPD   60 (282)
T ss_pred             EEcCCCEEEEECCCCCcHHHHHHHHhcccCCC
Confidence            46799999999999999999999888766443

>COG1134 TagH ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]

Probab=98.11  E-value=1.3e-05  Score=70.87  Aligned_cols=142  Identities=16%  Similarity=0.261  Sum_probs=78.2

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCe------EE-EEecCCCCChH---------HHHHcCCCCCCeE----
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGY------CA-YLDVENALDPS---------LAEAMGIDAENLL----  176 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~------v~-~i~~E~~~~~~---------~~~~~g~~~~~l~----  176 (315)
                      +.+|+.+.|.|++|+|||||+.-++.......++      +. .++....+.++         ++.-+|+..+.+.    
T Consensus        50 i~~Ge~vGiiG~NGaGKSTLlkliaGi~~Pt~G~v~v~G~v~~li~lg~Gf~pelTGreNi~l~~~~~G~~~~ei~~~~~  129 (249)
T COG1134          50 IYKGERVGIIGHNGAGKSTLLKLIAGIYKPTSGKVKVTGKVAPLIELGAGFDPELTGRENIYLRGLILGLTRKEIDEKVD  129 (249)
T ss_pred             EeCCCEEEEECCCCCcHHHHHHHHhCccCCCCceEEEcceEehhhhcccCCCcccchHHHHHHHHHHhCccHHHHHHHHH
Confidence            5789999999999999999998887766654333      33 33433333321         1222333221110    


Q ss_pred             -EeCCCCHHH------------HHHHH-HHHHHcCCccEEeehhHhhhccccccCCCccCCChHHHHHHHHHHHHHHHHH
Q 021239          177 -IAQPDSAEN------------LLSVV-DTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYS  242 (315)
Q Consensus       177 -i~~~~~~e~------------~~~~i-~~l~~~~~~~lVVIDsl~~l~~~~~~~~~~~~~~~~~q~r~i~~~l~~L~~~  242 (315)
                       +.+-..+.+            +...+ -.....-+|++++||..-++-. .               ....+...++..+
T Consensus       130 eIieFaELG~fi~~PvktYSSGM~aRLaFsia~~~~pdILllDEvlavGD-~---------------~F~~K~~~rl~e~  193 (249)
T COG1134         130 EIIEFAELGDFIDQPVKTYSSGMYARLAFSVATHVEPDILLLDEVLAVGD-A---------------AFQEKCLERLNEL  193 (249)
T ss_pred             HHHHHHHHHHHhhCchhhccHHHHHHHHHhhhhhcCCCEEEEehhhhcCC-H---------------HHHHHHHHHHHHH
Confidence             000000000            11111 1112345899999998887652 1               1122334444433


Q ss_pred             HhccCcEEEEEeccccccCCCCCCCCCccccccccccccccceEEEEEeccc
Q 021239          243 LCQSHTLIIFLNQVRFSAKSGQGLGRMDEVTSGGNALKFYAALRLRMMRTRL  294 (315)
Q Consensus       243 ~~~~~i~VI~inq~~~~~~~~~~~~~~~~~~~gG~~~~~~~~~rl~l~k~~~  294 (315)
                       .+.+.++|+++|-...+                   ..+++..+.+++.+.
T Consensus       194 -~~~~~tiv~VSHd~~~I-------------------~~~Cd~~i~l~~G~i  225 (249)
T COG1134         194 -VEKNKTIVLVSHDLGAI-------------------KQYCDRAIWLEHGQI  225 (249)
T ss_pred             -HHcCCEEEEEECCHHHH-------------------HHhcCeeEEEeCCEE
Confidence             34569999999987555                   236777777777654

>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=98.11  E-value=1.1e-05  Score=71.90  Aligned_cols=35  Identities=31%  Similarity=0.341  Sum_probs=28.5

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeE
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYC  151 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v  151 (315)
                      +++|+++.|.|++|+|||||+..++.......+.+
T Consensus        44 i~~Ge~~~i~G~NGsGKSTLl~~i~Gl~~p~~G~i   78 (236)
T cd03267          44 IEKGEIVGFIGPNGAGKTTTLKILSGLLQPTSGEV   78 (236)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhCCcCCCceEE
Confidence            56999999999999999999998887654444444

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.

>PRK10895 lipopolysaccharide ABC transporter ATP-binding protein; Provisional

Probab=98.11  E-value=1.7e-05  Score=70.92  Aligned_cols=37  Identities=27%  Similarity=0.361  Sum_probs=30.1

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEE
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAY  153 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~  153 (315)
                      +++|+++.|.|++|+|||||+..++.......+.+.+
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            5699999999999999999999888766544555443

>cd03257 ABC_NikE_OppD_transporters The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE)

Probab=98.11  E-value=1.2e-05  Score=70.96  Aligned_cols=37  Identities=27%  Similarity=0.412  Sum_probs=29.8

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEE
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCA  152 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~  152 (315)
                      -+++|+++.|.||+|+|||||+..++.......+.+.
T Consensus        27 ~i~~Ge~~~i~G~nGsGKSTLl~~l~G~~~~~~G~i~   63 (228)
T cd03257          27 SIKKGETLGLVGESGSGKSTLARAILGLLKPTSGSII   63 (228)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhCCCCCCCceEE
Confidence            4679999999999999999999988876554444443

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.

>PRK10908 cell division protein FtsE; Provisional

Probab=98.11  E-value=1.5e-05  Score=70.34  Aligned_cols=37  Identities=19%  Similarity=0.231  Sum_probs=29.5

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEE
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCA  152 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~  152 (315)
                      -+.+|+++.|.|++|+|||||+..++.......+.+.
T Consensus        24 ~i~~Ge~~~i~G~nGsGKSTLl~~l~G~~~~~~G~i~   60 (222)
T PRK10908         24 HMRPGEMAFLTGHSGAGKSTLLKLICGIERPSAGKIW   60 (222)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhCCCCCCceEEE
Confidence            3679999999999999999999988866544444443

>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=98.11  E-value=1.1e-05  Score=78.03  Aligned_cols=84  Identities=21%  Similarity=0.278  Sum_probs=59.3

Q ss_pred             CCCcEEEEEecCCCChhHHHHHHHHHHH--hcCCeEEEEecCCCCC----h--HHHHHcCCCCCCeEEeCCCCHHHHHHH
Q 021239          118 PKGRIVEIYGREASGKTTLALHVIKEAQ--KLGGYCAYLDVENALD----P--SLAEAMGIDAENLLIAQPDSAENLLSV  189 (315)
Q Consensus       118 ~~G~i~~i~G~~GsGKTtlal~la~~~~--~~g~~v~~i~~E~~~~----~--~~~~~~g~~~~~l~i~~~~~~e~~~~~  189 (315)
                      ..|.++.|.||+|+||||++..+|..+.  ..+.+|++++++....    +  .+++.++++.     ....+..++...
T Consensus       219 ~~~~~i~~vGptGvGKTTt~~kLA~~~~~~~~g~~V~li~~D~~r~~a~eqL~~~a~~~~vp~-----~~~~~~~~l~~~  293 (424)
T PRK05703        219 KQGGVVALVGPTGVGKTTTLAKLAARYALLYGKKKVALITLDTYRIGAVEQLKTYAKIMGIPV-----EVVYDPKELAKA  293 (424)
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEECCccHHHHHHHHHHHHHHhCCce-----EccCCHHhHHHH
Confidence            3477999999999999999999999887  4578999999876421    1  2344455432     223344566666


Q ss_pred             HHHHHHcCCccEEeehhHhh
Q 021239          190 VDTLTKSGSIDVIVVDSVAA  209 (315)
Q Consensus       190 i~~l~~~~~~~lVVIDsl~~  209 (315)
                      +..+   .+.++|+||....
T Consensus       294 l~~~---~~~DlVlIDt~G~  310 (424)
T PRK05703        294 LEQL---RDCDVILIDTAGR  310 (424)
T ss_pred             HHHh---CCCCEEEEeCCCC
Confidence            6554   3689999997653

>PRK13636 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=98.11  E-value=1.3e-05  Score=73.61  Aligned_cols=38  Identities=24%  Similarity=0.386  Sum_probs=30.4

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEE
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAY  153 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~  153 (315)
                      =+++|+++.|.|++|+|||||+..++.......+.+.+
T Consensus        28 ~i~~Ge~~~i~G~nGaGKSTLl~~i~Gl~~p~~G~i~i   65 (283)
T PRK13636         28 NIKKGEVTAILGGNGAGKSTLFQNLNGILKPSSGRILF   65 (283)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhcCCCCCccEEEE
Confidence            36799999999999999999998888765544555543

>PRK13647 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=98.10  E-value=1.3e-05  Score=73.27  Aligned_cols=37  Identities=27%  Similarity=0.420  Sum_probs=29.5

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEE
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCA  152 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~  152 (315)
                      =+++|+++.|.|++|+|||||+..++.......+.+.
T Consensus        27 ~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~p~~G~i~   63 (274)
T PRK13647         27 SIPEGSKTALLGPNGAGKSTLLLHLNGIYLPQRGRVK   63 (274)
T ss_pred             EEcCCCEEEEECCCCCcHHHHHHHHhcCCCCCceEEE
Confidence            3679999999999999999999888766544444443

>PRK13538 cytochrome c biogenesis protein CcmA; Provisional

Probab=98.10  E-value=1.9e-05  Score=68.81  Aligned_cols=38  Identities=29%  Similarity=0.369  Sum_probs=30.6

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEE
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAY  153 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~  153 (315)
                      -+++|+++.|.|++|+|||||+..++.......+.+.|
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            46799999999999999999999888765555555543

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

Probab=98.09  E-value=4.5e-05  Score=67.76  Aligned_cols=37  Identities=27%  Similarity=0.362  Sum_probs=29.2

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEE
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAY  153 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~  153 (315)
                      +++|+++.|.||+|||||||..-+|.-.....+.|.+
T Consensus        26 v~~GEfvsilGpSGcGKSTLLriiAGL~~p~~G~V~~   62 (248)
T COG1116          26 VEKGEFVAILGPSGCGKSTLLRLIAGLEKPTSGEVLL   62 (248)
T ss_pred             ECCCCEEEEECCCCCCHHHHHHHHhCCCCCCCceEEE
Confidence            5699999999999999999998777655554444443

>PRK13646 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=98.09  E-value=1.5e-05  Score=73.31  Aligned_cols=38  Identities=24%  Similarity=0.339  Sum_probs=30.7

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEE
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAY  153 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~  153 (315)
                      -+++|+++.|.|++|+|||||+..++.......+.+.|
T Consensus        29 ~i~~Ge~~~i~G~nGsGKSTLl~~L~Gl~~p~~G~i~~   66 (286)
T PRK13646         29 EFEQGKYYAIVGQTGSGKSTLIQNINALLKPTTGTVTV   66 (286)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhcCCCCCCcEEEE
Confidence            46799999999999999999999988766555555433

>PRK09544 znuC high-affinity zinc transporter ATPase; Reviewed

Probab=98.09  E-value=2.5e-05  Score=70.41  Aligned_cols=30  Identities=30%  Similarity=0.491  Sum_probs=26.2

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHh
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQK  146 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~  146 (315)
                      +++|+++.|.|++|+|||||+..++.....
T Consensus        27 i~~Ge~~~I~G~NGsGKSTLl~~i~Gl~~p   56 (251)
T PRK09544         27 LKPGKILTLLGPNGAGKSTLVRVVLGLVAP   56 (251)
T ss_pred             EcCCcEEEEECCCCCCHHHHHHHHhCCCCC
Confidence            679999999999999999999988766543

>TIGR03873 F420-0_ABC_ATP proposed F420-0 ABC transporter, ATP-binding protein

Probab=98.09  E-value=2.5e-05  Score=70.55  Aligned_cols=36  Identities=25%  Similarity=0.365  Sum_probs=29.2

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEE
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCA  152 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~  152 (315)
                      +.+|+++.|.|++|+|||||+..++.......+.+.
T Consensus        24 i~~Ge~~~i~G~nGsGKSTLl~~i~G~~~~~~G~i~   59 (256)
T TIGR03873        24 APPGSLTGLLGPNGSGKSTLLRLLAGALRPDAGTVD   59 (256)
T ss_pred             EcCCcEEEEECCCCCCHHHHHHHHcCCCCCCCCEEE
Confidence            569999999999999999999988776544445543

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.

>PRK00771 signal recognition particle protein Srp54; Provisional

Probab=98.09  E-value=7.8e-05  Score=72.36  Aligned_cols=99  Identities=24%  Similarity=0.265  Sum_probs=63.3

Q ss_pred             HHHHHhhcCCCC------CCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCCh------HHHHHcCCCCC
Q 021239          106 LKLDLALGIGGL------PKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP------SLAEAMGIDAE  173 (315)
Q Consensus       106 ~~LD~~l~~GGl------~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~------~~~~~~g~~~~  173 (315)
                      .+|-.+++ ++-      .+..++.++|++|+||||++..+|..+...|.+|++++.+.....      .+++.++++. 
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            45666666 321      235789999999999999999999988888899999998764332      2345555442 


Q ss_pred             CeEEe-CCCCHHHH-HHHHHHHHHcCCccEEeehhHhhhc
Q 021239          174 NLLIA-QPDSAENL-LSVVDTLTKSGSIDVIVVDSVAALI  211 (315)
Q Consensus       174 ~l~i~-~~~~~e~~-~~~i~~l~~~~~~~lVVIDsl~~l~  211 (315)
                        +.. ...+..++ .+.+... .  ..++|+||.-..+.
T Consensus       154 --~~~~~~~d~~~i~~~al~~~-~--~~DvVIIDTAGr~~  188 (437)
T PRK00771        154 --YGDPDNKDAVEIAKEGLEKF-K--KADVIIVDTAGRHA  188 (437)
T ss_pred             --EecCCccCHHHHHHHHHHHh-h--cCCEEEEECCCccc
Confidence              211 11222332 2333333 2  34999999776443

>PRK07952 DNA replication protein DnaC; Validated

Probab=98.09  E-value=3e-05  Score=69.61  Aligned_cols=36  Identities=22%  Similarity=0.247  Sum_probs=33.1

Q ss_pred             cEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEec
Q 021239          121 RIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDV  156 (315)
Q Consensus       121 ~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~  156 (315)
                      ..++|+|+||+|||+|+..++..+...|.+|+|++.
T Consensus       100 ~~~~l~G~~GtGKThLa~aia~~l~~~g~~v~~it~  135 (244)
T PRK07952        100 ASFIFSGKPGTGKNHLAAAICNELLLRGKSVLIITV  135 (244)
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEEH
Confidence            478999999999999999999999988999999975

>KOG0736 consensus Peroxisome assembly factor 2 containing the AAA+-type ATPase domain [Posttranslational modification, protein turnover, chaperones]

Probab=98.09  E-value=1.3e-05  Score=80.52  Aligned_cols=123  Identities=24%  Similarity=0.325  Sum_probs=79.9

Q ss_pred             hhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCChHHHHHcCCCCCCeEEeCCCCHHHHHHHH
Q 021239          111 ALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVV  190 (315)
Q Consensus       111 ~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~~~~~~~g~~~~~l~i~~~~~~e~~~~~i  190 (315)
                      +++ -|+.+.+=++++||||+|||.+|..+|.++.     .-|++..+   ++..        |.++-   ..|+.+..+
T Consensus       697 Lfs-sglrkRSGILLYGPPGTGKTLlAKAVATEcs-----L~FlSVKG---PELL--------NMYVG---qSE~NVR~V  756 (953)
T KOG0736|consen  697 LFS-SGLRKRSGILLYGPPGTGKTLLAKAVATECS-----LNFLSVKG---PELL--------NMYVG---QSEENVREV  756 (953)
T ss_pred             hhh-ccccccceeEEECCCCCchHHHHHHHHhhce-----eeEEeecC---HHHH--------HHHhc---chHHHHHHH
Confidence            566 7999999999999999999999999988873     44566432   1211        11221   123333333


Q ss_pred             HHHHHcCCccEEeehhHhhhccccccCCCccCCChHHHHHHHHHHHHHHHHHHhccCcEEEEEeccc
Q 021239          191 DTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVR  257 (315)
Q Consensus       191 ~~l~~~~~~~lVVIDsl~~l~~~~~~~~~~~~~~~~~q~r~i~~~l~~L~~~~~~~~i~VI~inq~~  257 (315)
                      -+-.++..|.+|+.|.+..+.|.-...++.|.    ...|.++|.|..|-.+.....-.|+++.-.+
T Consensus       757 FerAR~A~PCVIFFDELDSlAP~RG~sGDSGG----VMDRVVSQLLAELDgls~~~s~~VFViGATN  819 (953)
T KOG0736|consen  757 FERARSAAPCVIFFDELDSLAPNRGRSGDSGG----VMDRVVSQLLAELDGLSDSSSQDVFVIGATN  819 (953)
T ss_pred             HHHhhccCCeEEEeccccccCccCCCCCCccc----cHHHHHHHHHHHhhcccCCCCCceEEEecCC
Confidence            33334568999999999999976555444443    3456688888888766654445555555443

>PRK09493 glnQ glutamine ABC transporter ATP-binding protein; Reviewed

Probab=98.08  E-value=2.2e-05  Score=70.16  Aligned_cols=37  Identities=30%  Similarity=0.375  Sum_probs=29.8

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEE
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCA  152 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~  152 (315)
                      -+.+|+++.|.|++|+|||||+..++.......+.+.
T Consensus        23 ~i~~Ge~~~l~G~nGsGKSTLl~~l~G~~~~~~G~i~   59 (240)
T PRK09493         23 NIDQGEVVVIIGPSGSGKSTLLRCINKLEEITSGDLI   59 (240)
T ss_pred             EEcCCcEEEEECCCCCCHHHHHHHHhCCCCCCceEEE
Confidence            3679999999999999999999988876554444443

>PRK10619 histidine/lysine/arginine/ornithine transporter subunit; Provisional

Probab=98.07  E-value=1.7e-05  Score=71.60  Aligned_cols=40  Identities=20%  Similarity=0.238  Sum_probs=30.9

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEec
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDV  156 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~  156 (315)
                      -+++|+++.|.|++|+|||||+..++.......+.+ +++.
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            467999999999999999999988887654444444 4443

>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=98.07  E-value=2.1e-05  Score=74.70  Aligned_cols=87  Identities=10%  Similarity=0.212  Sum_probs=62.4

Q ss_pred             CcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCCh------HHHHHcCCCCCCeEEeCCCCHHHHHHHHHHH
Q 021239          120 GRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP------SLAEAMGIDAENLLIAQPDSAENLLSVVDTL  193 (315)
Q Consensus       120 G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~------~~~~~~g~~~~~l~i~~~~~~e~~~~~i~~l  193 (315)
                      +..+.|.||+|+||||++..+|..+..+|.+|.+++++.....      .+++.+|++     +....+..++...+..+
T Consensus       241 ~~vI~LVGptGvGKTTTiaKLA~~L~~~GkkVglI~aDt~RiaAvEQLk~yae~lgip-----v~v~~d~~~L~~aL~~l  315 (436)
T PRK11889        241 VQTIALIGPTGVGKTTTLAKMAWQFHGKKKTVGFITTDHSRIGTVQQLQDYVKTIGFE-----VIAVRDEAAMTRALTYF  315 (436)
T ss_pred             CcEEEEECCCCCcHHHHHHHHHHHHHHcCCcEEEEecCCcchHHHHHHHHHhhhcCCc-----EEecCCHHHHHHHHHHH
Confidence            4689999999999999999999998888889999998764421      123334432     33234556666666665


Q ss_pred             HHcCCccEEeehhHhhhc
Q 021239          194 TKSGSIDVIVVDSVAALI  211 (315)
Q Consensus       194 ~~~~~~~lVVIDsl~~l~  211 (315)
                      ....+.++|+||......
T Consensus       316 k~~~~~DvVLIDTaGRs~  333 (436)
T PRK11889        316 KEEARVDYILIDTAGKNY  333 (436)
T ss_pred             HhccCCCEEEEeCccccC
Confidence            444478999999776543

>PRK13768 GTPase; Provisional

Probab=98.07  E-value=3.8e-05  Score=69.43  Aligned_cols=41  Identities=29%  Similarity=0.332  Sum_probs=36.5

Q ss_pred             cEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCC
Q 021239          121 RIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALD  161 (315)
Q Consensus       121 ~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~  161 (315)
                      .++.+.|++|+||||++.+++..+...|.+|++++.+....
T Consensus         3 ~~i~v~G~~G~GKTt~~~~~~~~l~~~g~~v~~i~~D~~~~   43 (253)
T PRK13768          3 YIVFFLGTAGSGKTTLTKALSDWLEEQGYDVAIVNLDPAVE   43 (253)
T ss_pred             EEEEEECCCCccHHHHHHHHHHHHHhcCCceEEEECCCccc
Confidence            47899999999999999999999988899999999886543

>cd03253 ABCC_ATM1_transporter ATM1 is an ABC transporter that is expressed in the mitochondria

Probab=98.07  E-value=1.9e-05  Score=70.19  Aligned_cols=38  Identities=26%  Similarity=0.360  Sum_probs=30.8

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEE
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAY  153 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~  153 (315)
                      -+++|+++.|.|++|+|||||+..++.......+.+.|
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            46799999999999999999999988766555555543

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.

>COG1484 DnaC DNA replication protein [DNA replication, recombination, and repair]

Probab=98.07  E-value=2.9e-05  Score=70.18  Aligned_cols=40  Identities=25%  Similarity=0.380  Sum_probs=36.7

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEec
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDV  156 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~  156 (315)
                      ++.+..++|+|+||+|||+|+..++.++.+.|.+|+|+.+
T Consensus       102 ~~~~~nl~l~G~~G~GKThLa~Ai~~~l~~~g~sv~f~~~  141 (254)
T COG1484         102 FERGENLVLLGPPGVGKTHLAIAIGNELLKAGISVLFITA  141 (254)
T ss_pred             hccCCcEEEECCCCCcHHHHHHHHHHHHHHcCCeEEEEEH
Confidence            4478899999999999999999999999988999999985

>PRK13637 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=98.07  E-value=1.9e-05  Score=72.60  Aligned_cols=36  Identities=28%  Similarity=0.401  Sum_probs=29.1

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeE
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYC  151 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v  151 (315)
                      -+.+|+++.|.|++|+|||||+..++.......+.+
T Consensus        29 ~i~~Ge~~~i~G~nGaGKSTLl~~l~Gl~~p~~G~i   64 (287)
T PRK13637         29 EIEDGEFVGLIGHTGSGKSTLIQHLNGLLKPTSGKI   64 (287)
T ss_pred             EEcCCCEEEEECCCCCcHHHHHHHHhcCCCCCccEE
Confidence            467999999999999999999998886654444444

>PRK10070 glycine betaine transporter ATP-binding subunit; Provisional

Probab=98.07  E-value=1.3e-05  Score=76.96  Aligned_cols=36  Identities=25%  Similarity=0.344  Sum_probs=29.7

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEE
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCA  152 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~  152 (315)
                      +++|+++.|.||+|+|||||+..++.......+.+.
T Consensus        51 i~~Gei~~LvG~NGsGKSTLLr~I~Gl~~p~sG~I~   86 (400)
T PRK10070         51 IEEGEIFVIMGLSGSGKSTMVRLLNRLIEPTRGQVL   86 (400)
T ss_pred             EcCCCEEEEECCCCchHHHHHHHHHcCCCCCCCEEE
Confidence            679999999999999999999888876655555554

>PRK08939 primosomal protein DnaI; Reviewed

Probab=98.07  E-value=4.4e-05  Score=70.83  Aligned_cols=76  Identities=21%  Similarity=0.299  Sum_probs=51.2

Q ss_pred             CCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCChHHHHHcCCCCCCeEEeCCCCHHHHHHHHHHHHHcCC
Q 021239          119 KGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTKSGS  198 (315)
Q Consensus       119 ~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~~~~~~~g~~~~~l~i~~~~~~e~~~~~i~~l~~~~~  198 (315)
                      .+.-+.|+|++|+|||+|+..++..++..|.+|.|+....-.. .+...++          ..+..+.   +..+   ..
T Consensus       155 ~~~gl~L~G~~G~GKThLa~Aia~~l~~~g~~v~~~~~~~l~~-~lk~~~~----------~~~~~~~---l~~l---~~  217 (306)
T PRK08939        155 KVKGLYLYGDFGVGKSYLLAAIANELAKKGVSSTLLHFPEFIR-ELKNSIS----------DGSVKEK---IDAV---KE  217 (306)
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHHHHHcCCCEEEEEHHHHHH-HHHHHHh----------cCcHHHH---HHHh---cC
Confidence            4567999999999999999999999999999999998632111 1111111          1122222   2222   37


Q ss_pred             ccEEeehhHhhhc
Q 021239          199 IDVIVVDSVAALI  211 (315)
Q Consensus       199 ~~lVVIDsl~~l~  211 (315)
                      ++++|||-+..-.
T Consensus       218 ~dlLiIDDiG~e~  230 (306)
T PRK08939        218 APVLMLDDIGAEQ  230 (306)
T ss_pred             CCEEEEecCCCcc
Confidence            8999999887543

>PRK15112 antimicrobial peptide ABC system ATP-binding protein SapF; Provisional

Probab=98.06  E-value=1.7e-05  Score=72.20  Aligned_cols=38  Identities=29%  Similarity=0.361  Sum_probs=30.6

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEE
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAY  153 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~  153 (315)
                      -+++|+++.|.||+|+|||||+..++.......+.+.|
T Consensus        35 ~i~~Ge~~~i~G~NGsGKSTLl~~l~Gl~~p~~G~i~~   72 (267)
T PRK15112         35 TLREGQTLAIIGENGSGKSTLAKMLAGMIEPTSGELLI   72 (267)
T ss_pred             EecCCCEEEEEcCCCCCHHHHHHHHhCCCCCCCCEEEE
Confidence            46799999999999999999999888766544555543

>COG1123 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]

Probab=98.05  E-value=2.2e-05  Score=77.08  Aligned_cols=41  Identities=24%  Similarity=0.308  Sum_probs=35.0

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecC
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVE  157 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E  157 (315)
                      +.+|+++.|.|++||||||++..++.-....++.+.|...+
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            67899999999999999999999888777777777776644

>TIGR03740 galliderm_ABC gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit

Probab=98.05  E-value=2e-05  Score=69.50  Aligned_cols=35  Identities=23%  Similarity=0.368  Sum_probs=28.4

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeE
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYC  151 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v  151 (315)
                      +.+|+++.|.|++|+|||||+..++.......+.+
T Consensus        23 i~~Ge~~~i~G~nGsGKSTLl~~l~G~~~~~~G~i   57 (223)
T TIGR03740        23 VPKNSVYGLLGPNGAGKSTLLKMITGILRPTSGEI   57 (223)
T ss_pred             EcCCcEEEEECCCCCCHHHHHHHHhCCCCCCceEE
Confidence            57999999999999999999998887654444433

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.

>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=98.05  E-value=1.9e-05  Score=69.85  Aligned_cols=37  Identities=27%  Similarity=0.390  Sum_probs=29.8

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHH---hcCCeEE
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQ---KLGGYCA  152 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~---~~g~~v~  152 (315)
                      -+++|+++.|.||+|+|||||+..++....   ...+.+.
T Consensus        29 ~i~~Ge~~~l~G~nGsGKSTLlk~l~G~~~~~~~~~G~i~   68 (226)
T cd03234          29 HVESGQVMAILGSSGSGKTTLLDAISGRVEGGGTTSGQIL   68 (226)
T ss_pred             EEcCCeEEEEECCCCCCHHHHHHHHhCccCCCCCCceEEE
Confidence            467999999999999999999998887665   3444443

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

>KOG0733 consensus Nuclear AAA ATPase (VCP subfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=98.05  E-value=1.2e-05  Score=78.93  Aligned_cols=120  Identities=22%  Similarity=0.337  Sum_probs=70.7

Q ss_pred             CCCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCChHHHHHcCCCCCCeEEeCCCCHHHHHHHHHHHH
Q 021239          115 GGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLT  194 (315)
Q Consensus       115 GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~~~~~~~g~~~~~l~i~~~~~~e~~~~~i~~l~  194 (315)
                      =|+.|-.-++|.||||||||.||..+|.+..     |=|++...   ++...  |+.        -.+-+.+.+.+++. 
T Consensus       218 lGv~PprGvLlHGPPGCGKT~lA~AiAgel~-----vPf~~isA---peivS--GvS--------GESEkkiRelF~~A-  278 (802)
T KOG0733|consen  218 LGVRPPRGVLLHGPPGCGKTSLANAIAGELG-----VPFLSISA---PEIVS--GVS--------GESEKKIRELFDQA-  278 (802)
T ss_pred             cCCCCCCceeeeCCCCccHHHHHHHHhhhcC-----CceEeecc---hhhhc--ccC--------cccHHHHHHHHHHH-
Confidence            4777888899999999999999999887763     22333110   00000  000        11223334444433 


Q ss_pred             HcCCccEEeehhHhhhccccccCCCccCCChHHHHHHHHHHHHHHHHHHhc--cCcEEEEEeccccc
Q 021239          195 KSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQ--SHTLIIFLNQVRFS  259 (315)
Q Consensus       195 ~~~~~~lVVIDsl~~l~~~~~~~~~~~~~~~~~q~r~i~~~l~~L~~~~~~--~~i~VI~inq~~~~  259 (315)
                      ....|.+|+||.+.++.++-+.      .+.+...|.+++.|.-+-.+..+  .|-.|++|.-.++.
T Consensus       279 ~~~aPcivFiDeIDAI~pkRe~------aqreMErRiVaQLlt~mD~l~~~~~~g~~VlVIgATnRP  339 (802)
T KOG0733|consen  279 KSNAPCIVFIDEIDAITPKREE------AQREMERRIVAQLLTSMDELSNEKTKGDPVLVIGATNRP  339 (802)
T ss_pred             hccCCeEEEeecccccccchhh------HHHHHHHHHHHHHHHhhhcccccccCCCCeEEEecCCCC
Confidence            4568999999999999864332      22334455566666555433332  36677777766543

>PRK11308 dppF dipeptide transporter ATP-binding subunit; Provisional

Probab=98.05  E-value=1.8e-05  Score=74.16  Aligned_cols=37  Identities=30%  Similarity=0.473  Sum_probs=29.8

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEE
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAY  153 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~  153 (315)
                      +.+|+++.|.|++|+|||||+..++.......+.+.|
T Consensus        38 i~~Ge~~~IvG~sGsGKSTLl~~l~gl~~p~~G~i~~   74 (327)
T PRK11308         38 LERGKTLAVVGESGCGKSTLARLLTMIETPTGGELYY   74 (327)
T ss_pred             ECCCCEEEEECCCCCcHHHHHHHHHcCCCCCCcEEEE
Confidence            5699999999999999999999887765444455544

>cd01132 F1_ATPase_alpha F1 ATP synthase alpha, central domain

Probab=98.05  E-value=4.1e-05  Score=69.46  Aligned_cols=114  Identities=17%  Similarity=0.311  Sum_probs=74.2

Q ss_pred             CCCCCccccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCCh--HHHHHc---C
Q 021239           95 SRRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP--SLAEAM---G  169 (315)
Q Consensus        95 ~~~~~~i~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~--~~~~~~---g  169 (315)
                      ....+.+.||+..+|-++.   +-+|.-..|.|++|+|||+|+++.+.+....+..|+|....+....  +..+.+   +
T Consensus        47 ~~i~e~L~TGI~~ID~l~p---igrGQr~~Ifg~~g~GKt~L~l~~i~~~~~~~v~~V~~~iGer~~ev~e~~~~~~~~~  123 (274)
T cd01132          47 KSVNEPLQTGIKAIDAMIP---IGRGQRELIIGDRQTGKTAIAIDTIINQKGKKVYCIYVAIGQKASTVAQVVKTLEEHG  123 (274)
T ss_pred             CCcccccccCCEEeeccCC---cccCCEEEeeCCCCCCccHHHHHHHHHhcCCCeEEEEEecccchHHHHHHHHHHHhcC
Confidence            3567889999999999986   7799999999999999999987766555445556677776665543  222222   2


Q ss_pred             CCCCCeEE-eCCCC--HHH------HHHHHHHHHHcCCccEEeehhHhhhc
Q 021239          170 IDAENLLI-AQPDS--AEN------LLSVVDTLTKSGSIDVIVVDSVAALI  211 (315)
Q Consensus       170 ~~~~~l~i-~~~~~--~e~------~~~~i~~l~~~~~~~lVVIDsl~~l~  211 (315)
                      ....-+.+ ...+.  .+.      .....+.+..++.--+|++|+++.+.
T Consensus       124 ~~~~tvvv~~t~d~~~~~r~~a~~~a~aiAE~fr~~G~~Vlvl~DslTr~A  174 (274)
T cd01132         124 AMEYTIVVAATASDPAPLQYLAPYTGCAMGEYFMDNGKHALIIYDDLSKQA  174 (274)
T ss_pred             ccceeEEEEeCCCCchhHHHHHHHHHHHHHHHHHHCCCCEEEEEcChHHHH
Confidence            21122222 22221  222      22334445555566789999999885

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

>TIGR01425 SRP54_euk signal recognition particle protein SRP54

Probab=98.04  E-value=5.4e-05  Score=73.01  Aligned_cols=88  Identities=18%  Similarity=0.131  Sum_probs=57.3

Q ss_pred             CcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCCh--H----HHHHcCCCCCCeEEeCCCCHHHH-HHHHHH
Q 021239          120 GRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP--S----LAEAMGIDAENLLIAQPDSAENL-LSVVDT  192 (315)
Q Consensus       120 G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~--~----~~~~~g~~~~~l~i~~~~~~e~~-~~~i~~  192 (315)
                      ..++.++|++|+||||++..+|..+...|.+|+.++++.....  .    +++..+++..  ......++..+ .+.+..
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            4689999999999999999999988888899999998754432  1    2333333321  11122222222 233443


Q ss_pred             HHHcCCccEEeehhHhhh
Q 021239          193 LTKSGSIDVIVVDSVAAL  210 (315)
Q Consensus       193 l~~~~~~~lVVIDsl~~l  210 (315)
                      + +..+.++|+||.-..+
T Consensus       178 ~-~~~~~DvViIDTaGr~  194 (429)
T TIGR01425       178 F-KKENFDIIIVDTSGRH  194 (429)
T ss_pred             H-HhCCCCEEEEECCCCC
Confidence            3 3357899999987644

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.

>PRK13642 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=98.04  E-value=2.6e-05  Score=71.37  Aligned_cols=36  Identities=31%  Similarity=0.390  Sum_probs=29.9

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEE
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCA  152 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~  152 (315)
                      +.+|+++.|.|++|+|||||+..++.......+.+.
T Consensus        30 i~~Ge~~~I~G~nGsGKSTLl~~l~Gl~~~~~G~i~   65 (277)
T PRK13642         30 ITKGEWVSIIGQNGSGKSTTARLIDGLFEEFEGKVK   65 (277)
T ss_pred             EcCCCEEEEECCCCCcHHHHHHHHhcCCCCCCCEEE
Confidence            569999999999999999999988877655555553

>PRK11124 artP arginine transporter ATP-binding subunit; Provisional

Probab=98.04  E-value=2.8e-05  Score=69.50  Aligned_cols=36  Identities=19%  Similarity=0.272  Sum_probs=29.2

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEE
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCA  152 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~  152 (315)
                      +.+|+++.|.|++|+|||||+..++.......+.+.
T Consensus        25 i~~Ge~~~i~G~nGsGKSTLl~~l~G~~~~~~G~i~   60 (242)
T PRK11124         25 CPQGETLVLLGPSGAGKSSLLRVLNLLEMPRSGTLN   60 (242)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhCCCCCCceEEE
Confidence            569999999999999999999988876544445543

>PRK13651 cobalt transporter ATP-binding subunit; Provisional

Probab=98.04  E-value=2.2e-05  Score=72.86  Aligned_cols=38  Identities=26%  Similarity=0.369  Sum_probs=30.5

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEE
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAY  153 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~  153 (315)
                      =+.+|+++.|.|++|+|||||+..++.......+.+.|
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            36799999999999999999998888765544555544

>TIGR03689 pup_AAA proteasome ATPase

Probab=98.04  E-value=3.3e-05  Score=76.16  Aligned_cols=84  Identities=18%  Similarity=0.263  Sum_probs=51.9

Q ss_pred             CCCCCCcEEEEEecCCCChhHHHHHHHHHHHhc-----CCeEEEEecCCCCChHHHHHcCCCCCCeEEeCCCCH----HH
Q 021239          115 GGLPKGRIVEIYGREASGKTTLALHVIKEAQKL-----GGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSA----EN  185 (315)
Q Consensus       115 GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~~-----g~~v~~i~~E~~~~~~~~~~~g~~~~~l~i~~~~~~----e~  185 (315)
                      -|+++..-++|+||||+|||+++..++......     +....|++...+              ++.-......    ..
T Consensus       211 ~gl~~p~GILLyGPPGTGKT~LAKAlA~eL~~~i~~~~~~~~~fl~v~~~--------------eLl~kyvGete~~ir~  276 (512)
T TIGR03689       211 YDLKPPKGVLLYGPPGCGKTLIAKAVANSLAQRIGAETGDKSYFLNIKGP--------------ELLNKYVGETERQIRL  276 (512)
T ss_pred             ccCCCCcceEEECCCCCcHHHHHHHHHHhhccccccccCCceeEEeccch--------------hhcccccchHHHHHHH
Confidence            367777779999999999999999998877543     233444443221              0000001111    23


Q ss_pred             HHHHHHHHHHcCCccEEeehhHhhhcc
Q 021239          186 LLSVVDTLTKSGSIDVIVVDSVAALIP  212 (315)
Q Consensus       186 ~~~~i~~l~~~~~~~lVVIDsl~~l~~  212 (315)
                      +++.++.....+.+.+|+||.+..++.
T Consensus       277 iF~~Ar~~a~~g~p~IIfIDEiD~L~~  303 (512)
T TIGR03689       277 IFQRAREKASDGRPVIVFFDEMDSIFR  303 (512)
T ss_pred             HHHHHHHHhhcCCCceEEEehhhhhhc
Confidence            334444444445789999999999984

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.

>PRK11614 livF leucine/isoleucine/valine transporter ATP-binding subunit; Provisional

Probab=98.04  E-value=2.6e-05  Score=69.50  Aligned_cols=38  Identities=26%  Similarity=0.453  Sum_probs=30.5

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEE
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAY  153 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~  153 (315)
                      -+.+|+++.|.|++|+|||||+..++......++.+.|
T Consensus        27 ~i~~Ge~~~i~G~nGsGKSTLl~~l~G~~~p~~G~i~~   64 (237)
T PRK11614         27 HINQGEIVTLIGANGAGKTTLLGTLCGDPRATSGRIVF   64 (237)
T ss_pred             EEcCCcEEEEECCCCCCHHHHHHHHcCCCCCCCceEEE
Confidence            46799999999999999999998887765545555543

>TIGR03411 urea_trans_UrtD urea ABC transporter, ATP-binding protein UrtD

Probab=98.03  E-value=3.1e-05  Score=69.22  Aligned_cols=38  Identities=21%  Similarity=0.288  Sum_probs=30.5

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEE
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAY  153 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~  153 (315)
                      -+.+|+++.|.|++|+|||||+..++.......+.+.|
T Consensus        24 ~i~~Ge~~~l~G~nGsGKSTLl~~l~G~~~p~~G~i~~   61 (242)
T TIGR03411        24 YVDPGELRVIIGPNGAGKTTMMDVITGKTRPDEGSVLF   61 (242)
T ss_pred             EEcCCcEEEEECCCCCCHHHHHHHHhCCCCCCCCeEEE
Confidence            36799999999999999999999888765544555443

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.

>TIGR01242 26Sp45 26S proteasome subunit P45 family

Probab=98.03  E-value=1.8e-05  Score=75.22  Aligned_cols=123  Identities=19%  Similarity=0.165  Sum_probs=63.4

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCChHHHHHcCCCCCCeEEeCCCCHHHHHHHHHHHHH
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTK  195 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~~~~~~~g~~~~~l~i~~~~~~e~~~~~i~~l~~  195 (315)
                      |+.+..-++|+||||+|||+++..++.....   ..+.+..     ......+           ..........+-+...
T Consensus       152 g~~~p~gvLL~GppGtGKT~lakaia~~l~~---~~~~v~~-----~~l~~~~-----------~g~~~~~i~~~f~~a~  212 (364)
T TIGR01242       152 GIEPPKGVLLYGPPGTGKTLLAKAVAHETNA---TFIRVVG-----SELVRKY-----------IGEGARLVREIFELAK  212 (364)
T ss_pred             CCCCCceEEEECCCCCCHHHHHHHHHHhCCC---CEEecch-----HHHHHHh-----------hhHHHHHHHHHHHHHH
Confidence            5666677999999999999999998776532   2111110     0111100           0111222222333334


Q ss_pred             cCCccEEeehhHhhhccccccCCCccCCChHHHHHHHHHHHHHHHHHHhccCcEEEEEecccccc
Q 021239          196 SGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVRFSA  260 (315)
Q Consensus       196 ~~~~~lVVIDsl~~l~~~~~~~~~~~~~~~~~q~r~i~~~l~~L~~~~~~~~i~VI~inq~~~~~  260 (315)
                      ...+.+|+||.+..+... ......  .......+.+.+.+..+..+-...++.||++++....+
T Consensus       213 ~~~p~il~iDEiD~l~~~-~~~~~~--~~~~~~~~~l~~ll~~ld~~~~~~~v~vI~ttn~~~~l  274 (364)
T TIGR01242       213 EKAPSIIFIDEIDAIAAK-RTDSGT--SGDREVQRTLMQLLAELDGFDPRGNVKVIAATNRPDIL  274 (364)
T ss_pred             hcCCcEEEhhhhhhhccc-cccCCC--CccHHHHHHHHHHHHHhhCCCCCCCEEEEEecCChhhC
Confidence            557889999999988732 211111  11112233344444444322123467777776654433

Many proteins may score above the trusted cutoff because an internal

>CHL00195 ycf46 Ycf46; Provisional

Probab=98.03  E-value=5.7e-05  Score=74.33  Aligned_cols=78  Identities=18%  Similarity=0.201  Sum_probs=49.8

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCChHHHHHcCCCCCCeEEeCCCCHHHHHHHHHHHHH
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTK  195 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~~~~~~~g~~~~~l~i~~~~~~e~~~~~i~~l~~  195 (315)
                      |+++..-++++||||+|||.+|..+|...   +.+.+.++...-..                ......+..+..+-...+
T Consensus       255 gl~~pkGILL~GPpGTGKTllAkaiA~e~---~~~~~~l~~~~l~~----------------~~vGese~~l~~~f~~A~  315 (489)
T CHL00195        255 GLPTPRGLLLVGIQGTGKSLTAKAIANDW---QLPLLRLDVGKLFG----------------GIVGESESRMRQMIRIAE  315 (489)
T ss_pred             CCCCCceEEEECCCCCcHHHHHHHHHHHh---CCCEEEEEhHHhcc----------------cccChHHHHHHHHHHHHH
Confidence            67777889999999999999999998776   34444444311000                001112322222223344


Q ss_pred             cCCccEEeehhHhhhcc
Q 021239          196 SGSIDVIVVDSVAALIP  212 (315)
Q Consensus       196 ~~~~~lVVIDsl~~l~~  212 (315)
                      ...+.+|+||.+..++.
T Consensus       316 ~~~P~IL~IDEID~~~~  332 (489)
T CHL00195        316 ALSPCILWIDEIDKAFS  332 (489)
T ss_pred             hcCCcEEEehhhhhhhc
Confidence            56899999999998874

>PRK13633 cobalt transporter ATP-binding subunit; Provisional

Probab=98.03  E-value=1.5e-05  Score=73.01  Aligned_cols=40  Identities=35%  Similarity=0.483  Sum_probs=31.5

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEec
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDV  156 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~  156 (315)
                      -+.+|+++.|.|++|+|||||+..++.......+.+ +++.
T Consensus        32 ~i~~Ge~~~l~G~nGsGKSTLl~~l~Gl~~~~~G~i-~i~g   71 (280)
T PRK13633         32 EVKKGEFLVILGRNGSGKSTIAKHMNALLIPSEGKV-YVDG   71 (280)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhCCCCCCCceE-EECC
Confidence            467999999999999999999988887665555554 4443

>PHA00729 NTP-binding motif containing protein

Probab=98.02  E-value=2.4e-05  Score=69.10  Aligned_cols=72  Identities=21%  Similarity=0.336  Sum_probs=47.2

Q ss_pred             HHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHH-------------hcCCeEEEEecCCCCChHHHHHcCCCCCCe
Q 021239          109 DLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQ-------------KLGGYCAYLDVENALDPSLAEAMGIDAENL  175 (315)
Q Consensus       109 D~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~-------------~~g~~v~~i~~E~~~~~~~~~~~g~~~~~l  175 (315)
                      ..+.. +|+.   .++|+|+||+||||+|..++..+.             ..+..|.|++                    
T Consensus        10 ~~l~~-~~f~---nIlItG~pGvGKT~LA~aLa~~l~~~l~~l~~~~~~~d~~~~~~fid--------------------   65 (226)
T PHA00729         10 SAYNN-NGFV---SAVIFGKQGSGKTTYALKVARDVFWKLNNLSTKDDAWQYVQNSYFFE--------------------   65 (226)
T ss_pred             HHHhc-CCeE---EEEEECCCCCCHHHHHHHHHHHHHhhcccccchhhHHhcCCcEEEEE--------------------
Confidence            33444 5664   689999999999999999988753             1223333443                    


Q ss_pred             EEeCCCCHHHHHHHHHHHHHc-CCccEEeehhHhhhc
Q 021239          176 LIAQPDSAENLLSVVDTLTKS-GSIDVIVVDSVAALI  211 (315)
Q Consensus       176 ~i~~~~~~e~~~~~i~~l~~~-~~~~lVVIDsl~~l~  211 (315)
                             .+++...+...... ..++++|||.++...
T Consensus        66 -------~~~Ll~~L~~a~~~~~~~dlLIIDd~G~~~   95 (226)
T PHA00729         66 -------LPDALEKIQDAIDNDYRIPLIIFDDAGIWL   95 (226)
T ss_pred             -------HHHHHHHHHHHHhcCCCCCEEEEeCCchhh
Confidence                   35555555444322 246899999987666

>PRK12727 flagellar biosynthesis regulator FlhF; Provisional

Probab=98.02  E-value=7.6e-05  Score=73.43  Aligned_cols=91  Identities=19%  Similarity=0.298  Sum_probs=60.6

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhc--CCeEEEEecCCCCC--hHHHHHcCCCCCCeEEeCCCCHHHHHHHHH
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKL--GGYCAYLDVENALD--PSLAEAMGIDAENLLIAQPDSAENLLSVVD  191 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~--g~~v~~i~~E~~~~--~~~~~~~g~~~~~l~i~~~~~~e~~~~~i~  191 (315)
                      -+..|.++.|.|++|+||||++..++..+...  +.+|.+++.+....  .+..+.++- .-.+.+....+..++...+.
T Consensus       346 ~l~~G~vIaLVGPtGvGKTTtaakLAa~la~~~~gkkVaLIdtDtyRigA~EQLk~ya~-iLgv~v~~a~d~~~L~~aL~  424 (559)
T PRK12727        346 PLERGGVIALVGPTGAGKTTTIAKLAQRFAAQHAPRDVALVTTDTQRVGGREQLHSYGR-QLGIAVHEADSAESLLDLLE  424 (559)
T ss_pred             cccCCCEEEEECCCCCCHHHHHHHHHHHHHHhcCCCceEEEecccccccHHHHHHHhhc-ccCceeEecCcHHHHHHHHH
Confidence            45679999999999999999999999887765  46899999865332  122222221 11222333344556666665


Q ss_pred             HHHHcCCccEEeehhHhhh
Q 021239          192 TLTKSGSIDVIVVDSVAAL  210 (315)
Q Consensus       192 ~l~~~~~~~lVVIDsl~~l  210 (315)
                      ++   .+.++|+||.....
T Consensus       425 ~l---~~~DLVLIDTaG~s  440 (559)
T PRK12727        425 RL---RDYKLVLIDTAGMG  440 (559)
T ss_pred             Hh---ccCCEEEecCCCcc
Confidence            54   36899999987644

>PRK13632 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=98.02  E-value=2.3e-05  Score=71.40  Aligned_cols=37  Identities=24%  Similarity=0.347  Sum_probs=29.7

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEE
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCA  152 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~  152 (315)
                      -+++|+++.|.||+|+|||||+..++.......+.+.
T Consensus        31 ~i~~Ge~~~l~G~nGsGKSTLl~~l~Gl~~p~~G~I~   67 (271)
T PRK13632         31 EINEGEYVAILGHNGSGKSTISKILTGLLKPQSGEIK   67 (271)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhcCCCCCCceEE
Confidence            4779999999999999999999888776544444443

>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=98.01  E-value=2.8e-05  Score=73.76  Aligned_cols=86  Identities=15%  Similarity=0.284  Sum_probs=58.0

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHhc-C-CeEEEEecCCCCC----h--HHHHHcCCCCCCeEEeCCCCHHHHHH
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKL-G-GYCAYLDVENALD----P--SLAEAMGIDAENLLIAQPDSAENLLS  188 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~~-g-~~v~~i~~E~~~~----~--~~~~~~g~~~~~l~i~~~~~~e~~~~  188 (315)
                      ++.|.++.|.||+|+||||++..++..+... | .+|.+++++....    +  .+++.+|++..     ...+..++..
T Consensus       134 ~~~g~ii~lvGptGvGKTTtiakLA~~~~~~~G~~~V~lit~D~~R~ga~EqL~~~a~~~gv~~~-----~~~~~~~l~~  208 (374)
T PRK14722        134 MERGGVFALMGPTGVGKTTTTAKLAARCVMRFGASKVALLTTDSYRIGGHEQLRIFGKILGVPVH-----AVKDGGDLQL  208 (374)
T ss_pred             ccCCcEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEecccccccHHHHHHHHHHHcCCceE-----ecCCcccHHH
Confidence            5679999999999999999999999987643 5 5899998776532    1  24556665431     1222233333


Q ss_pred             HHHHHHHcCCccEEeehhHhhh
Q 021239          189 VVDTLTKSGSIDVIVVDSVAAL  210 (315)
Q Consensus       189 ~i~~l~~~~~~~lVVIDsl~~l  210 (315)
                      .+.++   .+.++|+||.....
T Consensus       209 ~l~~l---~~~DlVLIDTaG~~  227 (374)
T PRK14722        209 ALAEL---RNKHMVLIDTIGMS  227 (374)
T ss_pred             HHHHh---cCCCEEEEcCCCCC
Confidence            34333   46799999987633

>cd03251 ABCC_MsbA MsbA is an essential ABC transporter, closely related to eukaryotic MDR proteins

Probab=98.01  E-value=3.3e-05  Score=68.62  Aligned_cols=38  Identities=26%  Similarity=0.332  Sum_probs=30.8

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEE
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAY  153 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~  153 (315)
                      -+++|+++.|.|++|+|||||+..++.......+.+.|
T Consensus        24 ~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~p~~G~i~~   61 (234)
T cd03251          24 DIPAGETVALVGPSGSGKSTLVNLIPRFYDVDSGRILI   61 (234)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhccccCCCCEEEE
Confidence            36799999999999999999999887776555555543

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.

>COG1123 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]

Probab=98.01  E-value=3.9e-05  Score=75.43  Aligned_cols=39  Identities=31%  Similarity=0.380  Sum_probs=30.6

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHhc----CCeEEEEe
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKL----GGYCAYLD  155 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~~----g~~v~~i~  155 (315)
                      +.+|+++.|.|++||||||+++.+..-.-..    ++.++|-.
T Consensus        32 v~~GE~lgIvGESGsGKSt~a~~i~gll~~~~~~~~G~I~~~g   74 (539)
T COG1123          32 VEPGEILGIVGESGSGKSTLALALMGLLPEGGRITSGEVILDG   74 (539)
T ss_pred             ecCCcEEEEEcCCCCCHHHHHHHHhccCCCCCcccceEEEECC
Confidence            5699999999999999999999887665443    45555544

>PRK11231 fecE iron-dicitrate transporter ATP-binding subunit; Provisional

Probab=98.01  E-value=3e-05  Score=69.98  Aligned_cols=36  Identities=28%  Similarity=0.428  Sum_probs=29.2

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEE
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCA  152 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~  152 (315)
                      +.+|+++.|.|++|+|||||+..++.......+.+.
T Consensus        25 i~~Ge~~~l~G~nGsGKSTLl~~l~Gl~~~~~G~i~   60 (255)
T PRK11231         25 LPTGKITALIGPNGCGKSTLLKCFARLLTPQSGTVF   60 (255)
T ss_pred             EcCCcEEEEECCCCCCHHHHHHHHhCCcCCCCcEEE
Confidence            569999999999999999999988876544444443

>PRK14086 dnaA chromosomal replication initiation protein; Provisional

Probab=98.01  E-value=4.6e-05  Score=76.33  Aligned_cols=103  Identities=18%  Similarity=0.276  Sum_probs=62.3

Q ss_pred             cEEEEEecCCCChhHHHHHHHHHHHh--cCCeEEEEecCCCCChHHHHHcCCCCCCeEEeCCCCHHHHHHHHHHHHHcCC
Q 021239          121 RIVEIYGREASGKTTLALHVIKEAQK--LGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTKSGS  198 (315)
Q Consensus       121 ~i~~i~G~~GsGKTtlal~la~~~~~--~g~~v~~i~~E~~~~~~~~~~~g~~~~~l~i~~~~~~e~~~~~i~~l~~~~~  198 (315)
                      ..++|+|++|+|||+|+..++..+..  .+.+|+|++.++-... +...+.          ....+++.+.    .  ..
T Consensus       315 NpL~LyG~sGsGKTHLL~AIa~~a~~~~~g~~V~Yitaeef~~e-l~~al~----------~~~~~~f~~~----y--~~  377 (617)
T PRK14086        315 NPLFIYGESGLGKTHLLHAIGHYARRLYPGTRVRYVSSEEFTNE-FINSIR----------DGKGDSFRRR----Y--RE  377 (617)
T ss_pred             CcEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEeeHHHHHHH-HHHHHH----------hccHHHHHHH----h--hc
Confidence            34899999999999999999988875  4789999997542221 111110          0112222222    1  25


Q ss_pred             ccEEeehhHhhhccccccCCCccCCChHHHHHHHHHHHHHHHHHHhccCcEEEEEecc
Q 021239          199 IDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQV  256 (315)
Q Consensus       199 ~~lVVIDsl~~l~~~~~~~~~~~~~~~~~q~r~i~~~l~~L~~~~~~~~i~VI~inq~  256 (315)
                      +++++||.+..+... +           ....++.    .+.+.+.+.+..||++++.
T Consensus       378 ~DLLlIDDIq~l~gk-e-----------~tqeeLF----~l~N~l~e~gk~IIITSd~  419 (617)
T PRK14086        378 MDILLVDDIQFLEDK-E-----------STQEEFF----HTFNTLHNANKQIVLSSDR  419 (617)
T ss_pred             CCEEEEehhccccCC-H-----------HHHHHHH----HHHHHHHhcCCCEEEecCC
Confidence            799999999977631 1           1112233    3444445667777776664

>PRK13643 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=98.01  E-value=2.3e-05  Score=72.08  Aligned_cols=40  Identities=28%  Similarity=0.316  Sum_probs=31.4

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEec
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDV  156 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~  156 (315)
                      =+++|+++.|.|++|+|||||+..++.......+.+ +++.
T Consensus        28 ~i~~Ge~v~i~G~nGsGKSTLl~~l~Gl~~p~~G~i-~~~g   67 (288)
T PRK13643         28 EVKKGSYTALIGHTGSGKSTLLQHLNGLLQPTEGKV-TVGD   67 (288)
T ss_pred             EEcCCCEEEEECCCCChHHHHHHHHhcCCCCCCcEE-EECC
Confidence            467999999999999999999998887655545544 4443

>TIGR02770 nickel_nikD nickel import ATP-binding protein NikD

Probab=98.00  E-value=3.2e-05  Score=68.71  Aligned_cols=30  Identities=23%  Similarity=0.468  Sum_probs=26.7

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHh
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQK  146 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~  146 (315)
                      +++|+++.|.|++|+|||||+..++.....
T Consensus         9 i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~p   38 (230)
T TIGR02770         9 LKRGEVLALVGESGSGKSLTCLAILGLLPP   38 (230)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhcCCCC
Confidence            579999999999999999999988877654

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.

>cd03264 ABC_drug_resistance_like ABC-type multidrug transport system, ATPase component

Probab=98.00  E-value=4.5e-05  Score=66.67  Aligned_cols=36  Identities=25%  Similarity=0.302  Sum_probs=28.5

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEE
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAY  153 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~  153 (315)
                      +++| ++.|.||+|+|||||+..++.......+.+.|
T Consensus        23 i~~g-~~~i~G~nGsGKSTLl~~l~Gl~~~~~G~i~~   58 (211)
T cd03264          23 LGPG-MYGLLGPNGAGKTTLMRILATLTPPSSGTIRI   58 (211)
T ss_pred             EcCC-cEEEECCCCCCHHHHHHHHhCCCCCCccEEEE
Confidence            5678 99999999999999998888765544555543

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.

>PRK13539 cytochrome c biogenesis protein CcmA; Provisional

Probab=98.00  E-value=3.6e-05  Score=67.26  Aligned_cols=38  Identities=26%  Similarity=0.278  Sum_probs=30.2

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEE
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAY  153 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~  153 (315)
                      -+++|+++.|.|++|+|||||+..++.......+.+.|
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            36799999999999999999998887765544555543

>TIGR02769 nickel_nikE nickel import ATP-binding protein NikE

Probab=98.00  E-value=3.1e-05  Score=70.35  Aligned_cols=36  Identities=28%  Similarity=0.452  Sum_probs=29.0

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEE
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCA  152 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~  152 (315)
                      +++|+++.|.|++|+|||||+..++.......+.+.
T Consensus        34 i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~p~~G~i~   69 (265)
T TIGR02769        34 IEEGETVGLLGRSGCGKSTLARLLLGLEKPAQGTVS   69 (265)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhCCCCCCCcEEE
Confidence            679999999999999999999888776544444443

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.

>TIGR03415 ABC_choXWV_ATP choline ABC transporter, ATP-binding protein

Probab=97.99  E-value=1.2e-05  Score=76.70  Aligned_cols=39  Identities=23%  Similarity=0.263  Sum_probs=31.5

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEec
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDV  156 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~  156 (315)
                      +++|+++.|.|++|+|||||+..++.......+.+ +++.
T Consensus        47 i~~Gei~~I~G~nGsGKSTLlr~L~Gl~~p~~G~I-~idG   85 (382)
T TIGR03415        47 IEEGEICVLMGLSGSGKSSLLRAVNGLNPVSRGSV-LVKD   85 (382)
T ss_pred             EcCCCEEEEECCCCCcHHHHHHHHhCCCCCCCcEE-EECC
Confidence            56999999999999999999998887665555665 4554

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.

>cd03217 ABC_FeS_Assembly ABC-type transport system involved in Fe-S cluster assembly, ATPase component

Probab=97.99  E-value=6e-06  Score=71.79  Aligned_cols=125  Identities=15%  Similarity=0.206  Sum_probs=70.0

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHH--HhcCCeEEEEecCCCCC--h-HHH-HHcCCCCCCeEEeCCCCHHHH---
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEA--QKLGGYCAYLDVENALD--P-SLA-EAMGIDAENLLIAQPDSAENL---  186 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~--~~~g~~v~~i~~E~~~~--~-~~~-~~~g~~~~~l~i~~~~~~e~~---  186 (315)
                      -+.+|+++.|.|++|+|||||+..++...  ....+.+. ++.+....  . .+. ..+++.+++.......+.+++   
T Consensus        22 ~i~~Ge~~~i~G~nGsGKStLl~~l~G~~~~~p~~G~i~-~~g~~~~~~~~~~~~~~~i~~v~q~~~~~~~~~~~~~l~~  100 (200)
T cd03217          22 TIKKGEVHALMGPNGSGKSTLAKTIMGHPKYEVTEGEIL-FKGEDITDLPPEERARLGIFLAFQYPPEIPGVKNADFLRY  100 (200)
T ss_pred             EECCCcEEEEECCCCCCHHHHHHHHhCCCcCCCCccEEE-ECCEECCcCCHHHHhhCcEEEeecChhhccCccHHHHHhh
Confidence            35699999999999999999998887763  23445554 44332211  1 222 224444333222222222222   


Q ss_pred             ------------HHHHHHHHHcCCccEEeehhHhhhccccccCCCccCCChHHHHHHHHHHHHHHHHHHhccCcEEEEEe
Q 021239          187 ------------LSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLN  254 (315)
Q Consensus       187 ------------~~~i~~l~~~~~~~lVVIDsl~~l~~~~~~~~~~~~~~~~~q~r~i~~~l~~L~~~~~~~~i~VI~in  254 (315)
                                  +...+.++  .+|+++++|....-...             .....+.+.++++    .+.+.++|+++
T Consensus       101 ~~~~LS~G~~qrv~laral~--~~p~illlDEPt~~LD~-------------~~~~~l~~~L~~~----~~~~~tiii~s  161 (200)
T cd03217         101 VNEGFSGGEKKRNEILQLLL--LEPDLAILDEPDSGLDI-------------DALRLVAEVINKL----REEGKSVLIIT  161 (200)
T ss_pred             ccccCCHHHHHHHHHHHHHh--cCCCEEEEeCCCccCCH-------------HHHHHHHHHHHHH----HHCCCEEEEEe
Confidence                        22223332  47899999977654410             1122344555544    33588999999


Q ss_pred             cccccc
Q 021239          255 QVRFSA  260 (315)
Q Consensus       255 q~~~~~  260 (315)
                      |.....
T Consensus       162 h~~~~~  167 (200)
T cd03217         162 HYQRLL  167 (200)
T ss_pred             cCHHHH
Confidence            876543

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.

>TIGR02868 CydC thiol reductant ABC exporter, CydC subunit

Probab=97.99  E-value=2e-05  Score=78.52  Aligned_cols=35  Identities=37%  Similarity=0.500  Sum_probs=29.2

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeE
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYC  151 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v  151 (315)
                      +++|+.+.|.||+|+|||||+..++.......+.+
T Consensus       358 i~~G~~vaIvG~SGsGKSTLl~lL~g~~~p~~G~I  392 (529)
T TIGR02868       358 LPPGERVAILGPSGSGKSTLLMLLTGLLDPLQGEV  392 (529)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhcCCCCCCcEE
Confidence            67999999999999999999988876665555554

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.

>COG2274 SunT ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]

Probab=97.99  E-value=2.6e-05  Score=79.83  Aligned_cols=58  Identities=28%  Similarity=0.307  Sum_probs=40.2

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecC--CCCChHHHHHcCCCCC
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVE--NALDPSLAEAMGIDAE  173 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E--~~~~~~~~~~~g~~~~  173 (315)
                      -+++|+.+.|.|++|||||||+.-+..-.....|.+.+=..+  .-....+.+.+|+.++
T Consensus       495 ~I~~Ge~vaIvG~SGsGKSTL~KLL~gly~p~~G~I~~dg~dl~~i~~~~lR~~ig~V~Q  554 (709)
T COG2274         495 EIPPGEKVAIVGRSGSGKSTLLKLLLGLYKPQQGRILLDGVDLNDIDLASLRRQVGYVLQ  554 (709)
T ss_pred             EeCCCCEEEEECCCCCCHHHHHHHHhcCCCCCCceEEECCEeHHhcCHHHHHhheeEEcc
Confidence            488999999999999999999988877776666665442222  1122245566666554

>PRK10419 nikE nickel transporter ATP-binding protein NikE; Provisional

Probab=97.98  E-value=3.6e-05  Score=70.05  Aligned_cols=37  Identities=30%  Similarity=0.438  Sum_probs=29.4

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEE
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCA  152 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~  152 (315)
                      -+.+|+++.|.|++|+|||||+..++.......+.+.
T Consensus        34 ~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~p~sG~i~   70 (268)
T PRK10419         34 SLKSGETVALLGRSGCGKSTLARLLVGLESPSQGNVS   70 (268)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhCCCCCCCcEEE
Confidence            3679999999999999999999988766544444443

>TIGR00750 lao LAO/AO transport system ATPase

Probab=97.98  E-value=7e-05  Score=69.39  Aligned_cols=91  Identities=21%  Similarity=0.219  Sum_probs=59.0

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCCh---------HHHHHcCCCCCCeEEeCCCC-----
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP---------SLAEAMGIDAENLLIAQPDS-----  182 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~---------~~~~~~g~~~~~l~i~~~~~-----  182 (315)
                      ..++.++.|.|+||+|||||+..++......|.+|.+++.+.....         .+......++ ..++....+     
T Consensus        31 ~~~~~~i~i~G~~G~GKttl~~~l~~~~~~~~~~v~~i~~D~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~  109 (300)
T TIGR00750        31 TGNAHRVGITGTPGAGKSTLLEALGMELRRRGLKVAVIAVDPSSPFTGGSILGDRTRMQRLATDP-GAFIRSMPTRGHLG  109 (300)
T ss_pred             cCCceEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEecCCCCCcchhhhcccchhhhhcccCC-CceeeecCcccccc
Confidence            3478999999999999999999999999888999999998865532         1122222222 222222221     


Q ss_pred             -HHHHHHHHHHHHHcCCccEEeehhHh
Q 021239          183 -AENLLSVVDTLTKSGSIDVIVVDSVA  208 (315)
Q Consensus       183 -~e~~~~~i~~l~~~~~~~lVVIDsl~  208 (315)
                       .......+...++..++++|+||+..
T Consensus       110 ~~~~~~~~~~~~l~~~g~D~viidT~G  136 (300)
T TIGR00750       110 GLSQATRELILLLDAAGYDVIIVETVG  136 (300)
T ss_pred             chhHHHHHHHHHHHhCCCCEEEEeCCC
Confidence             11112222223455789999999864

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.

>TIGR02982 heterocyst_DevA ABC exporter ATP-binding subunit, DevA family

Probab=97.98  E-value=3.4e-05  Score=67.96  Aligned_cols=38  Identities=29%  Similarity=0.230  Sum_probs=29.6

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEe
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLD  155 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~  155 (315)
                      +++|+++.|.|++|+|||||+..++.......+.+ +++
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            67999999999999999999998886544444444 443

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.

>KOG0727 consensus 26S proteasome regulatory complex, ATPase RPT3 [Posttranslational modification, protein turnover, chaperones]

Probab=97.98  E-value=1.4e-05  Score=70.87  Aligned_cols=119  Identities=19%  Similarity=0.278  Sum_probs=72.5

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCChHHHHHcCCCCCCeEEeCCCCHHHHHHHHHHHHH
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTK  195 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~~~~~~~g~~~~~l~i~~~~~~e~~~~~i~~l~~  195 (315)
                      |+.|..-++++||||+|||.|+...|.+..     +.||-.-.+.  ...+-+|            ....++.-+-++.+
T Consensus       185 gidpprgvllygppg~gktml~kava~~t~-----a~firvvgse--fvqkylg------------egprmvrdvfrlak  245 (408)
T KOG0727|consen  185 GIDPPRGVLLYGPPGTGKTMLAKAVANHTT-----AAFIRVVGSE--FVQKYLG------------EGPRMVRDVFRLAK  245 (408)
T ss_pred             CCCCCcceEEeCCCCCcHHHHHHHHhhccc-----hheeeeccHH--HHHHHhc------------cCcHHHHHHHHHHh
Confidence            677777899999999999999987765543     3343321110  0111122            22345555566777


Q ss_pred             cCCccEEeehhHhhhccccccCCCccCCChHHHHHHHHHHHHHHHHHH----hccCcEEEEEecccccc
Q 021239          196 SGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSL----CQSHTLIIFLNQVRFSA  260 (315)
Q Consensus       196 ~~~~~lVVIDsl~~l~~~~~~~~~~~~~~~~~q~r~i~~~l~~L~~~~----~~~~i~VI~inq~~~~~  260 (315)
                      ++.|.+|+||.+.++. ...++...|..      |++.++|..|.+-+    ...|+-||+.+.-.+..
T Consensus       246 enapsiifideidaia-tkrfdaqtgad------revqril~ellnqmdgfdq~~nvkvimatnradtl  307 (408)
T KOG0727|consen  246 ENAPSIIFIDEIDAIA-TKRFDAQTGAD------REVQRILIELLNQMDGFDQTTNVKVIMATNRADTL  307 (408)
T ss_pred             ccCCcEEEeehhhhHh-hhhcccccccc------HHHHHHHHHHHHhccCcCcccceEEEEecCccccc
Confidence            8899999999999998 46666554332      33444444444333    34577777766554443

>KOG1533 consensus Predicted GTPase [General function prediction only]

Probab=97.97  E-value=2.9e-05  Score=68.14  Aligned_cols=117  Identities=15%  Similarity=0.156  Sum_probs=74.5

Q ss_pred             EEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCCh----------------HHHHHcCCCCCCeEEeCCCCHHHH
Q 021239          123 VEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP----------------SLAEAMGIDAENLLIAQPDSAENL  186 (315)
Q Consensus       123 ~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~----------------~~~~~~g~~~~~l~i~~~~~~e~~  186 (315)
                      -++.||||+||||.|..+..-....|.++..+..+.+-+.                ..++.+|+-++--........+.-
T Consensus         5 qvVIGPPgSGKsTYc~g~~~fls~~gr~~~vVNLDPaNd~~~Y~~~v~I~elit~edvm~~~~LGPNg~l~yc~E~l~~~   84 (290)
T KOG1533|consen    5 QVVIGPPGSGKSTYCNGMSQFLSAIGRPVAVVNLDPANDNLPYECAVDIRELITVEDVMEELGLGPNGALKYCMEYLEAN   84 (290)
T ss_pred             eEEEcCCCCCccchhhhHHHHHHHhCCceEEEecCCcccCCCCCCcccHHHHccHHHHHHHhCCCCchhHHHHHHHHHhh
Confidence            3678999999999999988877778998988888765432                235555555543333333344444


Q ss_pred             HHHHHHHHHcCCccEEeehhHhhhccccccCCCccCCChHHHHHHHHHHHHHHHHHHhccCcEEEEEecc
Q 021239          187 LSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQV  256 (315)
Q Consensus       187 ~~~i~~l~~~~~~~lVVIDsl~~l~~~~~~~~~~~~~~~~~q~r~i~~~l~~L~~~~~~~~i~VI~inq~  256 (315)
                      ++++...++...-..+++|....+--   +.+.          .++.+++++|    .+.+..++++|-+
T Consensus        85 idwl~~~l~~~~~~Y~lFDcPGQVEL---ft~h----------~~l~~I~~~L----ek~~~rl~~V~Li  137 (290)
T KOG1533|consen   85 IDWLLEKLKPLTDHYVLFDCPGQVEL---FTHH----------DSLNKIFRKL----EKLDYRLVAVNLI  137 (290)
T ss_pred             hHHHHHHhhhccCcEEEEeCCCcEEE---Eecc----------chHHHHHHHH----HHcCceEEEEEee
Confidence            56666666666678899998776531   1000          0234455555    4467777776654

>cd03369 ABCC_NFT1 Domain 2 of NFT1 (New full-length MRP-type transporter 1)

Probab=97.97  E-value=3.7e-05  Score=67.04  Aligned_cols=37  Identities=27%  Similarity=0.400  Sum_probs=29.9

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEE
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCA  152 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~  152 (315)
                      -+++|+++.|.|++|+|||||+..++.......+.+.
T Consensus        30 ~i~~G~~~~i~G~nGsGKSTLl~~l~Gl~~~~~G~i~   66 (207)
T cd03369          30 KVKAGEKIGIVGRTGAGKSTLILALFRFLEAEEGKIE   66 (207)
T ss_pred             EECCCCEEEEECCCCCCHHHHHHHHhcccCCCCCeEE
Confidence            3679999999999999999999988876554445543

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.

>PRK15079 oligopeptide ABC transporter ATP-binding protein OppF; Provisional

Probab=97.97  E-value=3e-05  Score=72.83  Aligned_cols=37  Identities=27%  Similarity=0.434  Sum_probs=29.9

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEE
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAY  153 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~  153 (315)
                      +.+|+++.|.|++|+|||||+..++.......+.+.|
T Consensus        44 i~~Ge~~~lvG~sGsGKSTLlk~i~Gl~~p~~G~I~~   80 (331)
T PRK15079         44 LYEGETLGVVGESGCGKSTFARAIIGLVKATDGEVAW   80 (331)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHHCCCCCCCcEEEE
Confidence            6799999999999999999999888665444555543

>PRK10418 nikD nickel transporter ATP-binding protein NikD; Provisional

Probab=97.96  E-value=3.2e-05  Score=69.79  Aligned_cols=29  Identities=24%  Similarity=0.436  Sum_probs=25.8

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHH
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQ  145 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~  145 (315)
                      +++|+++.|.|++|+|||||+..++....
T Consensus        26 i~~Ge~~~l~G~nGsGKSTLl~~l~Gl~~   54 (254)
T PRK10418         26 LQRGRVLALVGGSGSGKSLTCAAALGILP   54 (254)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhCCCC
Confidence            56999999999999999999988877654

>PRK13639 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=97.96  E-value=2.8e-05  Score=71.05  Aligned_cols=37  Identities=30%  Similarity=0.405  Sum_probs=29.8

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEE
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCA  152 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~  152 (315)
                      -+.+|+++.|.|++|+|||||+..++.......+.+.
T Consensus        24 ~i~~Ge~~~l~G~nGsGKSTLl~~i~Gl~~~~~G~i~   60 (275)
T PRK13639         24 KAEKGEMVALLGPNGAGKSTLFLHFNGILKPTSGEVL   60 (275)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhCCCCCCccEEE
Confidence            4679999999999999999999988765544445543

>COG2087 CobU Adenosyl cobinamide kinase/adenosyl cobinamide phosphate guanylyltransferase [Coenzyme metabolism]

Probab=97.96  E-value=9.6e-05  Score=61.57  Aligned_cols=127  Identities=18%  Similarity=0.299  Sum_probs=75.5

Q ss_pred             EEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCChHHHHHcCCC----CCC-eEEeCCCCHHHHHHHHHHHHHc
Q 021239          122 IVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGID----AEN-LLIAQPDSAENLLSVVDTLTKS  196 (315)
Q Consensus       122 i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~~~~~~~g~~----~~~-l~i~~~~~~e~~~~~i~~l~~~  196 (315)
                      .++|.|+.-||||++|-.++.+.   ++.++||.+-..++.++.+++...    ++. ..+..+.+...   .+...  .
T Consensus         2 ~ilvtGgaRSGKS~~AE~la~~~---~~~v~YvAT~~a~D~Em~~RI~~Hr~rRp~~W~tvE~~~~l~~---~L~~~--~   73 (175)
T COG2087           2 MILVTGGARSGKSSFAEALAGES---GGQVLYVATGRAFDDEMQERIAHHRARRPEHWRTVEAPLDLAT---LLEAL--I   73 (175)
T ss_pred             eEEEecCccCCchHHHHHHHHhh---CCceEEEEecCCCCHHHHHHHHHHHhcCCCcceEEeccccHHH---HHHhc--c
Confidence            68999999999999999887763   788999999999988766665322    222 11222223222   22222  1


Q ss_pred             CCccEEeehhHhhhccccccCCCccCCChHHHHHHHHHHHHHHHHHHhc-cCcEEEEEecccccc
Q 021239          197 GSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQ-SHTLIIFLNQVRFSA  260 (315)
Q Consensus       197 ~~~~lVVIDsl~~l~~~~~~~~~~~~~~~~~q~r~i~~~l~~L~~~~~~-~~i~VI~inq~~~~~  260 (315)
                      .+-++|+||+++.+....-+.++..-..    .+.+...+..|...+.. .+-.|+++|.+-..+
T Consensus        74 ~~~~~VLvDcLt~wvtNll~~~e~~~~~----~~~~~~~~~~L~~al~~~~~~~ilVsNEvG~Gi  134 (175)
T COG2087          74 EPGDVVLVDCLTLWVTNLLFAGEKDWSA----EAAIEAEIEALLAALSRAPGTVVLVSNEVGLGI  134 (175)
T ss_pred             cCCCEEEEEcHHHHHHHHHhccccccch----hhhHHHHHHHHHHHHhcCCccEEEEecCccCCc
Confidence            2348999999998874333322211111    12233334444433333 356788888886544

>PRK03695 vitamin B12-transporter ATPase; Provisional

Probab=97.96  E-value=4.3e-05  Score=68.73  Aligned_cols=28  Identities=25%  Similarity=0.421  Sum_probs=25.2

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHH
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEA  144 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~  144 (315)
                      +++|+++.|.|++|+|||||+..++...
T Consensus        19 i~~Gei~~l~G~nGsGKSTLl~~l~Gl~   46 (248)
T PRK03695         19 VRAGEILHLVGPNGAGKSTLLARMAGLL   46 (248)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHcCCC
Confidence            6799999999999999999998887654

>PF05729 NACHT: NACHT domain

Probab=97.96  E-value=5.5e-05  Score=62.66  Aligned_cols=122  Identities=16%  Similarity=0.263  Sum_probs=64.3

Q ss_pred             EEEEEecCCCChhHHHHHHHHHHHhcCC------eEEEEecCCCCChHHHHHcCCCCCCeEEeC-CCCHHHHHHHHHHHH
Q 021239          122 IVEIYGREASGKTTLALHVIKEAQKLGG------YCAYLDVENALDPSLAEAMGIDAENLLIAQ-PDSAENLLSVVDTLT  194 (315)
Q Consensus       122 i~~i~G~~GsGKTtlal~la~~~~~~g~------~v~~i~~E~~~~~~~~~~~g~~~~~l~i~~-~~~~e~~~~~i~~l~  194 (315)
                      ++.|.|+||+|||+++..++......+.      -++|+.............    +.+..... .............+.
T Consensus         2 ~l~I~G~~G~GKStll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----l~~~l~~~~~~~~~~~~~~~~~~~   77 (166)
T PF05729_consen    2 VLWISGEPGSGKSTLLRKLAQQLAEEEPPPSKFPYPFFFSLRDISDSNNSRS----LADLLFDQLPESIAPIEELLQELL   77 (166)
T ss_pred             EEEEECCCCCChHHHHHHHHHHHHhcCcccccceEEEEEeehhhhhccccch----HHHHHHHhhccchhhhHHHHHHHH
Confidence            6889999999999999999998886542      234455433332211000    00000000 011111111233344


Q ss_pred             HcCCccEEeehhHhhhccccccCCCccCCChHHHHHHHHHHHHHHHHHHhccCcEEEEEeccc
Q 021239          195 KSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVR  257 (315)
Q Consensus       195 ~~~~~~lVVIDsl~~l~~~~~~~~~~~~~~~~~q~r~i~~~l~~L~~~~~~~~i~VI~inq~~  257 (315)
                      ...+.-++|||.+..+......          .....+...+..+.....-.++.++++....
T Consensus        78 ~~~~~~llilDglDE~~~~~~~----------~~~~~~~~~l~~l~~~~~~~~~~liit~r~~  130 (166)
T PF05729_consen   78 EKNKRVLLILDGLDELEEQDQS----------QERQRLLDLLSQLLPQALPPGVKLIITSRPR  130 (166)
T ss_pred             HcCCceEEEEechHhcccchhh----------hHHHHHHHHHHHHhhhccCCCCeEEEEEcCC
Confidence            4566778999999988742111          0111233445555433223578888887543

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

Probab=97.96  E-value=0.00011  Score=66.84  Aligned_cols=114  Identities=23%  Similarity=0.415  Sum_probs=74.2

Q ss_pred             CCCCCccccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHhc-CCeEEEEecCCCCCh--HHHHHc---
Q 021239           95 SRRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKL-GGYCAYLDVENALDP--SLAEAM---  168 (315)
Q Consensus        95 ~~~~~~i~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~~-g~~v~~i~~E~~~~~--~~~~~~---  168 (315)
                      ....+.+.||+..+|-++.   +-+|.-..|.|++|+|||+|+.+++.+...+ ...|+|....+....  +..+.+   
T Consensus        47 ~~~~e~L~TGIr~ID~l~p---ig~GQr~~If~~~G~GKTtLa~~i~~~i~~~~~~~~V~~~iGer~~Ev~e~~~~~~~~  123 (274)
T cd01133          47 STKTEILETGIKVIDLLAP---YAKGGKIGLFGGAGVGKTVLIMELINNIAKAHGGYSVFAGVGERTREGNDLYHEMKES  123 (274)
T ss_pred             cCcCcccccCceeeeccCC---cccCCEEEEecCCCCChhHHHHHHHHHHHhcCCCEEEEEEeccCcHHHHHHHHHHHhc
Confidence            3566889999999999986   7799999999999999999999999888754 345666655444443  222221   


Q ss_pred             CCCCCCeE-EeCCCC--HHHH------HHHHHHHHHc-CCccEEeehhHhhhc
Q 021239          169 GIDAENLL-IAQPDS--AENL------LSVVDTLTKS-GSIDVIVVDSVAALI  211 (315)
Q Consensus       169 g~~~~~l~-i~~~~~--~e~~------~~~i~~l~~~-~~~~lVVIDsl~~l~  211 (315)
                      +.-..-+. +...+.  .++.      ....+.+..+ +.--++++||++.+.
T Consensus       124 ~~~~~tvvv~~t~d~~~~~r~~~~~~a~~~AEyfr~~~g~~Vl~~~Dsltr~a  176 (274)
T cd01133         124 GVLSKTALVYGQMNEPPGARARVALTGLTMAEYFRDEEGQDVLLFIDNIFRFT  176 (274)
T ss_pred             CCcceeEEEEECCCCCHHHHHHHHHHHHHHHHHHHHhcCCeEEEEEeChhHHH
Confidence            21111122 222222  2222      2334445555 555688999999876

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

>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=97.96  E-value=4e-05  Score=67.82  Aligned_cols=37  Identities=27%  Similarity=0.375  Sum_probs=30.0

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHH-----HhcCCeEE
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEA-----QKLGGYCA  152 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~-----~~~g~~v~  152 (315)
                      -+.+|+++.|.|++|+|||||+..++...     ....+.+.
T Consensus        22 ~i~~Ge~~~i~G~nGsGKSTLl~~i~G~~~~~~~~~~~G~i~   63 (227)
T cd03260          22 DIPKGEITALIGPSGCGKSTLLRLLNRLNDLIPGAPDEGEVL   63 (227)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHHhhcccccCCCCCeEEE
Confidence            36799999999999999999999888776     44445543

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).

>PRK11176 lipid transporter ATP-binding/permease protein; Provisional

Probab=97.96  E-value=5.6e-05  Score=76.23  Aligned_cols=56  Identities=27%  Similarity=0.349  Sum_probs=38.9

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCC---CChHHHHHcCCCCC
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENA---LDPSLAEAMGIDAE  173 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~---~~~~~~~~~g~~~~  173 (315)
                      +++|+.+.|.|++|+|||||+..++.......+.+. ++..+-   ....+.+.+++.++
T Consensus       366 i~~G~~~aIvG~sGsGKSTLl~ll~gl~~p~~G~I~-i~g~~i~~~~~~~~~~~i~~v~Q  424 (582)
T PRK11176        366 IPAGKTVALVGRSGSGKSTIANLLTRFYDIDEGEIL-LDGHDLRDYTLASLRNQVALVSQ  424 (582)
T ss_pred             eCCCCEEEEECCCCCCHHHHHHHHHhccCCCCceEE-ECCEEhhhcCHHHHHhhceEEcc
Confidence            679999999999999999999988887766666654 443221   11234555665544

>PRK11174 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed

Probab=97.95  E-value=4.1e-05  Score=77.30  Aligned_cols=55  Identities=18%  Similarity=0.216  Sum_probs=38.1

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCC---CChHHHHHcCCCCC
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENA---LDPSLAEAMGIDAE  173 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~---~~~~~~~~~g~~~~  173 (315)
                      +++|+.+.|.|++|+|||||+..++... ...|.+ +++..+-   ....+.+.+++.++
T Consensus       373 i~~G~~vaIvG~SGsGKSTL~~lL~g~~-p~~G~I-~i~g~~i~~~~~~~lr~~i~~v~Q  430 (588)
T PRK11174        373 LPAGQRIALVGPSGAGKTSLLNALLGFL-PYQGSL-KINGIELRELDPESWRKHLSWVGQ  430 (588)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhcCC-CCCcEE-EECCEecccCCHHHHHhheEEecC
Confidence            6799999999999999999999988877 555554 4443211   11234555665544

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

Probab=97.95  E-value=3.9e-05  Score=69.99  Aligned_cols=89  Identities=22%  Similarity=0.298  Sum_probs=63.2

Q ss_pred             CCCcEEEEEecCCCChhHHHHHHHHH--HHhcCCeEEEEecCCCCCh-----HHHHHcCCCCCCeEEeCCCCHHHHHHHH
Q 021239          118 PKGRIVEIYGREASGKTTLALHVIKE--AQKLGGYCAYLDVENALDP-----SLAEAMGIDAENLLIAQPDSAENLLSVV  190 (315)
Q Consensus       118 ~~G~i~~i~G~~GsGKTtlal~la~~--~~~~g~~v~~i~~E~~~~~-----~~~~~~g~~~~~l~i~~~~~~e~~~~~i  190 (315)
                      +...++.|+|.+|+|||+||.+++..  ....-..++|++.......     ..++.++......  ....+.++....+
T Consensus        17 ~~~~~v~I~G~~G~GKT~LA~~~~~~~~~~~~f~~v~wv~~~~~~~~~~~~~~i~~~l~~~~~~~--~~~~~~~~~~~~l   94 (287)
T PF00931_consen   17 NEVRVVAIVGMGGIGKTTLARQVARDLRIKNRFDGVIWVSLSKNPSLEQLLEQILRQLGEPDSSI--SDPKDIEELQDQL   94 (287)
T ss_dssp             TSSEEEEEEESTTSSHHHHHHHHHCHHHHCCCCTEEEEEEEES-SCCHHHHHHHHHHHTCC-STS--SCCSSHHHHHHHH
T ss_pred             CCeEEEEEEcCCcCCcceeeeeccccccccccccccccccccccccccccccccccccccccccc--ccccccccccccc
Confidence            77889999999999999999999877  3334467889988766543     3455666554333  3455677777888


Q ss_pred             HHHHHcCCccEEeehhHhh
Q 021239          191 DTLTKSGSIDVIVVDSVAA  209 (315)
Q Consensus       191 ~~l~~~~~~~lVVIDsl~~  209 (315)
                      .+.+... .-++|+|.+..
T Consensus        95 ~~~L~~~-~~LlVlDdv~~  112 (287)
T PF00931_consen   95 RELLKDK-RCLLVLDDVWD  112 (287)
T ss_dssp             HHHHCCT-SEEEEEEEE-S
T ss_pred             hhhhccc-cceeeeeeecc
Confidence            7776654 78999997553

This domain has been structurally characterised in the human protein apoptotic protease-activating factor 1 (Apaf-1) []. It contains the three-layered alpha-beta fold and subsequent short alpha-helical region characteristic of the AAA+ ATPase domain superfamily. While this domain is thought to bind and hyrolyse ATP, only ADP binding has been experimentally verified. It is proposed that binding and hydrolysis of ATP by this domain induces conformational changes the the overall protein, leading to formation of the apoptosome.; GO: 0043531 ADP binding; PDB: 3IZA_E 1Z6T_D 3SFZ_A 3SHF_A 1VT4_M 3IZ8_G 3LQR_A 2A5Y_C 3LQQ_A.

>PRK06731 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=97.95  E-value=0.00015  Score=66.06  Aligned_cols=88  Identities=10%  Similarity=0.197  Sum_probs=63.4

Q ss_pred             CCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCCh------HHHHHcCCCCCCeEEeCCCCHHHHHHHHHH
Q 021239          119 KGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP------SLAEAMGIDAENLLIAQPDSAENLLSVVDT  192 (315)
Q Consensus       119 ~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~------~~~~~~g~~~~~l~i~~~~~~e~~~~~i~~  192 (315)
                      +|+.+.+.|++|+||||++..++..+..++.++.+++.+.....      .+++.++     +.+....+.+++.+.+..
T Consensus        74 ~~~~i~~~G~~g~GKTtl~~~l~~~l~~~~~~v~~i~~D~~ri~~~~ql~~~~~~~~-----~~~~~~~~~~~l~~~l~~  148 (270)
T PRK06731         74 EVQTIALIGPTGVGKTTTLAKMAWQFHGKKKTVGFITTDHSRIGTVQQLQDYVKTIG-----FEVIAVRDEAAMTRALTY  148 (270)
T ss_pred             CCCEEEEECCCCCcHHHHHHHHHHHHHHcCCeEEEEecCCCCHHHHHHHHHHhhhcC-----ceEEecCCHHHHHHHHHH
Confidence            67899999999999999999999888777889999998854311      1222333     223333455666666666


Q ss_pred             HHHcCCccEEeehhHhhhc
Q 021239          193 LTKSGSIDVIVVDSVAALI  211 (315)
Q Consensus       193 l~~~~~~~lVVIDsl~~l~  211 (315)
                      +.+..+.++|+||......
T Consensus       149 l~~~~~~D~ViIDt~Gr~~  167 (270)
T PRK06731        149 FKEEARVDYILIDTAGKNY  167 (270)
T ss_pred             HHhcCCCCEEEEECCCCCc
Confidence            6444578999999877654

>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=97.95  E-value=2.2e-05  Score=69.10  Aligned_cols=38  Identities=32%  Similarity=0.542  Sum_probs=30.4

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEE
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAY  153 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~  153 (315)
                      -+.+|+++.|.||+|+|||||+..++.......+.+.|
T Consensus        22 ~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~~~~G~i~~   59 (222)
T cd03224          22 TVPEGEIVALLGRNGAGKTTLLKTIMGLLPPRSGSIRF   59 (222)
T ss_pred             EEcCCeEEEEECCCCCCHHHHHHHHhCCCCCCCceEEE
Confidence            46799999999999999999998877665545555543

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.

>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=97.94  E-value=3.7e-05  Score=66.96  Aligned_cols=27  Identities=26%  Similarity=0.332  Sum_probs=23.5

Q ss_pred             CCcEEEEEecCCCChhHHHHHHHHHHH
Q 021239          119 KGRIVEIYGREASGKTTLALHVIKEAQ  145 (315)
Q Consensus       119 ~G~i~~i~G~~GsGKTtlal~la~~~~  145 (315)
                      +|+.++|+||+|+|||||+..++....
T Consensus        28 ~~~~~~l~G~Ng~GKStll~~i~~~~~   54 (202)
T cd03243          28 SGRLLLITGPNMGGKSTYLRSIGLAVL   54 (202)
T ss_pred             CCeEEEEECCCCCccHHHHHHHHHHHH
Confidence            459999999999999999999985543

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

>PRK11701 phnK phosphonate C-P lyase system protein PhnK; Provisional

Probab=97.94  E-value=5.2e-05  Score=68.49  Aligned_cols=37  Identities=32%  Similarity=0.392  Sum_probs=30.3

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEE
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAY  153 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~  153 (315)
                      +.+|+++.|.|++|+|||||+..++.......+.+.|
T Consensus        29 i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~p~~G~i~~   65 (258)
T PRK11701         29 LYPGEVLGIVGESGSGKTTLLNALSARLAPDAGEVHY   65 (258)
T ss_pred             EeCCCEEEEECCCCCCHHHHHHHHhCCCCCCCCEEEE
Confidence            6799999999999999999999888766555555543

>PRK14088 dnaA chromosomal replication initiation protein; Provisional

Probab=97.93  E-value=8.9e-05  Score=72.28  Aligned_cols=75  Identities=24%  Similarity=0.305  Sum_probs=48.9

Q ss_pred             cEEEEEecCCCChhHHHHHHHHHHHhc--CCeEEEEecCCCCChHHHHHcCCCCCCeEEeCCCCHHHHHHHHHHHHHcCC
Q 021239          121 RIVEIYGREASGKTTLALHVIKEAQKL--GGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTKSGS  198 (315)
Q Consensus       121 ~i~~i~G~~GsGKTtlal~la~~~~~~--g~~v~~i~~E~~~~~~~~~~~g~~~~~l~i~~~~~~e~~~~~i~~l~~~~~  198 (315)
                      .-..|+|++|+|||+|+..++..+...  +.+|+|++.+.-.. .....+.          ....+++.+..+     .+
T Consensus       131 n~l~lyG~~G~GKTHLl~ai~~~l~~~~~~~~v~yi~~~~f~~-~~~~~~~----------~~~~~~f~~~~~-----~~  194 (440)
T PRK14088        131 NPLFIYGGVGLGKTHLLQSIGNYVVQNEPDLRVMYITSEKFLN-DLVDSMK----------EGKLNEFREKYR-----KK  194 (440)
T ss_pred             CeEEEEcCCCCcHHHHHHHHHHHHHHhCCCCeEEEEEHHHHHH-HHHHHHh----------cccHHHHHHHHH-----hc
Confidence            358999999999999999998887654  56899998653211 1111110          112233332221     26


Q ss_pred             ccEEeehhHhhhc
Q 021239          199 IDVIVVDSVAALI  211 (315)
Q Consensus       199 ~~lVVIDsl~~l~  211 (315)
                      +++++||.++.+.
T Consensus       195 ~dvLlIDDi~~l~  207 (440)
T PRK14088        195 VDVLLIDDVQFLI  207 (440)
T ss_pred             CCEEEEechhhhc
Confidence            8999999999876

>PRK13649 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=97.93  E-value=3.8e-05  Score=70.26  Aligned_cols=37  Identities=19%  Similarity=0.217  Sum_probs=29.7

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEE
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCA  152 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~  152 (315)
                      -+++|+++.|.|++|+|||||+..++.......+.+.
T Consensus        29 ~i~~Ge~~~l~G~nGsGKSTLl~~i~Gl~~p~~G~i~   65 (280)
T PRK13649         29 TIEDGSYTAFIGHTGSGKSTIMQLLNGLHVPTQGSVR   65 (280)
T ss_pred             EEcCCcEEEEECCCCCCHHHHHHHHhCCCCCCceEEE
Confidence            4679999999999999999999888776544444543

>cd03244 ABCC_MRP_domain2 Domain 2 of the ABC subfamily C

Probab=97.93  E-value=4.8e-05  Score=66.95  Aligned_cols=37  Identities=30%  Similarity=0.435  Sum_probs=30.2

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEE
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCA  152 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~  152 (315)
                      -+++|+++.|.|++|+|||||+..++.......+.+.
T Consensus        26 ~i~~Ge~~~i~G~nGsGKSTLl~~l~G~~~~~~G~i~   62 (221)
T cd03244          26 SIKPGEKVGIVGRTGSGKSSLLLALFRLVELSSGSIL   62 (221)
T ss_pred             EECCCCEEEEECCCCCCHHHHHHHHHcCCCCCCCEEE
Confidence            3679999999999999999999988876555555554

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.

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

Probab=97.93  E-value=3.6e-06  Score=75.36  Aligned_cols=37  Identities=22%  Similarity=0.303  Sum_probs=28.7

Q ss_pred             EEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCC
Q 021239          125 IYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALD  161 (315)
Q Consensus       125 i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~  161 (315)
                      |.|||||||||+|..+.......+.++.++.++.+.+
T Consensus         1 ViGpaGSGKTT~~~~~~~~~~~~~~~~~~vNLDPa~~   37 (238)
T PF03029_consen    1 VIGPAGSGKTTFCKGLSEWLESNGRDVYIVNLDPAVE   37 (238)
T ss_dssp             -EESTTSSHHHHHHHHHHHHTTT-S-EEEEE--TT-S
T ss_pred             CCCCCCCCHHHHHHHHHHHHHhccCCceEEEcchHhc
Confidence            5899999999999999998888899999999987765

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

>cd00561 CobA_CobO_BtuR ATP:corrinoid adenosyltransferase BtuR/CobO/CobP

Probab=97.92  E-value=0.00019  Score=60.04  Aligned_cols=91  Identities=18%  Similarity=0.265  Sum_probs=60.3

Q ss_pred             EEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCC----ChHHHHHcC-CCCC----CeEEeCCCCHH------HH
Q 021239          122 IVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENAL----DPSLAEAMG-IDAE----NLLIAQPDSAE------NL  186 (315)
Q Consensus       122 i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~----~~~~~~~~g-~~~~----~l~i~~~~~~e------~~  186 (315)
                      ++.|++++|.||||.|..++..++..|.+|+++-|=...    +....++++ +...    ...+...+..+      +.
T Consensus         4 ~i~vy~g~G~Gkt~~a~g~~~ra~~~g~~v~~vQFlKg~~~~gE~~~l~~l~~v~~~~~g~~~~~~~~~~~~~~~~a~~~   83 (159)
T cd00561           4 LIQVYTGNGKGKTTAALGLALRALGHGYRVGVVQFLKGGWKYGELKALERLPNIEIHRMGRGFFWTTENDEEDIAAAAEG   83 (159)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEEEeCCCCccCHHHHHHhCCCcEEEECCCCCccCCCChHHHHHHHHHH
Confidence            677888889999999999999999999999996654332    223455552 1110    00111111112      33


Q ss_pred             HHHHHHHHHcCCccEEeehhHhhhcc
Q 021239          187 LSVVDTLTKSGSIDVIVVDSVAALIP  212 (315)
Q Consensus       187 ~~~i~~l~~~~~~~lVVIDsl~~l~~  212 (315)
                      .+..++.+....+++||+|.+.....
T Consensus        84 ~~~a~~~~~~~~~dLlVLDEi~~a~~  109 (159)
T cd00561          84 WAFAKEAIASGEYDLVILDEINYALG  109 (159)
T ss_pred             HHHHHHHHhcCCCCEEEEechHhHhh
Confidence            44556667778999999999998864

This family consists of the BtuR, CobO, CobP proteins all of which are Cob(I)alamin (vitamin B12) adenosyltransferase, which is involved in cobalamin (vitamin B12) biosynthesis. This enzyme is a homodimer, which catalyzes the adenosylation reaction: ATP + cob(I)alamin + H2O <= phosphate + diphosphate + adenosylcobalamin.

>PRK13645 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=97.92  E-value=3e-05  Score=71.30  Aligned_cols=37  Identities=19%  Similarity=0.189  Sum_probs=30.1

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEE
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCA  152 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~  152 (315)
                      -+++|+++.|.|++|+|||||+..++.......+.+.
T Consensus        33 ~i~~Ge~~~l~G~nGsGKSTLl~~l~Gl~~p~~G~i~   69 (289)
T PRK13645         33 TFKKNKVTCVIGTTGSGKSTMIQLTNGLIISETGQTI   69 (289)
T ss_pred             EEeCCCEEEEECCCCCCHHHHHHHHhcCCCCCCceEE
Confidence            4679999999999999999999988876554445543

>PRK15439 autoinducer 2 ABC transporter ATP-binding protein LsrA; Provisional

Probab=97.92  E-value=4e-05  Score=76.18  Aligned_cols=37  Identities=22%  Similarity=0.277  Sum_probs=29.4

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEE
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCA  152 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~  152 (315)
                      -+++|+++.|.||+|+|||||+..++.......+.+.
T Consensus        33 ~i~~Ge~~~liG~NGsGKSTLl~~l~Gl~~p~~G~i~   69 (510)
T PRK15439         33 TLHAGEVHALLGGNGAGKSTLMKIIAGIVPPDSGTLE   69 (510)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhCCCCCCceEEE
Confidence            4679999999999999999999888766544444443

>KOG0733 consensus Nuclear AAA ATPase (VCP subfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=97.92  E-value=2.9e-05  Score=76.40  Aligned_cols=120  Identities=23%  Similarity=0.252  Sum_probs=73.9

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCChHHHHHcCCCCCCeEEeCCCCHHHHHHHHHHHHH
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTK  195 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~~~~~~~g~~~~~l~i~~~~~~e~~~~~i~~l~~  195 (315)
                      |+..-+-+++|||||||||.||...|.++-     .=||+...   +++...+           ....|..+..+-+-.+
T Consensus       541 Gi~~PsGvLL~GPPGCGKTLlAKAVANEag-----~NFisVKG---PELlNkY-----------VGESErAVR~vFqRAR  601 (802)
T KOG0733|consen  541 GIDAPSGVLLCGPPGCGKTLLAKAVANEAG-----ANFISVKG---PELLNKY-----------VGESERAVRQVFQRAR  601 (802)
T ss_pred             CCCCCCceEEeCCCCccHHHHHHHHhhhcc-----CceEeecC---HHHHHHH-----------hhhHHHHHHHHHHHhh
Confidence            566667799999999999999988876663     33555322   1221111           1122333333333345


Q ss_pred             cCCccEEeehhHhhhccccccCCCccCCChHHHHHHHHHHHHHHHHHHhccCcEEEEEecccccc
Q 021239          196 SGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVRFSA  260 (315)
Q Consensus       196 ~~~~~lVVIDsl~~l~~~~~~~~~~~~~~~~~q~r~i~~~l~~L~~~~~~~~i~VI~inq~~~~~  260 (315)
                      ...|.+|+.|.+.++.++-.-+.      ...-.|.+.+.|-.|-.+-.+.|+.||.-+.-=+.+
T Consensus       602 ~saPCVIFFDEiDaL~p~R~~~~------s~~s~RvvNqLLtElDGl~~R~gV~viaATNRPDiI  660 (802)
T KOG0733|consen  602 ASAPCVIFFDEIDALVPRRSDEG------SSVSSRVVNQLLTELDGLEERRGVYVIAATNRPDII  660 (802)
T ss_pred             cCCCeEEEecchhhcCcccCCCC------chhHHHHHHHHHHHhcccccccceEEEeecCCCccc
Confidence            56899999999999997532221      223456677777777666567788888655543444

>cd03220 ABC_KpsT_Wzt ABC_KpsT_Wzt The KpsT/Wzt ABC transporter subfamily is involved in extracellular polysaccharide export

Probab=97.91  E-value=7e-05  Score=66.31  Aligned_cols=36  Identities=25%  Similarity=0.389  Sum_probs=29.0

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeE
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYC  151 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v  151 (315)
                      -+++|+++.|.|++|+|||||+..++.......+.+
T Consensus        44 ~i~~Ge~~~i~G~nGsGKSTLl~~l~G~~~p~~G~i   79 (224)
T cd03220          44 EVPRGERIGLIGRNGAGKSTLLRLLAGIYPPDSGTV   79 (224)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhCCCCCCceEE
Confidence            367999999999999999999998887654444444

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.

>PRK13631 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=97.91  E-value=5e-05  Score=70.99  Aligned_cols=38  Identities=29%  Similarity=0.281  Sum_probs=30.8

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEE
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAY  153 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~  153 (315)
                      -+++|+++.|.|++|+|||||+..++.......+.+.+
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            46799999999999999999999888765555555543

>COG4559 ABC-type hemin transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=97.91  E-value=1.6e-05  Score=68.88  Aligned_cols=59  Identities=24%  Similarity=0.246  Sum_probs=47.6

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCC--ChHHHHHcCCCCCCe
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENAL--DPSLAEAMGIDAENL  175 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~--~~~~~~~~g~~~~~l  175 (315)
                      +++|++..|.||+|+|||||+..++.+....++.|.|....-+.  ...+++..++-+++-
T Consensus        24 ~~pGev~ailGPNGAGKSTlLk~LsGel~p~~G~v~~~g~~l~~~~~~~lA~~raVlpQ~s   84 (259)
T COG4559          24 LRPGEVLAILGPNGAGKSTLLKALSGELSPDSGEVTLNGVPLNSWPPEELARHRAVLPQNS   84 (259)
T ss_pred             ccCCcEEEEECCCCccHHHHHHHhhCccCCCCCeEeeCCcChhhCCHHHHHHHhhhcccCc
Confidence            67999999999999999999999999998888899887754332  236677777666643

>PRK12422 chromosomal replication initiation protein; Provisional

Probab=97.91  E-value=9.4e-05  Score=72.16  Aligned_cols=74  Identities=19%  Similarity=0.367  Sum_probs=49.6

Q ss_pred             cEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCChHHHHHcCCCCCCeEEeCCCCHHHHHHHHHHHHHcCCcc
Q 021239          121 RIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTKSGSID  200 (315)
Q Consensus       121 ~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~~~~~~~g~~~~~l~i~~~~~~e~~~~~i~~l~~~~~~~  200 (315)
                      .-+.|+|++|+|||+|+..++..+...+.+++|++.+.-.. .....+.          ....+.    ++..  -..++
T Consensus       142 npl~L~G~~G~GKTHLl~Ai~~~l~~~~~~v~yi~~~~f~~-~~~~~l~----------~~~~~~----f~~~--~~~~d  204 (445)
T PRK12422        142 NPIYLFGPEGSGKTHLMQAAVHALRESGGKILYVRSELFTE-HLVSAIR----------SGEMQR----FRQF--YRNVD  204 (445)
T ss_pred             ceEEEEcCCCCCHHHHHHHHHHHHHHcCCCEEEeeHHHHHH-HHHHHHh----------cchHHH----HHHH--cccCC
Confidence            45789999999999999999988887889999999643211 1111111          011111    2221  13689


Q ss_pred             EEeehhHhhhc
Q 021239          201 VIVVDSVAALI  211 (315)
Q Consensus       201 lVVIDsl~~l~  211 (315)
                      +++||.++.+.
T Consensus       205 vLiIDDiq~l~  215 (445)
T PRK12422        205 ALFIEDIEVFS  215 (445)
T ss_pred             EEEEcchhhhc
Confidence            99999998775

>COG4172 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]

Probab=97.90  E-value=0.00015  Score=68.47  Aligned_cols=48  Identities=13%  Similarity=0.227  Sum_probs=35.6

Q ss_pred             CCccEEeehhHhhhccccccCCCccCCChHHHHHHHHHHHHHHHHHHhccCcEEEEEecccccc
Q 021239          197 GSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVRFSA  260 (315)
Q Consensus       197 ~~~~lVVIDsl~~l~~~~~~~~~~~~~~~~~q~r~i~~~l~~L~~~~~~~~i~VI~inq~~~~~  260 (315)
                      -+|.+|++|..+.-...            ..|+. +...|+.|.   +++|.+-++|+|.-..+
T Consensus       443 LkP~~i~LDEPTSALD~------------SVQaQ-vv~LLr~LQ---~k~~LsYLFISHDL~Vv  490 (534)
T COG4172         443 LKPELILLDEPTSALDR------------SVQAQ-VLDLLRDLQ---QKHGLSYLFISHDLAVV  490 (534)
T ss_pred             cCCcEEEecCCchHhhH------------HHHHH-HHHHHHHHH---HHhCCeEEEEeccHHHH
Confidence            46899999977755521            13333 667788887   89999999999987666

>PF13245 AAA_19: Part of AAA domain

Probab=97.90  E-value=1.7e-05  Score=58.04  Aligned_cols=49  Identities=24%  Similarity=0.228  Sum_probs=38.5

Q ss_pred             CcEEEEEecCCCChhHHHHHHHHHHHhc----CCeEEEEecCCCCChHHHHHc
Q 021239          120 GRIVEIYGREASGKTTLALHVIKEAQKL----GGYCAYLDVENALDPSLAEAM  168 (315)
Q Consensus       120 G~i~~i~G~~GsGKTtlal~la~~~~~~----g~~v~~i~~E~~~~~~~~~~~  168 (315)
                      +.+.+|.||||+|||+++.+.+......    +.+++++++.......+.+++
T Consensus        10 ~~~~vv~g~pGtGKT~~~~~~i~~l~~~~~~~~~~vlv~a~t~~aa~~l~~rl   62 (76)
T PF13245_consen   10 SPLFVVQGPPGTGKTTTLAARIAELLAARADPGKRVLVLAPTRAAADELRERL   62 (76)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHHHHhcCCCCeEEEECCCHHHHHHHHHHH
Confidence            5678889999999999999999888865    788999987655544455554

>PRK15056 manganese/iron transporter ATP-binding protein; Provisional

Probab=97.90  E-value=3.8e-05  Score=70.06  Aligned_cols=35  Identities=29%  Similarity=0.408  Sum_probs=28.0

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCe
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGY  150 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~  150 (315)
                      -+++|+++.|.|++|+|||||+..++.......+.
T Consensus        29 ~i~~Ge~~~l~G~nGsGKSTLl~~l~Gl~~p~~G~   63 (272)
T PRK15056         29 TVPGGSIAALVGVNGSGKSTLFKALMGFVRLASGK   63 (272)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhCCCCCCceE
Confidence            36799999999999999999999887665433333

>PRK13638 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=97.90  E-value=4.8e-05  Score=69.31  Aligned_cols=38  Identities=16%  Similarity=0.276  Sum_probs=30.1

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEE
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAY  153 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~  153 (315)
                      -+++|+++.|.|++|+|||||+..++.......+.+.|
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            36799999999999999999999887765544555543

>PRK09473 oppD oligopeptide transporter ATP-binding component; Provisional

Probab=97.89  E-value=3.1e-05  Score=72.75  Aligned_cols=30  Identities=27%  Similarity=0.391  Sum_probs=26.3

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHh
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQK  146 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~  146 (315)
                      +.+|+++.|.|++|+|||||+..++.....
T Consensus        39 i~~Ge~~~ivG~sGsGKSTL~~~l~Gl~~p   68 (330)
T PRK09473         39 LRAGETLGIVGESGSGKSQTAFALMGLLAA   68 (330)
T ss_pred             EcCCCEEEEECCCCchHHHHHHHHHcCCCC
Confidence            679999999999999999999888766543

>TIGR03771 anch_rpt_ABC anchored repeat-type ABC transporter, ATP-binding subunit

Probab=97.89  E-value=0.00013  Score=64.58  Aligned_cols=34  Identities=26%  Similarity=0.398  Sum_probs=27.9

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCe
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGY  150 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~  150 (315)
                      +.+|+++.|.|++|+|||||+..++.......+.
T Consensus         3 i~~Ge~~~l~G~nGsGKSTLl~~l~G~~~~~~G~   36 (223)
T TIGR03771         3 ADKGELLGLLGPNGAGKTTLLRAILGLIPPAKGT   36 (223)
T ss_pred             cCCCcEEEEECCCCCCHHHHHHHHhCCCCCCCce
Confidence            5789999999999999999999888765443333

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.

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=97.89  E-value=9.6e-05  Score=76.65  Aligned_cols=79  Identities=25%  Similarity=0.365  Sum_probs=50.4

Q ss_pred             CCCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCChHHHHHcCCCCCCeEEeCCCCHHHHHHHHHHHH
Q 021239          115 GGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLT  194 (315)
Q Consensus       115 GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~~~~~~~g~~~~~l~i~~~~~~e~~~~~i~~l~  194 (315)
                      -|++++..++|+||||+|||+++..++...   +.+.++++..+-...                .....++.+..+-+..
T Consensus       207 ~gi~~~~giLL~GppGtGKT~laraia~~~---~~~~i~i~~~~i~~~----------------~~g~~~~~l~~lf~~a  267 (733)
T TIGR01243       207 LGIEPPKGVLLYGPPGTGKTLLAKAVANEA---GAYFISINGPEIMSK----------------YYGESEERLREIFKEA  267 (733)
T ss_pred             cCCCCCceEEEECCCCCChHHHHHHHHHHh---CCeEEEEecHHHhcc----------------cccHHHHHHHHHHHHH
Confidence            468888999999999999999999987765   445555553211100                0011122222222223


Q ss_pred             HcCCccEEeehhHhhhcc
Q 021239          195 KSGSIDVIVVDSVAALIP  212 (315)
Q Consensus       195 ~~~~~~lVVIDsl~~l~~  212 (315)
                      ....+.+|+||.+..+.+
T Consensus       268 ~~~~p~il~iDEid~l~~  285 (733)
T TIGR01243       268 EENAPSIIFIDEIDAIAP  285 (733)
T ss_pred             HhcCCcEEEeehhhhhcc
Confidence            445789999999998874

This subfamily of the AAA family ATPases includes two members each from three archaeal species. It also includes yeast CDC48 (cell division control protein 48) and the human ortholog, transitional endoplasmic reticulum ATPase (valosin-containing protein). These proteins in eukaryotes are involved in the budding and transfer of membrane from the transitional endoplasmic reticulum to the Golgi apparatus.

>PRK10938 putative molybdenum transport ATP-binding protein ModF; Provisional

Probab=97.89  E-value=7.6e-05  Score=73.73  Aligned_cols=37  Identities=30%  Similarity=0.310  Sum_probs=30.0

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEE
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCA  152 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~  152 (315)
                      -+++|+++.|.|++|+|||||+..++.......+.+.
T Consensus        25 ~i~~Ge~~~liG~nGsGKSTLl~~l~G~~~p~~G~i~   61 (490)
T PRK10938         25 TLNAGDSWAFVGANGSGKSALARALAGELPLLSGERQ   61 (490)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhccCCCCCceEE
Confidence            3679999999999999999999888876554455553

>PRK13644 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=97.89  E-value=4.8e-05  Score=69.50  Aligned_cols=36  Identities=36%  Similarity=0.517  Sum_probs=29.5

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEE
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCA  152 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~  152 (315)
                      +++|+++.|.|++|+|||||+..++.......+.+.
T Consensus        25 i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~p~~G~i~   60 (274)
T PRK13644         25 IKKGEYIGIIGKNGSGKSTLALHLNGLLRPQKGKVL   60 (274)
T ss_pred             EeCCCEEEEECCCCCCHHHHHHHHhcCCCCCCceEE
Confidence            679999999999999999999988876554445543

>PF08433 KTI12: Chromatin associated protein KTI12 ; InterPro: IPR013641 This is a family of chromatin associated proteins which interact with the Elongator complex, a component of the elongating form of RNA polymerase II []

Probab=97.88  E-value=9.2e-05  Score=67.48  Aligned_cols=77  Identities=19%  Similarity=0.291  Sum_probs=42.1

Q ss_pred             EEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCChHHHHHcCCCCCCeEEeCCCCHHHHHH----HHHHHHHcC
Q 021239          122 IVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLS----VVDTLTKSG  197 (315)
Q Consensus       122 i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~~~~~~~g~~~~~l~i~~~~~~e~~~~----~i~~l~~~~  197 (315)
                      +++|+|-|||||||+|.++.......+..+.+++.+.         ++++-+.  +.+.........    .+.+.+.  
T Consensus         3 Liil~G~P~SGKTt~a~~L~~~~~~~~~~v~~i~~~~---------~~~~~~~--y~~~~~Ek~~R~~l~s~v~r~ls--   69 (270)
T PF08433_consen    3 LIILCGLPCSGKTTRAKELKKYLEEKGKEVVIISDDS---------LGIDRND--YADSKKEKEARGSLKSAVERALS--   69 (270)
T ss_dssp             EEEEE--TTSSHHHHHHHHHHHHHHTT--EEEE-THH---------HH-TTSS--S--GGGHHHHHHHHHHHHHHHHT--
T ss_pred             EEEEEcCCCCcHHHHHHHHHHHHHhcCCEEEEEcccc---------cccchhh--hhchhhhHHHHHHHHHHHHHhhc--
Confidence            7899999999999999999999888888898888322         1122222  222222333333    3444432  


Q ss_pred             CccEEeehhHhhhc
Q 021239          198 SIDVIVVDSVAALI  211 (315)
Q Consensus       198 ~~~lVVIDsl~~l~  211 (315)
                      .-.+||+|+.+.+.
T Consensus        70 ~~~iVI~Dd~nYiK   83 (270)
T PF08433_consen   70 KDTIVILDDNNYIK   83 (270)
T ss_dssp             T-SEEEE-S---SH
T ss_pred             cCeEEEEeCCchHH
Confidence            34899999998665

The Elongator complex has histone acetyltransferase activity. ; PDB: 3ADB_B 3ADC_B 3A4M_B 3A4N_B 3AM1_A 3A4L_B 3ADD_A.

>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=97.88  E-value=0.0001  Score=65.91  Aligned_cols=37  Identities=24%  Similarity=0.304  Sum_probs=29.7

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEE
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCA  152 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~  152 (315)
                      -+++|+++.|.||+|+|||||+..++.......+.+.
T Consensus        23 ~i~~Ge~~~i~G~nGsGKSTLl~~l~G~~~~~~G~i~   59 (242)
T cd03295          23 EIAKGEFLVLIGPSGSGKTTTMKMINRLIEPTSGEIF   59 (242)
T ss_pred             EECCCCEEEEECCCCCCHHHHHHHHhcCCCCCCceEE
Confidence            4679999999999999999999988776544445543

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.

>PRK10762 D-ribose transporter ATP binding protein; Provisional

Probab=97.88  E-value=4.2e-05  Score=75.83  Aligned_cols=37  Identities=19%  Similarity=0.311  Sum_probs=29.7

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEE
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCA  152 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~  152 (315)
                      -+.+|+++.|.||+|+|||||+..++.......+.+.
T Consensus        26 ~i~~Ge~~~l~G~NGsGKSTLl~~l~G~~~p~~G~i~   62 (501)
T PRK10762         26 NVYPGRVMALVGENGAGKSTMMKVLTGIYTRDAGSIL   62 (501)
T ss_pred             EEcCCeEEEEECCCCCCHHHHHHHHhCCCCCCCcEEE
Confidence            3668999999999999999999888876554445544

>TIGR01978 sufC FeS assembly ATPase SufC

Probab=97.88  E-value=9.7e-05  Score=65.92  Aligned_cols=28  Identities=36%  Similarity=0.519  Sum_probs=25.3

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHH
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKE  143 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~  143 (315)
                      -+++|+++.|.|++|+|||||+..++..
T Consensus        22 ~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl   49 (243)
T TIGR01978        22 TVKKGEIHAIMGPNGSGKSTLSKTIAGH   49 (243)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhCC
Confidence            3679999999999999999999988876

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.

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

Probab=97.88  E-value=4.4e-05  Score=68.73  Aligned_cols=100  Identities=23%  Similarity=0.228  Sum_probs=58.9

Q ss_pred             HHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHhc-CCeEEE-E-ecCCCCCh-HHHHHcCCCCCCeEEeCCC
Q 021239          106 LKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKL-GGYCAY-L-DVENALDP-SLAEAMGIDAENLLIAQPD  181 (315)
Q Consensus       106 ~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~~-g~~v~~-i-~~E~~~~~-~~~~~~g~~~~~l~i~~~~  181 (315)
                      ..+|-++.   +.+|+.+.|.|++|+||||++..++...... +..++| + ..|...+. +..+.+   ..-+.+...+
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            34566665   6689999999999999999998888776543 222333 3 33333333 333333   1112222222


Q ss_pred             -CHH-------HHHHHHHHHHHcCCccEEeehhHhhhc
Q 021239          182 -SAE-------NLLSVVDTLTKSGSIDVIVVDSVAALI  211 (315)
Q Consensus       182 -~~e-------~~~~~i~~l~~~~~~~lVVIDsl~~l~  211 (315)
                       +..       .....++.+...+..-+++||+++.+.
T Consensus        79 ~~~~~~~~~~~~~~~~a~~~~~~G~~vll~iDei~r~a  116 (249)
T cd01128          79 EPPERHVQVAEMVLEKAKRLVEHGKDVVILLDSITRLA  116 (249)
T ss_pred             CCHHHHHHHHHHHHHHHHHHHHCCCCEEEEEECHHHhh
Confidence             111       233334444445667799999999886

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.

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

Probab=97.87  E-value=7.6e-05  Score=68.48  Aligned_cols=133  Identities=12%  Similarity=0.151  Sum_probs=76.3

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHhc----CCeEEEEecCCCCChHHHHHcCCCCCCeEEeCCCCHHHHHHHHHH
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKL----GGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDT  192 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~~----g~~v~~i~~E~~~~~~~~~~~g~~~~~l~i~~~~~~e~~~~~i~~  192 (315)
                      +.-..++++.||||+|||+||..+|....-+    ..+...+..  .......+-++-        .-.-...+++.+.+
T Consensus       174 It~NRliLlhGPPGTGKTSLCKaLaQkLSIR~~~~y~~~~liEi--nshsLFSKWFsE--------SgKlV~kmF~kI~E  243 (423)
T KOG0744|consen  174 ITWNRLILLHGPPGTGKTSLCKALAQKLSIRTNDRYYKGQLIEI--NSHSLFSKWFSE--------SGKLVAKMFQKIQE  243 (423)
T ss_pred             eeeeeEEEEeCCCCCChhHHHHHHHHhheeeecCccccceEEEE--ehhHHHHHHHhh--------hhhHHHHHHHHHHH
Confidence            3346789999999999999999998876532    112222211  001111111110        01124567788888


Q ss_pred             HHHcC-CccEEeehhHhhhccccccCCCccCCChHHHHHHHHHHHHHHHHHHhccCcEEEEEeccccccC
Q 021239          193 LTKSG-SIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVRFSAK  261 (315)
Q Consensus       193 l~~~~-~~~lVVIDsl~~l~~~~~~~~~~~~~~~~~q~r~i~~~l~~L~~~~~~~~i~VI~inq~~~~~~  261 (315)
                      +++.. ..-.|.||.+.++..........++..  ...|.+...|.++-++-+..|+.++.++.+.+.++
T Consensus       244 Lv~d~~~lVfvLIDEVESLa~aR~s~~S~~Eps--DaIRvVNalLTQlDrlK~~~NvliL~TSNl~~siD  311 (423)
T KOG0744|consen  244 LVEDRGNLVFVLIDEVESLAAARTSASSRNEPS--DAIRVVNALLTQLDRLKRYPNVLILATSNLTDSID  311 (423)
T ss_pred             HHhCCCcEEEEEeHHHHHHHHHHHhhhcCCCCc--hHHHHHHHHHHHHHHhccCCCEEEEeccchHHHHH
Confidence            88654 456888998887752111111111111  12344555566665555778999999999877753

>cd03236 ABC_RNaseL_inhibitor_domain1 The ATPase domain 1 of RNase L inhibitor

Probab=97.87  E-value=7e-05  Score=67.74  Aligned_cols=36  Identities=17%  Similarity=0.197  Sum_probs=30.7

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEE
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCA  152 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~  152 (315)
                      +.+|+++.|.|++|+|||||+..++.......+.+.
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            569999999999999999999888877766666664

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.

>KOG0734 consensus AAA+-type ATPase containing the peptidase M41 domain [Posttranslational modification, protein turnover, chaperones]

Probab=97.87  E-value=4.4e-05  Score=74.14  Aligned_cols=78  Identities=28%  Similarity=0.399  Sum_probs=48.6

Q ss_pred             hcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCChHHHHHcCCCCCCeEEeCCCCHHHHHHHHH
Q 021239          112 LGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVD  191 (315)
Q Consensus       112 l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~~~~~~~g~~~~~l~i~~~~~~e~~~~~i~  191 (315)
                      || |-+|+|  +++.||||+|||.||..+|.++     .|=||....+.-.+           +++-.  -+..+.+.+.
T Consensus       332 LG-GKLPKG--VLLvGPPGTGKTlLARAvAGEA-----~VPFF~~sGSEFdE-----------m~VGv--GArRVRdLF~  390 (752)
T KOG0734|consen  332 LG-GKLPKG--VLLVGPPGTGKTLLARAVAGEA-----GVPFFYASGSEFDE-----------MFVGV--GARRVRDLFA  390 (752)
T ss_pred             cc-CcCCCc--eEEeCCCCCchhHHHHHhhccc-----CCCeEeccccchhh-----------hhhcc--cHHHHHHHHH
Confidence            56 789988  8899999999999999988776     24344433222111           11100  1122222222


Q ss_pred             HHHHcCCccEEeehhHhhhc
Q 021239          192 TLTKSGSIDVIVVDSVAALI  211 (315)
Q Consensus       192 ~l~~~~~~~lVVIDsl~~l~  211 (315)
                      . .+...|.+|+||.+.++-
T Consensus       391 a-Ak~~APcIIFIDEiDavG  409 (752)
T KOG0734|consen  391 A-AKARAPCIIFIDEIDAVG  409 (752)
T ss_pred             H-HHhcCCeEEEEechhhhc
Confidence            2 234579999999999886

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

Probab=97.86  E-value=5.3e-05  Score=68.54  Aligned_cols=93  Identities=22%  Similarity=0.260  Sum_probs=51.7

Q ss_pred             CCC-CcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEE-ecCCCCCh---HHHHHcCCCCCCeEEeCCCCHHHHHHHHH
Q 021239          117 LPK-GRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYL-DVENALDP---SLAEAMGIDAENLLIAQPDSAENLLSVVD  191 (315)
Q Consensus       117 l~~-G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i-~~E~~~~~---~~~~~~g~~~~~l~i~~~~~~e~~~~~i~  191 (315)
                      +++ +.+++|+|++|+||||++..++.........+.++ ....+...   ..+..+|++.+...  .......+.+.+.
T Consensus        39 ~~~~~~~~~l~G~~G~GKTtl~~~l~~~l~~~~~~~~~~~~~~~~~~~~l~~i~~~lG~~~~~~~--~~~~~~~l~~~l~  116 (269)
T TIGR03015        39 LSQREGFILITGEVGAGKTTLIRNLLKRLDQERVVAAKLVNTRVDAEDLLRMVAADFGLETEGRD--KAALLRELEDFLI  116 (269)
T ss_pred             HhcCCCEEEEEcCCCCCHHHHHHHHHHhcCCCCeEEeeeeCCCCCHHHHHHHHHHHcCCCCCCCC--HHHHHHHHHHHHH
Confidence            444 44899999999999999999877664322222232 22222111   24555666543210  0001123333343


Q ss_pred             HHHHcCCccEEeehhHhhhc
Q 021239          192 TLTKSGSIDVIVVDSVAALI  211 (315)
Q Consensus       192 ~l~~~~~~~lVVIDsl~~l~  211 (315)
                      .....++..+++||....+.
T Consensus       117 ~~~~~~~~~vliiDe~~~l~  136 (269)
T TIGR03015       117 EQFAAGKRALLVVDEAQNLT  136 (269)
T ss_pred             HHHhCCCCeEEEEECcccCC
Confidence            44445677899999877654

Members of this protein are marked as probable ATPases by the nucleotide binding P-loop motif GXXGXGKTT, a motif DEAQ similar to the DEAD/H box of helicases, and extensive homology to ATPases of MSHA-type pilus systems and to GspA proteins associated with type II protein secretion systems.

>PRK12723 flagellar biosynthesis regulator FlhF; Provisional

Probab=97.86  E-value=0.00016  Score=69.08  Aligned_cols=85  Identities=19%  Similarity=0.213  Sum_probs=58.7

Q ss_pred             CCcEEEEEecCCCChhHHHHHHHHHHHh----cCCeEEEEecCCCCCh------HHHHHcCCCCCCeEEeCCCCHHHHHH
Q 021239          119 KGRIVEIYGREASGKTTLALHVIKEAQK----LGGYCAYLDVENALDP------SLAEAMGIDAENLLIAQPDSAENLLS  188 (315)
Q Consensus       119 ~G~i~~i~G~~GsGKTtlal~la~~~~~----~g~~v~~i~~E~~~~~------~~~~~~g~~~~~l~i~~~~~~e~~~~  188 (315)
                      .+.++.++||+|+||||.+..+|..+..    .|.+|.+++.+.-...      .+++.+|++.     ....+.+++..
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            3569999999999999999999987763    4678999998854321      2344455532     22334455555


Q ss_pred             HHHHHHHcCCccEEeehhHhhhc
Q 021239          189 VVDTLTKSGSIDVIVVDSVAALI  211 (315)
Q Consensus       189 ~i~~l~~~~~~~lVVIDsl~~l~  211 (315)
                      .+..+   .+.++|+||......
T Consensus       248 ~L~~~---~~~DlVLIDTaGr~~  267 (388)
T PRK12723        248 EITQS---KDFDLVLVDTIGKSP  267 (388)
T ss_pred             HHHHh---CCCCEEEEcCCCCCc
Confidence            55443   578999999887543

>PRK09435 membrane ATPase/protein kinase; Provisional

Probab=97.86  E-value=0.00012  Score=68.66  Aligned_cols=92  Identities=18%  Similarity=0.198  Sum_probs=61.7

Q ss_pred             CCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCCh---------HHHHHcCCCCCCeEEeCCC--C---HH
Q 021239          119 KGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP---------SLAEAMGIDAENLLIAQPD--S---AE  184 (315)
Q Consensus       119 ~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~---------~~~~~~g~~~~~l~i~~~~--~---~e  184 (315)
                      +.-++.|.|+||+|||||+..++..+...|.+|.+++.+.+...         .|++.++.++..+......  .   ..
T Consensus        55 ~~~~igi~G~~GaGKSTl~~~l~~~l~~~g~~v~vi~~Dp~s~~~~gallgd~~r~~~~~~~~~~~~r~~~~~~~l~~~a  134 (332)
T PRK09435         55 NALRIGITGVPGVGKSTFIEALGMHLIEQGHKVAVLAVDPSSTRTGGSILGDKTRMERLSRHPNAFIRPSPSSGTLGGVA  134 (332)
T ss_pred             CcEEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEEeCCCccccchhhhchHhHHHhhcCCCCeEEEecCCcccccchH
Confidence            45689999999999999999999999888999999998876542         3455555544422222111  1   12


Q ss_pred             HHHHHHHHHHHcCCccEEeehhHhhh
Q 021239          185 NLLSVVDTLTKSGSIDVIVVDSVAAL  210 (315)
Q Consensus       185 ~~~~~i~~l~~~~~~~lVVIDsl~~l  210 (315)
                      ......-.++...++++|+||....-
T Consensus       135 ~~~~~~~~~~~~~g~d~viieT~Gv~  160 (332)
T PRK09435        135 RKTRETMLLCEAAGYDVILVETVGVG  160 (332)
T ss_pred             HHHHHHHHHHhccCCCEEEEECCCCc
Confidence            22222333345678999999977643

>PRK13547 hmuV hemin importer ATP-binding subunit; Provisional

Probab=97.86  E-value=8.1e-05  Score=67.96  Aligned_cols=30  Identities=27%  Similarity=0.520  Sum_probs=26.2

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHh
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQK  146 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~  146 (315)
                      +.+|+++.|.|++|+|||||+..++.....
T Consensus        24 i~~Ge~~~l~G~nGsGKSTLl~~laG~~~p   53 (272)
T PRK13547         24 IEPGRVTALLGRNGAGKSTLLKALAGDLTG   53 (272)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhCCCCC
Confidence            679999999999999999999988766543

>TIGR03797 NHPM_micro_ABC2 NHPM bacteriocin system ABC transporter, ATP-binding protein

Probab=97.86  E-value=5.7e-05  Score=77.75  Aligned_cols=36  Identities=28%  Similarity=0.336  Sum_probs=31.0

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEE
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCA  152 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~  152 (315)
                      +++|+.+.|.|++|+|||||+.-++.......|.+.
T Consensus       476 i~~Ge~vaIvG~sGsGKSTLlklL~gl~~p~~G~I~  511 (686)
T TIGR03797       476 IEPGEFVAIVGPSGSGKSTLLRLLLGFETPESGSVF  511 (686)
T ss_pred             ECCCCEEEEECCCCCCHHHHHHHHhCCCCCCCCEEE
Confidence            779999999999999999999988887776666654

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

>KOG0730 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=97.86  E-value=5.9e-05  Score=74.85  Aligned_cols=117  Identities=20%  Similarity=0.174  Sum_probs=75.5

Q ss_pred             CCCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCChHHHHHcCCCCCCeEEeCCCCHHHHHHHHHHHH
Q 021239          115 GGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLT  194 (315)
Q Consensus       115 GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~~~~~~~g~~~~~l~i~~~~~~e~~~~~i~~l~  194 (315)
                      =|+.+-.-++++||||||||+++..+|.++..   .-+++...+     .           +.......|..+..+-+..
T Consensus       463 ~Gi~ppkGVLlyGPPGC~KT~lAkalAne~~~---nFlsvkgpE-----L-----------~sk~vGeSEr~ir~iF~kA  523 (693)
T KOG0730|consen  463 FGISPPKGVLLYGPPGCGKTLLAKALANEAGM---NFLSVKGPE-----L-----------FSKYVGESERAIREVFRKA  523 (693)
T ss_pred             hcCCCCceEEEECCCCcchHHHHHHHhhhhcC---CeeeccCHH-----H-----------HHHhcCchHHHHHHHHHHH
Confidence            36888888999999999999999999888743   333333211     1           1111223344444444444


Q ss_pred             HcCCccEEeehhHhhhccccccCCCccCCChHHHHHHHHHHHHHHHHHHhccCcEEEEEecc
Q 021239          195 KSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQV  256 (315)
Q Consensus       195 ~~~~~~lVVIDsl~~l~~~~~~~~~~~~~~~~~q~r~i~~~l~~L~~~~~~~~i~VI~inq~  256 (315)
                      ++..|.+|++|.+.++... .- ++.+    +.+.|.+++.|..+-.+-...++.||.-+.-
T Consensus       524 R~~aP~IiFfDEiDsi~~~-R~-g~~~----~v~~RVlsqLLtEmDG~e~~k~V~ViAATNR  579 (693)
T KOG0730|consen  524 RQVAPCIIFFDEIDALAGS-RG-GSSS----GVTDRVLSQLLTEMDGLEALKNVLVIAATNR  579 (693)
T ss_pred             hhcCCeEEehhhHHhHhhc-cC-CCcc----chHHHHHHHHHHHcccccccCcEEEEeccCC
Confidence            5567899999999998732 21 2221    3566778888888877666677777755443

>PRK11022 dppD dipeptide transporter ATP-binding subunit; Provisional

Probab=97.85  E-value=4.9e-05  Score=71.26  Aligned_cols=30  Identities=27%  Similarity=0.489  Sum_probs=26.4

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHH
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQ  145 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~  145 (315)
                      -+.+|+++.|.|++|+|||||+..++....
T Consensus        29 ~i~~Ge~~~lvG~sGsGKSTL~~~l~Gll~   58 (326)
T PRK11022         29 SVKQGEVVGIVGESGSGKSVSSLAIMGLID   58 (326)
T ss_pred             EECCCCEEEEECCCCChHHHHHHHHHcCCC
Confidence            367999999999999999999998887653

>PRK09700 D-allose transporter ATP-binding protein; Provisional

Probab=97.85  E-value=5.3e-05  Score=75.27  Aligned_cols=38  Identities=21%  Similarity=0.255  Sum_probs=30.2

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEE
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAY  153 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~  153 (315)
                      -+++|+++.|.||+|+|||||+..++.......+.+.|
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            46799999999999999999998887665444555543

>PRK13409 putative ATPase RIL; Provisional

Probab=97.85  E-value=0.0001  Score=74.49  Aligned_cols=37  Identities=27%  Similarity=0.355  Sum_probs=29.8

Q ss_pred             CCCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeE
Q 021239          115 GGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYC  151 (315)
Q Consensus       115 GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v  151 (315)
                      +-+.+|+++.|.|++|+|||||+..++.......+.+
T Consensus       360 ~~i~~Geiv~l~G~NGsGKSTLlk~L~Gl~~p~~G~I  396 (590)
T PRK13409        360 GEIYEGEVIGIVGPNGIGKTTFAKLLAGVLKPDEGEV  396 (590)
T ss_pred             eEECCCCEEEEECCCCCCHHHHHHHHhCCCCCCceEE
Confidence            3578999999999999999999998887654444443

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=97.85  E-value=9.9e-05  Score=76.54  Aligned_cols=121  Identities=18%  Similarity=0.202  Sum_probs=69.4

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCChHHHHHcCCCCCCeEEeCCCCHHHHHHHHHHHHH
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTK  195 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~~~~~~~g~~~~~l~i~~~~~~e~~~~~i~~l~~  195 (315)
                      |+++..-++|+||||+|||+++..+|...   +.+.+.+...+     ...           ......+..+..+-....
T Consensus       483 g~~~~~giLL~GppGtGKT~lakalA~e~---~~~fi~v~~~~-----l~~-----------~~vGese~~i~~~f~~A~  543 (733)
T TIGR01243       483 GIRPPKGVLLFGPPGTGKTLLAKAVATES---GANFIAVRGPE-----ILS-----------KWVGESEKAIREIFRKAR  543 (733)
T ss_pred             CCCCCceEEEECCCCCCHHHHHHHHHHhc---CCCEEEEehHH-----Hhh-----------cccCcHHHHHHHHHHHHH
Confidence            55666669999999999999999998775   33333333211     100           011122333333333445


Q ss_pred             cCCccEEeehhHhhhccccccCCCccCCChHHHHHHHHHHHHHHHHHHhccCcEEEEEecccccc
Q 021239          196 SGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVRFSA  260 (315)
Q Consensus       196 ~~~~~lVVIDsl~~l~~~~~~~~~~~~~~~~~q~r~i~~~l~~L~~~~~~~~i~VI~inq~~~~~  260 (315)
                      ...+.+|+||.+..+.+......     ......+.+.+.|..+..+....++.||.++.--..+
T Consensus       544 ~~~p~iifiDEid~l~~~r~~~~-----~~~~~~~~~~~lL~~ldg~~~~~~v~vI~aTn~~~~l  603 (733)
T TIGR01243       544 QAAPAIIFFDEIDAIAPARGARF-----DTSVTDRIVNQLLTEMDGIQELSNVVVIAATNRPDIL  603 (733)
T ss_pred             hcCCEEEEEEChhhhhccCCCCC-----CccHHHHHHHHHHHHhhcccCCCCEEEEEeCCChhhC
Confidence            56789999999999985221110     1112234455566665544445677777776554444

This subfamily of the AAA family ATPases includes two members each from three archaeal species. It also includes yeast CDC48 (cell division control protein 48) and the human ortholog, transitional endoplasmic reticulum ATPase (valosin-containing protein). These proteins in eukaryotes are involved in the budding and transfer of membrane from the transitional endoplasmic reticulum to the Golgi apparatus.

>TIGR00972 3a0107s01c2 phosphate ABC transporter, ATP-binding protein

Probab=97.84  E-value=9.1e-05  Score=66.45  Aligned_cols=32  Identities=22%  Similarity=0.433  Sum_probs=27.3

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhc
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKL  147 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~  147 (315)
                      -+++|+++.|.|++|+|||||+..++......
T Consensus        23 ~i~~Ge~~~i~G~nGsGKSTLl~~l~G~~~p~   54 (247)
T TIGR00972        23 DIPKNQVTALIGPSGCGKSTLLRSLNRMNDLV   54 (247)
T ss_pred             EECCCCEEEEECCCCCCHHHHHHHHhccCCCC
Confidence            36799999999999999999998887665443

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.

>TIGR01241 FtsH_fam ATP-dependent metalloprotease FtsH

Probab=97.84  E-value=4.8e-05  Score=75.34  Aligned_cols=117  Identities=20%  Similarity=0.170  Sum_probs=61.1

Q ss_pred             cEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCChHHHHH-cCCCCCCeEEeCCCCHHHHHHHHHHHHHcCCc
Q 021239          121 RIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEA-MGIDAENLLIAQPDSAENLLSVVDTLTKSGSI  199 (315)
Q Consensus       121 ~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~~~~~~-~g~~~~~l~i~~~~~~e~~~~~i~~l~~~~~~  199 (315)
                      .-++|+||||+|||+++..+|..+   +.+.++++..+     .... .|           .....+...+.. .....+
T Consensus        89 ~giLL~GppGtGKT~la~alA~~~---~~~~~~i~~~~-----~~~~~~g-----------~~~~~l~~~f~~-a~~~~p  148 (495)
T TIGR01241        89 KGVLLVGPPGTGKTLLAKAVAGEA---GVPFFSISGSD-----FVEMFVG-----------VGASRVRDLFEQ-AKKNAP  148 (495)
T ss_pred             CcEEEECCCCCCHHHHHHHHHHHc---CCCeeeccHHH-----HHHHHhc-----------ccHHHHHHHHHH-HHhcCC
Confidence            348999999999999999997664   44444444211     1110 11           011222222222 234578


Q ss_pred             cEEeehhHhhhccccccCCCccCCChHHHHHHHHHHHHHHHHHHhccCcEEEEEecccccc
Q 021239          200 DVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVRFSA  260 (315)
Q Consensus       200 ~lVVIDsl~~l~~~~~~~~~~~~~~~~~q~r~i~~~l~~L~~~~~~~~i~VI~inq~~~~~  260 (315)
                      .+|+||.+..+...... +.. .. .....+.+.+++..+..+....++.||.+++--..+
T Consensus       149 ~Il~iDEid~l~~~r~~-~~~-~~-~~~~~~~~~~lL~~~d~~~~~~~v~vI~aTn~~~~l  206 (495)
T TIGR01241       149 CIIFIDEIDAVGRQRGA-GLG-GG-NDEREQTLNQLLVEMDGFGTNTGVIVIAATNRPDVL  206 (495)
T ss_pred             CEEEEechhhhhhcccc-CcC-Cc-cHHHHHHHHHHHhhhccccCCCCeEEEEecCChhhc
Confidence            99999999998742211 100 00 111223344455544333344567677665544333

HflB(FtsH) is a pleiotropic protein required for correct cell division in bacteria. It has ATP-dependent zinc metalloprotease activity. It was formerly designated cell division protein FtsH.

>COG1435 Tdk Thymidine kinase [Nucleotide transport and metabolism]

Probab=97.84  E-value=0.00018  Score=61.63  Aligned_cols=115  Identities=17%  Similarity=0.229  Sum_probs=82.2

Q ss_pred             CCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCC--h-HHHHHcCCCCCCeEEeCCCCHHHHHHHHHHHH
Q 021239          118 PKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALD--P-SLAEAMGIDAENLLIAQPDSAENLLSVVDTLT  194 (315)
Q Consensus       118 ~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~--~-~~~~~~g~~~~~l~i~~~~~~e~~~~~i~~l~  194 (315)
                      ..|.+..++||=.+|||+-+++-+.++...|.+++.|-..-...  . ....+.|...+...+.   +..++++.+...-
T Consensus         2 ~~g~l~~i~gpM~SGKT~eLl~r~~~~~~~g~~v~vfkp~iD~R~~~~~V~Sr~G~~~~A~~i~---~~~~i~~~i~~~~   78 (201)
T COG1435           2 KMGWLEFIYGPMFSGKTEELLRRARRYKEAGMKVLVFKPAIDTRYGVGKVSSRIGLSSEAVVIP---SDTDIFDEIAALH   78 (201)
T ss_pred             ceEEEEEEEccCcCcchHHHHHHHHHHHHcCCeEEEEecccccccccceeeeccCCcccceecC---ChHHHHHHHHhcc
Confidence            35889999999999999999999999999999998887543221  1 3455667766655554   4566777776654


Q ss_pred             HcCCccEEeehhHhhhccccccCCCccCCChHHHHHHHHHHHHHHHHHHhccCcEEEEEecc
Q 021239          195 KSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQV  256 (315)
Q Consensus       195 ~~~~~~lVVIDsl~~l~~~~~~~~~~~~~~~~~q~r~i~~~l~~L~~~~~~~~i~VI~inq~  256 (315)
                      .....+.|.||..+-+-.                  ++...|.+|   +.++|++|++-.-.
T Consensus        79 ~~~~~~~v~IDEaQF~~~------------------~~v~~l~~l---ad~lgi~Vi~~GL~  119 (201)
T COG1435          79 EKPPVDCVLIDEAQFFDE------------------ELVYVLNEL---ADRLGIPVICYGLD  119 (201)
T ss_pred             cCCCcCEEEEehhHhCCH------------------HHHHHHHHH---HhhcCCEEEEeccc
Confidence            444478999999997752                  133444444   47889999876544

>TIGR00362 DnaA chromosomal replication initiator protein DnaA

Probab=97.84  E-value=0.00015  Score=69.86  Aligned_cols=75  Identities=21%  Similarity=0.280  Sum_probs=49.9

Q ss_pred             CcEEEEEecCCCChhHHHHHHHHHHHhc--CCeEEEEecCCCCChHHHHHcCCCCCCeEEeCCCCHHHHHHHHHHHHHcC
Q 021239          120 GRIVEIYGREASGKTTLALHVIKEAQKL--GGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTKSG  197 (315)
Q Consensus       120 G~i~~i~G~~GsGKTtlal~la~~~~~~--g~~v~~i~~E~~~~~~~~~~~g~~~~~l~i~~~~~~e~~~~~i~~l~~~~  197 (315)
                      +..++|+|++|+|||+|+..++..+...  +.+++|++.+.-. ......+.          ....+++...++      
T Consensus       136 ~n~l~l~G~~G~GKThL~~ai~~~l~~~~~~~~v~yi~~~~~~-~~~~~~~~----------~~~~~~~~~~~~------  198 (405)
T TIGR00362       136 YNPLFIYGGVGLGKTHLLHAIGNEILENNPNAKVVYVSSEKFT-NDFVNALR----------NNKMEEFKEKYR------  198 (405)
T ss_pred             CCeEEEECCCCCcHHHHHHHHHHHHHHhCCCCcEEEEEHHHHH-HHHHHHHH----------cCCHHHHHHHHH------
Confidence            4568999999999999999998888765  6789999865321 11222111          012333332222      


Q ss_pred             CccEEeehhHhhhc
Q 021239          198 SIDVIVVDSVAALI  211 (315)
Q Consensus       198 ~~~lVVIDsl~~l~  211 (315)
                      .+++++||.++.+.
T Consensus       199 ~~dlLiiDDi~~l~  212 (405)
T TIGR00362       199 SVDLLLIDDIQFLA  212 (405)
T ss_pred             hCCEEEEehhhhhc
Confidence            47899999999875

DnaA is involved in DNA biosynthesis; initiation of chromosome replication and can also be transcription regulator. The C-terminal of the family hits the pfam bacterial DnaA (bac_dnaA) domain family. For a review, see Kaguni (2006).

>PRK13541 cytochrome c biogenesis protein CcmA; Provisional

Probab=97.84  E-value=0.00013  Score=63.06  Aligned_cols=37  Identities=22%  Similarity=0.188  Sum_probs=30.0

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEE
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCA  152 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~  152 (315)
                      =+++|+++.|.|++|+|||||+..++.......+.+.
T Consensus        22 ~i~~Ge~~~l~G~nGsGKSTLl~~l~G~~~~~~G~i~   58 (195)
T PRK13541         22 TFLPSAITYIKGANGCGKSSLLRMIAGIMQPSSGNIY   58 (195)
T ss_pred             EEcCCcEEEEECCCCCCHHHHHHHHhcCCCCCCcEEE
Confidence            3679999999999999999999988876555555543

>PRK14267 phosphate ABC transporter ATP-binding protein; Provisional

Probab=97.83  E-value=0.00012  Score=65.88  Aligned_cols=30  Identities=20%  Similarity=0.382  Sum_probs=26.3

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHH
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQ  145 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~  145 (315)
                      -+.+|+++.|.|++|+|||||+..++....
T Consensus        26 ~i~~Ge~~~l~G~nGsGKSTLl~~l~G~~~   55 (253)
T PRK14267         26 KIPQNGVFALMGPSGCGKSTLLRTFNRLLE   55 (253)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhccCC
Confidence            367999999999999999999988877654

>TIGR02857 CydD thiol reductant ABC exporter, CydD subunit

Probab=97.82  E-value=8.6e-05  Score=74.04  Aligned_cols=37  Identities=27%  Similarity=0.366  Sum_probs=30.9

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEE
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCA  152 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~  152 (315)
                      -+++|+.+.|.|++|+|||||+..++.......+.+.
T Consensus       344 ~i~~G~~~~ivG~sGsGKSTL~~ll~g~~~~~~G~I~  380 (529)
T TIGR02857       344 TVPPGERVALVGPSGAGKSTLLNLLLGFVDPTEGSIA  380 (529)
T ss_pred             EECCCCEEEEECCCCCCHHHHHHHHhcCCCCCCcEEE
Confidence            3679999999999999999999988877766555554

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

>PRK00149 dnaA chromosomal replication initiation protein; Reviewed

Probab=97.82  E-value=0.00022  Score=69.84  Aligned_cols=75  Identities=21%  Similarity=0.278  Sum_probs=50.3

Q ss_pred             CcEEEEEecCCCChhHHHHHHHHHHHhc--CCeEEEEecCCCCChHHHHHcCCCCCCeEEeCCCCHHHHHHHHHHHHHcC
Q 021239          120 GRIVEIYGREASGKTTLALHVIKEAQKL--GGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTKSG  197 (315)
Q Consensus       120 G~i~~i~G~~GsGKTtlal~la~~~~~~--g~~v~~i~~E~~~~~~~~~~~g~~~~~l~i~~~~~~e~~~~~i~~l~~~~  197 (315)
                      ...+.|+|++|+|||+|+..++..+...  +.+++|++.+.-.. .....+.          ....+++.+.+      .
T Consensus       148 ~~~l~l~G~~G~GKThL~~ai~~~~~~~~~~~~v~yi~~~~~~~-~~~~~~~----------~~~~~~~~~~~------~  210 (450)
T PRK00149        148 YNPLFIYGGVGLGKTHLLHAIGNYILEKNPNAKVVYVTSEKFTN-DFVNALR----------NNTMEEFKEKY------R  210 (450)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEEEHHHHHH-HHHHHHH----------cCcHHHHHHHH------h
Confidence            3568999999999999999999888776  67899998654221 1222211          01223332222      2


Q ss_pred             CccEEeehhHhhhc
Q 021239          198 SIDVIVVDSVAALI  211 (315)
Q Consensus       198 ~~~lVVIDsl~~l~  211 (315)
                      .+++++||.++.+.
T Consensus       211 ~~dlLiiDDi~~l~  224 (450)
T PRK00149        211 SVDVLLIDDIQFLA  224 (450)
T ss_pred             cCCEEEEehhhhhc
Confidence            58999999999875

>cd03114 ArgK-like The function of this protein family is unkown

Probab=97.82  E-value=0.00011  Score=60.84  Aligned_cols=39  Identities=26%  Similarity=0.325  Sum_probs=34.9

Q ss_pred             EEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCC
Q 021239          123 VEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALD  161 (315)
Q Consensus       123 ~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~  161 (315)
                      +.+.|++|+||||++..++......|.++++++.+....
T Consensus         2 i~~~G~~GsGKTt~~~~l~~~~~~~g~~v~ii~~D~~~~   40 (148)
T cd03114           2 IGITGVPGAGKSTLIDALITALRARGKRVAVLAIDPSSP   40 (148)
T ss_pred             EEEECCCCCcHHHHHHHHHHHHHHCCCEEEEEEeCCCCC
Confidence            678999999999999999999999999999999886443

The protein sequences are similar to the ArgK protein in E. coli. ArgK protein is a membrane ATPase which is required for transporting arginine, ornithine and lysine into the cells by the arginine and ornithine (AO system) and lysine, arginine and ornithine (LAO) transport systems.

>PRK13641 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=97.81  E-value=8e-05  Score=68.49  Aligned_cols=36  Identities=31%  Similarity=0.403  Sum_probs=29.0

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeE
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYC  151 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v  151 (315)
                      -+++|+++.|.|++|+|||||+..++.......+.+
T Consensus        29 ~i~~Ge~~~iiG~NGaGKSTLl~~l~Gl~~p~~G~i   64 (287)
T PRK13641         29 ELEEGSFVALVGHTGSGKSTLMQHFNALLKPSSGTI   64 (287)
T ss_pred             EEeCCCEEEEECCCCCCHHHHHHHHhcCCCCCCcEE
Confidence            367999999999999999999988876554444444

>PRK15093 antimicrobial peptide ABC transporter ATP-binding protein; Provisional

Probab=97.81  E-value=0.0001  Score=69.25  Aligned_cols=29  Identities=28%  Similarity=0.414  Sum_probs=25.7

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHH
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEA  144 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~  144 (315)
                      -+.+|+++.|.|++|+|||||+..++...
T Consensus        29 ~i~~Ge~~~ivG~sGsGKSTLl~~i~Gl~   57 (330)
T PRK15093         29 TLTEGEIRGLVGESGSGKSLIAKAICGVT   57 (330)
T ss_pred             EECCCCEEEEECCCCCCHHHHHHHHHccC
Confidence            36799999999999999999998887654

>PRK14087 dnaA chromosomal replication initiation protein; Provisional

Probab=97.81  E-value=0.00016  Score=70.65  Aligned_cols=105  Identities=15%  Similarity=0.173  Sum_probs=61.9

Q ss_pred             cEEEEEecCCCChhHHHHHHHHHHHh--cCCeEEEEecCCCCChHHHHHcCCCCCCeEEeCCCCHHHHHHHHHHHHHcCC
Q 021239          121 RIVEIYGREASGKTTLALHVIKEAQK--LGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTKSGS  198 (315)
Q Consensus       121 ~i~~i~G~~GsGKTtlal~la~~~~~--~g~~v~~i~~E~~~~~~~~~~~g~~~~~l~i~~~~~~e~~~~~i~~l~~~~~  198 (315)
                      .-+.|+|++|+|||+|+..++..+..  .+.+|+|++.++-. ......++-.           .+.+ +.+.+.  -..
T Consensus       142 npl~i~G~~G~GKTHLl~Ai~~~l~~~~~~~~v~yv~~~~f~-~~~~~~l~~~-----------~~~~-~~~~~~--~~~  206 (450)
T PRK14087        142 NPLFIYGESGMGKTHLLKAAKNYIESNFSDLKVSYMSGDEFA-RKAVDILQKT-----------HKEI-EQFKNE--ICQ  206 (450)
T ss_pred             CceEEECCCCCcHHHHHHHHHHHHHHhCCCCeEEEEEHHHHH-HHHHHHHHHh-----------hhHH-HHHHHH--hcc
Confidence            45889999999999999888776553  47899999975422 1222222100           0111 111111  136


Q ss_pred             ccEEeehhHhhhccccccCCCccCCChHHHHHHHHHHHHHHHHHHhccCcEEEEEecc
Q 021239          199 IDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQV  256 (315)
Q Consensus       199 ~~lVVIDsl~~l~~~~~~~~~~~~~~~~~q~r~i~~~l~~L~~~~~~~~i~VI~inq~  256 (315)
                      +++++||.++.+....            .    ....+..+.+...+.+..+|++++.
T Consensus       207 ~dvLiIDDiq~l~~k~------------~----~~e~lf~l~N~~~~~~k~iIltsd~  248 (450)
T PRK14087        207 NDVLIIDDVQFLSYKE------------K----TNEIFFTIFNNFIENDKQLFFSSDK  248 (450)
T ss_pred             CCEEEEeccccccCCH------------H----HHHHHHHHHHHHHHcCCcEEEECCC
Confidence            8999999998775210            1    1233444445556667777777654

>TIGR03796 NHPM_micro_ABC1 NHPM bacteriocin system ABC transporter, peptidase/ATP-binding protein

Probab=97.81  E-value=6.3e-05  Score=77.73  Aligned_cols=36  Identities=33%  Similarity=0.348  Sum_probs=30.5

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEE
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCA  152 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~  152 (315)
                      +++|+.+.|.|++|+|||||+..++.......|.+.
T Consensus       502 i~~Ge~vaIvG~sGsGKSTLlklL~gl~~p~~G~I~  537 (710)
T TIGR03796       502 LQPGQRVALVGGSGSGKSTIAKLVAGLYQPWSGEIL  537 (710)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhcCCCCCCcEEE
Confidence            679999999999999999999888877766555544

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.

>COG1117 PstB ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=97.81  E-value=0.0002  Score=62.38  Aligned_cols=58  Identities=22%  Similarity=0.336  Sum_probs=38.1

Q ss_pred             CCCCCCcEEEEEecCCCChhHHHHHHHHHHHh-----cCCeEEEEecCCCCC----h-HHHHHcCCCCC
Q 021239          115 GGLPKGRIVEIYGREASGKTTLALHVIKEAQK-----LGGYCAYLDVENALD----P-SLAEAMGIDAE  173 (315)
Q Consensus       115 GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~-----~g~~v~~i~~E~~~~----~-~~~~~~g~~~~  173 (315)
                      ..++++.++.|.||+|||||||+..+-.-.-.     -.+.+.| +.++-..    . ...+++|+..+
T Consensus        28 l~i~~~~VTAlIGPSGcGKST~LR~lNRmndl~~~~r~~G~v~~-~g~ni~~~~~d~~~lRr~vGMVFQ   95 (253)
T COG1117          28 LDIPKNKVTALIGPSGCGKSTLLRCLNRMNDLIPGARVEGEVLL-DGKNIYDPKVDVVELRRRVGMVFQ   95 (253)
T ss_pred             eeccCCceEEEECCCCcCHHHHHHHHHhhcccCcCceEEEEEEE-CCeeccCCCCCHHHHHHHheeecc
Confidence            37899999999999999999999876443321     1244444 3333322    2 45667777654

>TIGR00962 atpA proton translocating ATP synthase, F1 alpha subunit

Probab=97.80  E-value=0.00014  Score=71.65  Aligned_cols=114  Identities=18%  Similarity=0.350  Sum_probs=74.3

Q ss_pred             CCCCCccccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCCh--HHHHHc---C
Q 021239           95 SRRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP--SLAEAM---G  169 (315)
Q Consensus        95 ~~~~~~i~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~--~~~~~~---g  169 (315)
                      ....+.+.||+..+|-++.   +-+|.-..|.|++|+|||+|++.++.+....+-.|+|...-+....  +..+.+   +
T Consensus       139 ~~i~~pl~TGi~aID~l~p---igrGQr~~I~g~~g~GKt~Lal~~i~~~~~~dv~~V~~~IGer~rev~e~~~~~~~~~  215 (501)
T TIGR00962       139 KSVHEPLQTGIKAIDAMIP---IGRGQRELIIGDRQTGKTAVAIDTIINQKDSDVYCVYVAIGQKASTVAQVVRKLEEHG  215 (501)
T ss_pred             CCcCceeccCCceeeccCC---cccCCEEEeecCCCCCccHHHHHHHHhhcCCCeEEEEEEccCChHHHHHHHHHHHhcC
Confidence            4556789999999999987   7799999999999999999988777666555556788876555443  222222   2


Q ss_pred             CCCCCeEEe-CCCC--HHHHH------HHHHHHHHcCCccEEeehhHhhhc
Q 021239          170 IDAENLLIA-QPDS--AENLL------SVVDTLTKSGSIDVIVVDSVAALI  211 (315)
Q Consensus       170 ~~~~~l~i~-~~~~--~e~~~------~~i~~l~~~~~~~lVVIDsl~~l~  211 (315)
                      .-..-+.+. ..+.  .....      .+.+.+..++.--++++|+++.+.
T Consensus       216 ~l~~tvvV~atsd~p~~~r~~a~~~a~aiAEyfrd~G~~VLlv~Ddltr~A  266 (501)
T TIGR00962       216 AMDYTIVVAATASDSASLQYLAPYTGCTMAEYFRDNGKHALIIYDDLSKHA  266 (501)
T ss_pred             ccceeEEEEecCCCCHHHHHHHHHHHHHHHHHHHHcCCCEEEEecchHHHH
Confidence            111222222 2222  22221      223334445566799999999875

The sequences of ATP synthase F1 alpha and beta subunits are related and both contain a nucleotide-binding site for ATP and ADP. They have a common amino terminal domain but vary at the C-terminus. The beta chain has catalytic activity, while the alpha chain is a regulatory subunit. The alpha-subunit contains a highly conserved adenine-specific noncatalytic nucleotide-binding domain. The conserved amino acid sequence is Gly-X-X-X-X-Gly-Lys. Proton translocating ATP synthase F1, alpha subunit is homologous to proton translocating ATP synthase archaeal/vacuolar(V1), B subunit.

>PRK10790 putative multidrug transporter membrane\ATP-binding components; Provisional

Probab=97.80  E-value=0.00011  Score=74.43  Aligned_cols=36  Identities=28%  Similarity=0.332  Sum_probs=31.0

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEE
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCA  152 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~  152 (315)
                      +++|+.+.|.|++|+|||||+..++......+|.+.
T Consensus       364 i~~Ge~iaIvG~SGsGKSTLl~lL~gl~~p~~G~I~  399 (592)
T PRK10790        364 VPSRGFVALVGHTGSGKSTLASLLMGYYPLTEGEIR  399 (592)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhcccCCCCceEE
Confidence            679999999999999999999998887766666554

>KOG0739 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=97.79  E-value=6.8e-05  Score=68.15  Aligned_cols=89  Identities=22%  Similarity=0.360  Sum_probs=62.1

Q ss_pred             cccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCChHHHHHcCCCCCCeEEeCC
Q 021239          101 ISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQP  180 (315)
Q Consensus       101 i~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~~~~~~~g~~~~~l~i~~~  180 (315)
                      +|--+|.|   +. |+-.|=.-++++||||+|||-||...|.++-     ..||+...+  ....+-+|           
T Consensus       151 LPIKFPql---Ft-GkR~PwrgiLLyGPPGTGKSYLAKAVATEAn-----STFFSvSSS--DLvSKWmG-----------  208 (439)
T KOG0739|consen  151 LPIKFPQL---FT-GKRKPWRGILLYGPPGTGKSYLAKAVATEAN-----STFFSVSSS--DLVSKWMG-----------  208 (439)
T ss_pred             ecccchhh---hc-CCCCcceeEEEeCCCCCcHHHHHHHHHhhcC-----CceEEeehH--HHHHHHhc-----------
Confidence            44445543   44 6777777899999999999999988877662     456663211  12222222           


Q ss_pred             CCHHHHHHHHHHHHHcCCccEEeehhHhhhcc
Q 021239          181 DSAENLLSVVDTLTKSGSIDVIVVDSVAALIP  212 (315)
Q Consensus       181 ~~~e~~~~~i~~l~~~~~~~lVVIDsl~~l~~  212 (315)
                       ..|.++..+-++.+++.|.+|+||.+..+..
T Consensus       209 -ESEkLVknLFemARe~kPSIIFiDEiDslcg  239 (439)
T KOG0739|consen  209 -ESEKLVKNLFEMARENKPSIIFIDEIDSLCG  239 (439)
T ss_pred             -cHHHHHHHHHHHHHhcCCcEEEeehhhhhcc
Confidence             3466777777777888999999999998873

>PRK13343 F0F1 ATP synthase subunit alpha; Provisional

Probab=97.79  E-value=0.00011  Score=72.07  Aligned_cols=114  Identities=18%  Similarity=0.302  Sum_probs=74.4

Q ss_pred             CCCCCccccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCCh--HHHHHc---C
Q 021239           95 SRRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP--SLAEAM---G  169 (315)
Q Consensus        95 ~~~~~~i~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~--~~~~~~---g  169 (315)
                      ....+.+.||+..+|.++.   +-+|.-..|.|++|+|||++++.++.+....+-.|+|...-+....  +..+.+   +
T Consensus       140 ~~v~epl~TGIkaID~l~p---igrGQR~~I~g~~g~GKt~Lal~~i~~~~~~dv~~V~~~IGer~rev~e~~~~l~~~~  216 (502)
T PRK13343        140 DFVTEPLQTGIKVVDALIP---IGRGQRELIIGDRQTGKTAIAIDAIINQKDSDVICVYVAIGQKASAVARVIETLREHG  216 (502)
T ss_pred             CCCCcccccCCceeccccc---cccCCEEEeeCCCCCCccHHHHHHHHhhcCCCEEEEEEEeccChHHHHHHHHHHHhcC
Confidence            4457889999999999987   7799999999999999999988777766555555678776554433  222222   2


Q ss_pred             CCCCCeEEe-CCC--CHHHHH------HHHHHHHHcCCccEEeehhHhhhc
Q 021239          170 IDAENLLIA-QPD--SAENLL------SVVDTLTKSGSIDVIVVDSVAALI  211 (315)
Q Consensus       170 ~~~~~l~i~-~~~--~~e~~~------~~i~~l~~~~~~~lVVIDsl~~l~  211 (315)
                      .-..-+.+. ..+  +..+..      .+.+.+..++.--++++|+++.+.
T Consensus       217 ~l~~tvvV~atsd~~~~~r~~ap~~a~aiAEyfrd~G~~VLlv~DdlTr~A  267 (502)
T PRK13343        217 ALEYTTVVVAEASDPPGLQYLAPFAGCAIAEYFRDQGQDALIVYDDLSKHA  267 (502)
T ss_pred             ccceeEEEEecccccHHHHHHHHHHHHHHHHHHHhCCCCEEEEecchHHHH
Confidence            111222232 222  222222      223444556667799999999875

>PRK10982 galactose/methyl galaxtoside transporter ATP-binding protein; Provisional

Probab=97.79  E-value=6.8e-05  Score=74.13  Aligned_cols=36  Identities=25%  Similarity=0.257  Sum_probs=28.7

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeE
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYC  151 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v  151 (315)
                      -+++|+++.|.|++|+|||||+..++.......+.+
T Consensus        20 ~i~~Ge~~~liG~nGsGKSTLl~~l~Gl~~p~~G~i   55 (491)
T PRK10982         20 KVRPHSIHALMGENGAGKSTLLKCLFGIYQKDSGSI   55 (491)
T ss_pred             EEcCCcEEEEECCCCCCHHHHHHHHcCCCCCCceEE
Confidence            367999999999999999999988876554434444

>PRK10261 glutathione transporter ATP-binding protein; Provisional

Probab=97.79  E-value=8.5e-05  Score=75.64  Aligned_cols=37  Identities=24%  Similarity=0.424  Sum_probs=29.6

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEE
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAY  153 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~  153 (315)
                      +++|+++.|.|++|+|||||+..++.......+.+.|
T Consensus       347 i~~Ge~~~lvG~nGsGKSTLlk~i~Gl~~p~~G~I~~  383 (623)
T PRK10261        347 LWPGETLSLVGESGSGKSTTGRALLRLVESQGGEIIF  383 (623)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHHcCCCCCCcEEEE
Confidence            5799999999999999999998887665444455544

>CHL00059 atpA ATP synthase CF1 alpha subunit

Probab=97.79  E-value=0.0001  Score=71.86  Aligned_cols=114  Identities=16%  Similarity=0.288  Sum_probs=73.6

Q ss_pred             CCCCCccccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCCh--HHHHHc-CCC
Q 021239           95 SRRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP--SLAEAM-GID  171 (315)
Q Consensus        95 ~~~~~~i~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~--~~~~~~-g~~  171 (315)
                      ....+.+.||+..+|.++.   +-+|.-..|.|++|+|||++|+.++.+....+-.|+|...-+....  +..+.+ +-.
T Consensus       119 ~~v~epl~TGI~aID~l~p---igrGQR~~I~g~~g~GKt~Lal~~I~~q~~~dv~cV~~~IGer~rev~e~~~~l~~~~  195 (485)
T CHL00059        119 RSVYEPLQTGLIAIDSMIP---IGRGQRELIIGDRQTGKTAVATDTILNQKGQNVICVYVAIGQKASSVAQVVTTLQERG  195 (485)
T ss_pred             cCCCcccccCceeeccccc---cccCCEEEeecCCCCCHHHHHHHHHHhcccCCeEEEEEEecCCchHHHHHHHHhhccc
Confidence            4557789999999999997   6689999999999999999988877766555567788776554443  222222 111


Q ss_pred             -CCC-eEE-eCCC--CHHHH------HHHHHHHHHcCCccEEeehhHhhhc
Q 021239          172 -AEN-LLI-AQPD--SAENL------LSVVDTLTKSGSIDVIVVDSVAALI  211 (315)
Q Consensus       172 -~~~-l~i-~~~~--~~e~~------~~~i~~l~~~~~~~lVVIDsl~~l~  211 (315)
                       .++ +.+ ...+  ...+.      ..+.+.+..++.--++++|+++.+.
T Consensus       196 ~l~~tvvV~atad~~~~~r~~ap~~a~aiAEyfr~~G~~VLlv~DdlTr~A  246 (485)
T CHL00059        196 AMEYTIVVAETADSPATLQYLAPYTGAALAEYFMYRGRHTLIIYDDLSKQA  246 (485)
T ss_pred             chhceEEEEeCCCCCHHHHHHHHHHHhhHHHHHHHcCCCEEEEEcChhHHH
Confidence             122 222 2222  22222      2223344445566788889998775

>TIGR03269 met_CoM_red_A2 methyl coenzyme M reductase system, component A2

Probab=97.78  E-value=0.0001  Score=73.40  Aligned_cols=38  Identities=24%  Similarity=0.424  Sum_probs=30.0

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHH--HhcCCeEEE
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEA--QKLGGYCAY  153 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~--~~~g~~v~~  153 (315)
                      -+.+|+++.|.||+|+|||||+..++...  ....+.+.|
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            46799999999999999999999888875  233445443

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.

>PRK11288 araG L-arabinose transporter ATP-binding protein; Provisional

Probab=97.78  E-value=7e-05  Score=74.26  Aligned_cols=37  Identities=22%  Similarity=0.267  Sum_probs=29.9

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEE
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCA  152 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~  152 (315)
                      -+++|+++.|.|++|+|||||+..++.......+.+.
T Consensus        26 ~i~~Ge~~~l~G~nGsGKSTLl~~l~Gl~~p~~G~I~   62 (501)
T PRK11288         26 DCRAGQVHALMGENGAGKSTLLKILSGNYQPDAGSIL   62 (501)
T ss_pred             EEeCCcEEEEECCCCCCHHHHHHHHhCCCCCCCCEEE
Confidence            4779999999999999999999988876544444543

>COG2401 ABC-type ATPase fused to a predicted acetyltransferase domain [General function prediction only]

Probab=97.78  E-value=0.00021  Score=67.81  Aligned_cols=127  Identities=17%  Similarity=0.248  Sum_probs=73.2

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHhcCC--------eE--------EEEecCC--CCCh-HHHHHcCCCCCC---
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGG--------YC--------AYLDVEN--ALDP-SLAEAMGIDAEN---  174 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~--------~v--------~~i~~E~--~~~~-~~~~~~g~~~~~---  174 (315)
                      +.+|+++.|.|++|+||||+...++..+...++        +|        +.+..|.  .+.. ...+.++-++.+   
T Consensus       406 ikpGdvvaVvGqSGaGKttllRmi~G~~~~~~ee~y~p~sg~v~vp~nt~~a~iPge~Ep~f~~~tilehl~s~tGD~~~  485 (593)
T COG2401         406 IKPGDVVAVVGQSGAGKTTLLRMILGAQKGRGEEKYRPDSGKVEVPKNTVSALIPGEYEPEFGEVTILEHLRSKTGDLNA  485 (593)
T ss_pred             ecCCCeEEEEecCCCCcchHHHHHHHHhhcccccccCCCCCceeccccchhhccCcccccccCchhHHHHHhhccCchhH
Confidence            679999999999999999999888877765443        11        1111111  1110 122222211111   


Q ss_pred             -------------eEEe----CCCCHHHHHHHHHHHHHcCCccEEeehhHhhhccccccCCCccCCChHHHHHHHHHHHH
Q 021239          175 -------------LLIA----QPDSAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALR  237 (315)
Q Consensus       175 -------------l~i~----~~~~~e~~~~~i~~l~~~~~~~lVVIDsl~~l~~~~~~~~~~~~~~~~~q~r~i~~~l~  237 (315)
                                   +.+.    +..+...-...+..++ ..++.++++|.+.++...             .   ...+..+
T Consensus       486 AveILnraGlsDAvlyRr~f~ELStGQKeR~KLAkll-aerpn~~~iDEF~AhLD~-------------~---TA~rVAr  548 (593)
T COG2401         486 AVEILNRAGLSDAVLYRRKFSELSTGQKERAKLAKLL-AERPNVLLIDEFAAHLDE-------------L---TAVRVAR  548 (593)
T ss_pred             HHHHHHhhccchhhhhhccHhhcCcchHHHHHHHHHH-hcCCCcEEhhhhhhhcCH-------------H---HHHHHHH
Confidence                         0110    0111111122233333 347899999999988731             1   1335677


Q ss_pred             HHHHHHhccCcEEEEEecccccc
Q 021239          238 KIHYSLCQSHTLIIFLNQVRFSA  260 (315)
Q Consensus       238 ~L~~~~~~~~i~VI~inq~~~~~  260 (315)
                      ++.+++++.++|++++.|--+-.
T Consensus       549 kiselaRe~giTlivvThrpEv~  571 (593)
T COG2401         549 KISELAREAGITLIVVTHRPEVG  571 (593)
T ss_pred             HHHHHHHHhCCeEEEEecCHHHH
Confidence            78888899999999988865443

>TIGR03375 type_I_sec_LssB type I secretion system ATPase, LssB family

Probab=97.78  E-value=8e-05  Score=76.75  Aligned_cols=36  Identities=33%  Similarity=0.361  Sum_probs=30.0

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEE
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCA  152 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~  152 (315)
                      +++|+.+.|.|++|+|||||+..++.......|.+.
T Consensus       488 i~~G~~iaIvG~sGsGKSTLlklL~gl~~p~~G~I~  523 (694)
T TIGR03375       488 IRPGEKVAIIGRIGSGKSTLLKLLLGLYQPTEGSVL  523 (694)
T ss_pred             ECCCCEEEEECCCCCCHHHHHHHHhcCCCCCCceEE
Confidence            679999999999999999999888877665555543

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.

>TIGR01842 type_I_sec_PrtD type I secretion system ABC transporter, PrtD family

Probab=97.78  E-value=0.00012  Score=73.25  Aligned_cols=37  Identities=30%  Similarity=0.358  Sum_probs=30.8

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEE
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCA  152 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~  152 (315)
                      =+++|+.+.|.|++|+|||||+..++.......+.+.
T Consensus       340 ~i~~G~~~~ivG~sGsGKSTL~~ll~g~~~~~~G~i~  376 (544)
T TIGR01842       340 RLQAGEALAIIGPSGSGKSTLARLIVGIWPPTSGSVR  376 (544)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhCCCCCCCceEE
Confidence            3679999999999999999999988877765555554

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.

>PRK09376 rho transcription termination factor Rho; Provisional

Probab=97.78  E-value=0.00013  Score=69.39  Aligned_cols=106  Identities=19%  Similarity=0.204  Sum_probs=69.4

Q ss_pred             ccccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHhc--CCeEEEEecCCCCCh--HHHHHcCCCCCCe
Q 021239          100 VISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKL--GGYCAYLDVENALDP--SLAEAMGIDAENL  175 (315)
Q Consensus       100 ~i~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~~--g~~v~~i~~E~~~~~--~~~~~~g~~~~~l  175 (315)
                      ..++|+..+|.++.   +-+|.-.+|.||||+|||||+..++......  +..|++...++....  ...+.+.   ..+
T Consensus       152 ~~~~~~rvID~l~P---IGkGQR~lIvgppGvGKTTLaK~Ian~I~~nhFDv~~~VvLIgER~~EVtdiqrsIl---g~v  225 (416)
T PRK09376        152 PEDLSTRIIDLIAP---IGKGQRGLIVAPPKAGKTVLLQNIANSITTNHPEVHLIVLLIDERPEEVTDMQRSVK---GEV  225 (416)
T ss_pred             Ccccceeeeeeecc---cccCceEEEeCCCCCChhHHHHHHHHHHHhhcCCeEEEEEEeCCchhHHHHHHHHhc---CcE
Confidence            47889999999987   5589999999999999999999988877754  333344444443222  2333332   133


Q ss_pred             EEeCCCC--------HHHHHHHHHHHHHcCCccEEeehhHhhhc
Q 021239          176 LIAQPDS--------AENLLSVVDTLTKSGSIDVIVVDSVAALI  211 (315)
Q Consensus       176 ~i~~~~~--------~e~~~~~i~~l~~~~~~~lVVIDsl~~l~  211 (315)
                      .....+.        ++...+..+.+...+.--+++||+++.+.
T Consensus       226 v~st~d~~~~~~~~~a~~~ie~Ae~~~e~G~dVlL~iDsItR~a  269 (416)
T PRK09376        226 VASTFDEPAERHVQVAEMVIEKAKRLVEHGKDVVILLDSITRLA  269 (416)
T ss_pred             EEECCCCCHHHHHHHHHHHHHHHHHHHHcCCCEEEEEEChHHHH
Confidence            3333221        12344445555555666699999999886

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

Probab=97.77  E-value=0.00017  Score=62.60  Aligned_cols=110  Identities=21%  Similarity=0.267  Sum_probs=62.4

Q ss_pred             CCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCChHHHHHcCCCCCCeEEeCCCCHHHHHHHHHHHH----
Q 021239          119 KGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLT----  194 (315)
Q Consensus       119 ~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~~~~~~~g~~~~~l~i~~~~~~e~~~~~i~~l~----  194 (315)
                      ...++.|.|+||+|||+++..+...+...|.+|++...-......+.+..|++...+        ..++.......    
T Consensus        17 ~~~~~~l~G~aGtGKT~~l~~~~~~~~~~g~~v~~~apT~~Aa~~L~~~~~~~a~Ti--------~~~l~~~~~~~~~~~   88 (196)
T PF13604_consen   17 GDRVSVLQGPAGTGKTTLLKALAEALEAAGKRVIGLAPTNKAAKELREKTGIEAQTI--------HSFLYRIPNGDDEGR   88 (196)
T ss_dssp             TCSEEEEEESTTSTHHHHHHHHHHHHHHTT--EEEEESSHHHHHHHHHHHTS-EEEH--------HHHTTEECCEECCSS
T ss_pred             CCeEEEEEECCCCCHHHHHHHHHHHHHhCCCeEEEECCcHHHHHHHHHhhCcchhhH--------HHHHhcCCccccccc
Confidence            356899999999999999998888887888888888865544445555555432211        00000000000    


Q ss_pred             -HcCCccEEeehhHhhhccccccCCCccCCChHHHHHHHHHHHHHHHHHHhccCcEEEEEeccc
Q 021239          195 -KSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVR  257 (315)
Q Consensus       195 -~~~~~~lVVIDsl~~l~~~~~~~~~~~~~~~~~q~r~i~~~l~~L~~~~~~~~i~VI~inq~~  257 (315)
                       ...+.++||||..+.+-.                     ..+..|...+...++-+|++-...
T Consensus        89 ~~~~~~~vliVDEasmv~~---------------------~~~~~ll~~~~~~~~klilvGD~~  131 (196)
T PF13604_consen   89 PELPKKDVLIVDEASMVDS---------------------RQLARLLRLAKKSGAKLILVGDPN  131 (196)
T ss_dssp             CC-TSTSEEEESSGGG-BH---------------------HHHHHHHHHS-T-T-EEEEEE-TT
T ss_pred             ccCCcccEEEEecccccCH---------------------HHHHHHHHHHHhcCCEEEEECCcc
Confidence             023568999998886652                     123344445567788888886543

>cd03280 ABC_MutS2 MutS2 homologs in bacteria and eukaryotes

Probab=97.77  E-value=0.0001  Score=64.08  Aligned_cols=25  Identities=28%  Similarity=0.276  Sum_probs=21.6

Q ss_pred             CC-cEEEEEecCCCChhHHHHHHHHH
Q 021239          119 KG-RIVEIYGREASGKTTLALHVIKE  143 (315)
Q Consensus       119 ~G-~i~~i~G~~GsGKTtlal~la~~  143 (315)
                      +| .++.|.||+|+|||||+..++..
T Consensus        26 ~~~~~~~ltG~Ng~GKStll~~i~~~   51 (200)
T cd03280          26 ENKRVLVITGPNAGGKTVTLKTLGLL   51 (200)
T ss_pred             CCceEEEEECCCCCChHHHHHHHHHH
Confidence            45 58999999999999999998843

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

>KOG0058 consensus Peptide exporter, ABC superfamily [Intracellular trafficking, secretion, and vesicular transport]

Probab=97.76  E-value=0.00019  Score=72.13  Aligned_cols=37  Identities=24%  Similarity=0.381  Sum_probs=29.8

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEE
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCA  152 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~  152 (315)
                      -++||+++.+.||+|+||||++.-+-.-+...+++++
T Consensus       490 ti~pGe~vALVGPSGsGKSTiasLL~rfY~PtsG~Il  526 (716)
T KOG0058|consen  490 TIRPGEVVALVGPSGSGKSTIASLLLRFYDPTSGRIL  526 (716)
T ss_pred             eeCCCCEEEEECCCCCCHHHHHHHHHHhcCCCCCeEE
Confidence            4789999999999999999999776666655555543

>PRK13546 teichoic acids export protein ATP-binding subunit; Provisional

Probab=97.76  E-value=0.00028  Score=64.11  Aligned_cols=35  Identities=23%  Similarity=0.266  Sum_probs=28.8

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeE
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYC  151 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v  151 (315)
                      +++|+++.|.|++|+|||||+..++.......+.+
T Consensus        47 i~~Ge~~~liG~NGsGKSTLlk~L~Gl~~p~~G~I   81 (264)
T PRK13546         47 AYEGDVIGLVGINGSGKSTLSNIIGGSLSPTVGKV   81 (264)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhCCcCCCceEE
Confidence            56999999999999999999998887655444443

>PRK13549 xylose transporter ATP-binding subunit; Provisional

Probab=97.76  E-value=8.2e-05  Score=73.85  Aligned_cols=30  Identities=27%  Similarity=0.372  Sum_probs=26.2

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHH
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQ  145 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~  145 (315)
                      -+.+|+++.|.||+|+|||||+..++....
T Consensus        27 ~i~~Ge~~~l~G~nGsGKSTLl~~l~Gl~~   56 (506)
T PRK13549         27 KVRAGEIVSLCGENGAGKSTLMKVLSGVYP   56 (506)
T ss_pred             EEeCCeEEEEECCCCCCHHHHHHHHhCCCC
Confidence            367999999999999999999988887554

>PF07015 VirC1: VirC1 protein; InterPro: IPR009744 This family consists of several bacterial VirC1 proteins

Probab=97.76  E-value=0.00021  Score=63.16  Aligned_cols=85  Identities=21%  Similarity=0.257  Sum_probs=58.8

Q ss_pred             EEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCCh-HHHHH---cCCCCCCeEEeCCCCHHHHHHHHHHHHHcC
Q 021239          122 IVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP-SLAEA---MGIDAENLLIAQPDSAENLLSVVDTLTKSG  197 (315)
Q Consensus       122 i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~-~~~~~---~g~~~~~l~i~~~~~~e~~~~~i~~l~~~~  197 (315)
                      ++....--|+||||.++.+|..++.+|.+|..||.+...+- .|.+.   -|.-..++.+...++...+...+.. .+..
T Consensus         4 Itf~s~KGGaGKTT~~~~LAs~la~~G~~V~lIDaDpn~pl~~W~~~a~~~~~~~~~~~V~~~~e~~~l~~~~e~-a~~~   82 (231)
T PF07015_consen    4 ITFASSKGGAGKTTAAMALASELAARGARVALIDADPNQPLAKWAENAQRPGAWPDRIEVYEADELTILEDAYEA-AEAS   82 (231)
T ss_pred             EEEecCCCCCcHHHHHHHHHHHHHHCCCeEEEEeCCCCCcHHHHHHhccccCCCCCCeeEEeccchhhHHHHHHH-HHhc
Confidence            44555667999999999999999999999999999988775 44443   2333445566555544433333333 2334


Q ss_pred             CccEEeehhH
Q 021239          198 SIDVIVVDSV  207 (315)
Q Consensus       198 ~~~lVVIDsl  207 (315)
                      ++++|+||.-
T Consensus        83 ~~d~VlvDle   92 (231)
T PF07015_consen   83 GFDFVLVDLE   92 (231)
T ss_pred             CCCEEEEeCC
Confidence            6899999974

In Agrobacterium tumefaciens, a cis-active 24-base-pair sequence adjacent to the right border of the T-DNA, called overdrive, stimulates tumour formation by increasing the level of T-DNA processing. It is thought that the virC operon, which enhances T-DNA processing probably, does so because the VirC1 protein interacts with overdrive. It has now been shown that the virC1 gene product binds to overdrive but not to the right border of T-DNA [].

>PRK13657 cyclic beta-1,2-glucan ABC transporter; Provisional

Probab=97.75  E-value=0.00013  Score=73.76  Aligned_cols=35  Identities=26%  Similarity=0.305  Sum_probs=29.2

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeE
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYC  151 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v  151 (315)
                      +++|+.+.|.|++|+|||||+..++.......+.+
T Consensus       358 i~~G~~v~IvG~sGsGKSTLl~lL~gl~~p~~G~I  392 (588)
T PRK13657        358 AKPGQTVAIVGPTGAGKSTLINLLQRVFDPQSGRI  392 (588)
T ss_pred             ECCCCEEEEECCCCCCHHHHHHHHhcCcCCCCCEE
Confidence            56999999999999999999988877766554443

>PF01580 FtsK_SpoIIIE: FtsK/SpoIIIE family; InterPro: IPR002543 The FtsK/SpoIIIE domain is found extensively in a wide variety of proteins from prokaryotes and plasmids [] some of which contain up to three copies

Probab=97.75  E-value=0.00049  Score=59.84  Aligned_cols=126  Identities=21%  Similarity=0.193  Sum_probs=68.9

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHh----cCCeEEEEecCCCCChHHHHHcCCCCCCeE-EeCCCCHHHHHHHHH
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQK----LGGYCAYLDVENALDPSLAEAMGIDAENLL-IAQPDSAENLLSVVD  191 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~----~g~~v~~i~~E~~~~~~~~~~~g~~~~~l~-i~~~~~~e~~~~~i~  191 (315)
                      +....-++|+|.+|+|||+++..++..++.    ..-.+..+|.....-..... +    ..+. +....+.+++...++
T Consensus        35 l~~~~h~li~G~tgsGKS~~l~~ll~~l~~~~~p~~~~l~iiD~k~~~l~~~~~-~----~~~~~~~~~~~~~~~~~~l~  109 (205)
T PF01580_consen   35 LKKNPHLLIAGATGSGKSTLLRTLLLSLALTYSPDDVQLYIIDPKGSDLAPLAD-L----PHVAAVAVATDPEEILRLLE  109 (205)
T ss_dssp             GGGS-SEEEE--TTSSHHHHHHHHHHHHHTT--TTTEEEEEE-TTSSCCGGGTT------TTBSS-S-B-SHHHHHHHHH
T ss_pred             cCCCceEEEEcCCCCCccHHHHHHHHHHHHHhcCCccEEEEEcCCccccchhhh-h----hhhccccccccHHHHHHHHH
Confidence            334447999999999999999999999887    44566667765431111111 0    0110 111223333222221


Q ss_pred             HHH--------------------------------------HcCCccEEeehhHhhhccccccCCCccCCChHHHHHHHH
Q 021239          192 TLT--------------------------------------KSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMT  233 (315)
Q Consensus       192 ~l~--------------------------------------~~~~~~lVVIDsl~~l~~~~~~~~~~~~~~~~~q~r~i~  233 (315)
                      .+.                                      +...+-+++||.+..+......          .....+.
T Consensus       110 ~l~~em~~R~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~iDe~~~l~~~~~~----------~~~~~~~  179 (205)
T PF01580_consen  110 ELVEEMERRQALLREAGVRNIDDYNEERGELPDDIFADPWLKELPPIFIVIDEFAALRDSAPD----------DSKKEIM  179 (205)
T ss_dssp             HHHHHHHHHHHHHHHCT-SSHHHHHHHHHHHHHTT----B-----EEEEEECTHHHHHHHHHH----------H----HH
T ss_pred             HHHHHHHHHHHHHHHcCccchhhHHHHhhhhccccccccccccCchHHHHhhhHHHHHhhcch----------hhHHHHH
Confidence            110                                      0235578999999998732111          1022356


Q ss_pred             HHHHHHHHHHhccCcEEEEEeccc
Q 021239          234 QALRKIHYSLCQSHTLIIFLNQVR  257 (315)
Q Consensus       234 ~~l~~L~~~~~~~~i~VI~inq~~  257 (315)
                      ..+.++.+..+..|+.+|+..|--
T Consensus       180 ~~l~~i~~~gR~~Gi~li~~~Q~p  203 (205)
T PF01580_consen  180 DLLARIARKGRAAGIHLILATQRP  203 (205)
T ss_dssp             HHHHHHHHHCGGGTEEEEEEESS-
T ss_pred             HHHHHHHHHHHhcCEEEEEEeCCC
Confidence            778888888899999999999863

The domain contains a putative ATP binding P-loop motif. A mutation in FtsK causes a temperature sensitive block in cell division and it is involved in peptidoglycan synthesis or modification []. The SpoIIIE protein is implicated in intercellular chromosomal DNA transfer []. ; GO: 0000166 nucleotide binding, 0003677 DNA binding, 0005524 ATP binding, 0007049 cell cycle, 0007059 chromosome segregation, 0051301 cell division, 0016021 integral to membrane; PDB: 2IUS_E 2IUU_A 2IUT_A.

>KOG0061 consensus Transporter, ABC superfamily (Breast cancer resistance protein) [Secondary metabolites biosynthesis, transport and catabolism]

Probab=97.75  E-value=0.00013  Score=74.04  Aligned_cols=32  Identities=31%  Similarity=0.414  Sum_probs=28.6

Q ss_pred             CCCCCCcEEEEEecCCCChhHHHHHHHHHHHh
Q 021239          115 GGLPKGRIVEIYGREASGKTTLALHVIKEAQK  146 (315)
Q Consensus       115 GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~  146 (315)
                      |=..+|+++.|.||+|+|||||...++.....
T Consensus        51 g~~~~Gel~AimG~SGsGKtTLL~~Lagr~~~   82 (613)
T KOG0061|consen   51 GTAKPGELLAIMGPSGSGKTTLLNALAGRLNG   82 (613)
T ss_pred             EEEecCeEEEEECCCCCCHHHHHHHHhccccC
Confidence            46889999999999999999999998877753

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

Probab=97.74  E-value=0.0003  Score=66.30  Aligned_cols=80  Identities=14%  Similarity=0.179  Sum_probs=52.5

Q ss_pred             CCCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCChHHHHHcCCCCCCeEEeCCCCHH----HHHHHH
Q 021239          115 GGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAE----NLLSVV  190 (315)
Q Consensus       115 GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~~~~~~~g~~~~~l~i~~~~~~e----~~~~~i  190 (315)
                      .|+.+..+++|+||||+|||.+|..+|.++   |-..+.++..+-..                ....+.|    +++...
T Consensus       143 ~~ik~PlgllL~GPPGcGKTllAraiA~el---g~~~i~vsa~eL~s----------------k~vGEsEk~IR~~F~~A  203 (413)
T PLN00020        143 PNIKVPLILGIWGGKGQGKSFQCELVFKKM---GIEPIVMSAGELES----------------ENAGEPGKLIRQRYREA  203 (413)
T ss_pred             cCCCCCeEEEeeCCCCCCHHHHHHHHHHHc---CCCeEEEEHHHhhc----------------CcCCcHHHHHHHHHHHH
Confidence            478889999999999999999999988776   44455555321110                1111223    233333


Q ss_pred             HHHH-HcCCccEEeehhHhhhccc
Q 021239          191 DTLT-KSGSIDVIVVDSVAALIPK  213 (315)
Q Consensus       191 ~~l~-~~~~~~lVVIDsl~~l~~~  213 (315)
                      .+.. ....+.+|+||.+.++.++
T Consensus       204 ~~~a~~~~aPcVLFIDEIDA~~g~  227 (413)
T PLN00020        204 ADIIKKKGKMSCLFINDLDAGAGR  227 (413)
T ss_pred             HHHhhccCCCeEEEEehhhhcCCC
Confidence            3332 3467999999999999864

>TIGR03324 alt_F1F0_F1_al alternate F1F0 ATPase, F1 subunit alpha

Probab=97.74  E-value=0.00018  Score=70.43  Aligned_cols=114  Identities=17%  Similarity=0.285  Sum_probs=73.2

Q ss_pred             CCCCCccccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCCh--HHHHHc---C
Q 021239           95 SRRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP--SLAEAM---G  169 (315)
Q Consensus        95 ~~~~~~i~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~--~~~~~~---g  169 (315)
                      ....+.+.||+..+|.++.   +-+|.-..|.|++|+|||++++.++.+....+-.|+|...-+....  +..+.+   |
T Consensus       140 ~~v~epl~TGI~aID~l~p---igrGQR~~Ifg~~g~GKT~Lal~~I~~q~~~dv~~V~~~IGeR~rev~e~i~~l~~~~  216 (497)
T TIGR03324       140 APVTVPLQTGLKVIDALIP---IGRGQRELILGDRQTGKTAIAIDTILNQKGRNVLCIYCAIGQRASAVAKVVANLREHG  216 (497)
T ss_pred             CCCCchhhcCCEEEeccCC---cccCCEEEeecCCCCCHHHHHHHHHHHhcCCCcEEEEEEeccCcHHHHHHHHHhhhcC
Confidence            4557889999999999987   6799999999999999999988766665544445788776554443  222222   2


Q ss_pred             CCCCCeEEe-CCC--CHHHHH------HHHHHHHHcCCccEEeehhHhhhc
Q 021239          170 IDAENLLIA-QPD--SAENLL------SVVDTLTKSGSIDVIVVDSVAALI  211 (315)
Q Consensus       170 ~~~~~l~i~-~~~--~~e~~~------~~i~~l~~~~~~~lVVIDsl~~l~  211 (315)
                      .-..-+.+. ..+  ...+..      .+.+.+..++.--++++|+++.+.
T Consensus       217 ~l~~tvvV~atsd~p~~~r~~ap~~a~aiAEyfrd~G~~VLlv~DdlTr~A  267 (497)
T TIGR03324       217 AMDYTIVVVTEGNDPPGLQYIAPYAATSIGEHFMEQGRDVLIVYDDLTQHA  267 (497)
T ss_pred             CcceeEEEEeCCCCCHHHHHHHHHHHHHHHHHHHhCCCCEEEEEcChhHHH
Confidence            111122222 222  122221      223344455666799999999775

A small number of taxonomically diverse prokaryotic species, including Methanosarcina barkeri, have what appears to be a second ATP synthase, in addition to the normal F1F0 ATPase in bacteria and A1A0 ATPase in archaea. These enzymes use ion gradients to synthesize ATP, and in principle may run in either direction. This model represents the F1 alpha subunit of this apparent second ATP synthase.

>TIGR01193 bacteriocin_ABC ABC-type bacteriocin transporter

Probab=97.74  E-value=0.0001  Score=76.23  Aligned_cols=36  Identities=28%  Similarity=0.237  Sum_probs=30.0

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEE
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCA  152 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~  152 (315)
                      +++|+.+.|.|++|+|||||+..++.......|.+.
T Consensus       497 i~~G~~vaIvG~SGsGKSTLlklL~gl~~p~~G~I~  532 (708)
T TIGR01193       497 IKMNSKTTIVGMSGSGKSTLAKLLVGFFQARSGEIL  532 (708)
T ss_pred             ECCCCEEEEECCCCCCHHHHHHHHhccCCCCCcEEE
Confidence            689999999999999999999888877665555443

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.

>PRK11288 araG L-arabinose transporter ATP-binding protein; Provisional

Probab=97.74  E-value=0.0001  Score=73.02  Aligned_cols=37  Identities=19%  Similarity=0.387  Sum_probs=29.9

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEE
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAY  153 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~  153 (315)
                      +++|+++.|.||+|+|||||+..++.......+.+.|
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            5789999999999999999999888765444555543

>PRK07165 F0F1 ATP synthase subunit alpha; Validated

Probab=97.73  E-value=0.00025  Score=69.38  Aligned_cols=113  Identities=20%  Similarity=0.330  Sum_probs=72.5

Q ss_pred             CCCCCccccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCCh--HHHHHc---C
Q 021239           95 SRRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP--SLAEAM---G  169 (315)
Q Consensus        95 ~~~~~~i~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~--~~~~~~---g  169 (315)
                      ....+.+.||+..+|.++.   +-+|.-..|.|++|+|||++++..+.+....+-.|+|...-+....  ...+.+   |
T Consensus       121 ~~v~epL~TGIkaID~l~p---igrGQR~~Ifg~~gtGKT~lal~~I~~q~~~dv~~V~~~IGer~~ev~~~~~~l~~~g  197 (507)
T PRK07165        121 KTLNEQLYTGIIAIDLLIP---IGKGQRELIIGDRQTGKTHIALNTIINQKNTNVKCIYVAIGQKRENLSRIYETLKEHD  197 (507)
T ss_pred             CCCCceeecCchhhhhcCC---cccCCEEEeecCCCCCccHHHHHHHHHhcCCCeEEEEEEccCChHHHHHHHHHhhhcC
Confidence            4567899999999999987   6699999999999999999987776666555556788776554443  222222   2


Q ss_pred             CCCCCeEEe-CCCC-HHHH------HHHHHHHHHcCCccEEeehhHhhhc
Q 021239          170 IDAENLLIA-QPDS-AENL------LSVVDTLTKSGSIDVIVVDSVAALI  211 (315)
Q Consensus       170 ~~~~~l~i~-~~~~-~e~~------~~~i~~l~~~~~~~lVVIDsl~~l~  211 (315)
                      .-..-+.+. ..++ .++.      ....+.+..+ .--+||+|+++.+.
T Consensus       198 al~~tvvV~atsd~~~~r~~ap~~a~tiAEyfrd~-~dVLlv~DdLTr~A  246 (507)
T PRK07165        198 ALKNTIIIDAPSTSPYEQYLAPYVAMAHAENISYN-DDVLIVFDDLTKHA  246 (507)
T ss_pred             ceeeeEEEEeCCCCHHHHHHHHHHHHHHHHHHHhc-CceEEEEcChHHHH
Confidence            111112222 2222 2222      1223344445 66799999998765

>PRK10789 putative multidrug transporter membrane\ATP-binding components; Provisional

Probab=97.73  E-value=0.00019  Score=72.38  Aligned_cols=37  Identities=27%  Similarity=0.400  Sum_probs=30.9

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEE
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAY  153 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~  153 (315)
                      +++|+.+.|.||+|+|||||+..++.......+.+.+
T Consensus       338 i~~G~~~~ivG~sGsGKSTLl~ll~g~~~p~~G~i~~  374 (569)
T PRK10789        338 LKPGQMLGICGPTGSGKSTLLSLIQRHFDVSEGDIRF  374 (569)
T ss_pred             ECCCCEEEEECCCCCCHHHHHHHHhcccCCCCCEEEE
Confidence            6799999999999999999998888777665555543

>PF05625 PAXNEB: PAXNEB protein; InterPro: IPR008728 The RNA polymerase II elongator complex is a major histone acetyltransferase component of the RNA polymerase II (RNAPII) holoenzyme and is involved in transcriptional elongation [, ]

Probab=97.73  E-value=0.00036  Score=66.33  Aligned_cols=176  Identities=19%  Similarity=0.173  Sum_probs=94.1

Q ss_pred             CCCccccCcHHHHHhhcCCCCCCCcEEEEEecCCCC--hhHHHHHHHHHHHhcCCeEEEEecCCCCChH-----------
Q 021239           97 RGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASG--KTTLALHVIKEAQKLGGYCAYLDVENALDPS-----------  163 (315)
Q Consensus        97 ~~~~i~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsG--KTtlal~la~~~~~~g~~v~~i~~E~~~~~~-----------  163 (315)
                      ....+|||++.||.+|| ||+|-|++++|- +.+.+  =..|+..++++-+..+..+++++........           
T Consensus        26 ~~~~~STG~~sLD~lLG-GGlPlGs~llIe-Ed~~t~ya~~LlkyF~AEGi~~~h~v~v~~~~~~~~~~LP~~~~~~~~~  103 (363)
T PF05625_consen   26 GQPLTSTGIPSLDDLLG-GGLPLGSILLIE-EDGTTDYASVLLKYFAAEGIVHGHHVLVASPPEAWLRELPGPVSESEKK  103 (363)
T ss_dssp             SSEEE--S-HHHHHHTT-SSEETT-EEEEE-E-SS--THHHHHHHHHHHHHHH-EEEEEE-S-GGGGGG-EEE-------
T ss_pred             CCEEEecCChhHHHHhc-CCcccccEEEEe-cCCcCHHHHHHHHHHHHhccccCCeEEEEeCChHHHhhCCCccCcchhc
Confidence            45689999999999999 999999999985 44332  2344455566666667888888862211100           


Q ss_pred             ---------------------HHHHcC-----------------CCCC----------Ce-EEeCCC-------CHHHHH
Q 021239          164 ---------------------LAEAMG-----------------IDAE----------NL-LIAQPD-------SAENLL  187 (315)
Q Consensus       164 ---------------------~~~~~g-----------------~~~~----------~l-~i~~~~-------~~e~~~  187 (315)
                                           |.+.++                 +|+.          .. .+....       ....++
T Consensus       104 ~~~~~~~~~~~~~~~~mKIAWRY~~~~~~~~~~~~~~~~~fcH~FDLsk~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll  183 (363)
T PF05625_consen  104 EKKSKIAEESSESDEDMKIAWRYEKLPKFQSSVGSSSYPNFCHQFDLSKRMDPEPLSAEIIFIPPDQPPSSSSSPYRSLL  183 (363)
T ss_dssp             --------------------------------------TTSS--EETTSE-SS---TTTEEEE-TTS--------HHHHH
T ss_pred             cccccccccCCCCccCCeeEeecccCccccccccCCcccccccccccccccChhhccccceEecCCCCcchhHHHHHHHH
Confidence                                 000000                 0000          11 111111       145667


Q ss_pred             HHHHHHHHc------CCccEEeehhHhhhccccccCCCccCCChHHHHHHHHHHHHHHHHHHh--ccCcEEEEEeccccc
Q 021239          188 SVVDTLTKS------GSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLC--QSHTLIIFLNQVRFS  259 (315)
Q Consensus       188 ~~i~~l~~~------~~~~lVVIDsl~~l~~~~~~~~~~~~~~~~~q~r~i~~~l~~L~~~~~--~~~i~VI~inq~~~~  259 (315)
                      ..+.+.+..      ..+-.|+|-++........-.         .+..++.++|..|..+++  ..+++++++--.  .
T Consensus       184 ~~i~~~i~~~~~~~~~~v~RI~I~sl~SP~w~~~~~---------~~~~~ll~FL~~LR~LlR~~~s~~v~~iTlP~--~  252 (363)
T PF05625_consen  184 QQIQQIISKSGFSPPSKVLRIVIPSLGSPLWYPPSA---------SQPSELLRFLHSLRALLRKYSSNAVAMITLPS--H  252 (363)
T ss_dssp             HHHHHHHHH----TTTSEEEEEETTTT-TTTS-GGG---------GBHHHHHHHHHHHHHHHHHTTTTEEEEEEEEG--T
T ss_pred             HHHHHHHHhhccCCCCceEEEEEcCCCCcccCCccc---------ccHHHHHHHHHHHHHHHhccCCCEEEEEEECH--H
Confidence            777776653      356789999887655321110         123347888999998889  455555555422  1


Q ss_pred             cCCCCCCCCCccccccccccccccceEEEEEecc
Q 021239          260 AKSGQGLGRMDEVTSGGNALKFYAALRLRMMRTR  293 (315)
Q Consensus       260 ~~~~~~~~~~~~~~~gG~~~~~~~~~rl~l~k~~  293 (315)
                      .     |.   ..+..-.-|.|.+|..|.|+--.
T Consensus       253 L-----~~---~~~~~~~~l~~l~D~vi~Le~F~  278 (363)
T PF05625_consen  253 L-----YP---RSPSLVRRLEHLADGVIELESFA  278 (363)
T ss_dssp             T-----S------HHHHHHHHHHSSEEEEEEE--
T ss_pred             H-----hc---cChHHHHHHHHhCCEEEEeecCC
Confidence            1     21   13445677889999999988643

It may also play some role in wobble uridine tRNA modification []. This entry represents the ELP4 subunit. ELP4 is not required for the association of the complex with nascent RNA transcript, but is required for complex integrity and histone acetyltransferase activity. It is also required for an early step in synthesis of 5-methoxycarbonylmethyl (mcm5) and 5-carbamoylmethyl (ncm5) groups present on uridines at the wobble position in tRNA in yeast species.; GO: 0006357 regulation of transcription from RNA polymerase II promoter, 0033588 Elongator holoenzyme complex; PDB: 4EJS_A 4A8J_A.

>PRK12608 transcription termination factor Rho; Provisional

Probab=97.71  E-value=0.00011  Score=69.46  Aligned_cols=104  Identities=19%  Similarity=0.183  Sum_probs=66.9

Q ss_pred             ccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHhcC--CeEEEEecCCCCCh--HHHHHcCCCCCCeEE
Q 021239          102 STGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLG--GYCAYLDVENALDP--SLAEAMGIDAENLLI  177 (315)
Q Consensus       102 ~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g--~~v~~i~~E~~~~~--~~~~~~g~~~~~l~i  177 (315)
                      .+|...+|.++.   +-+|.-.+|.|++|+||||++..++.....+.  -.|+|.-..+....  +..+.+-   ..+..
T Consensus       118 ~~~~RvID~l~P---iGkGQR~LIvG~pGtGKTTLl~~la~~i~~~~~dv~~vv~lIgER~~EV~df~~~i~---~~Vva  191 (380)
T PRK12608        118 DLSMRVVDLVAP---IGKGQRGLIVAPPRAGKTVLLQQIAAAVAANHPEVHLMVLLIDERPEEVTDMRRSVK---GEVYA  191 (380)
T ss_pred             chhHhhhhheee---cCCCceEEEECCCCCCHHHHHHHHHHHHHhcCCCceEEEEEecCCCCCHHHHHHHHh---hhEEe
Confidence            577788998886   34788899999999999999999988887642  23455454444433  2222221   01222


Q ss_pred             eCC-CC-------HHHHHHHHHHHHHcCCccEEeehhHhhhc
Q 021239          178 AQP-DS-------AENLLSVVDTLTKSGSIDVIVVDSVAALI  211 (315)
Q Consensus       178 ~~~-~~-------~e~~~~~i~~l~~~~~~~lVVIDsl~~l~  211 (315)
                      ... .+       .+...+.++++.+++.--+|++|+++.+.
T Consensus       192 st~de~~~~~~~v~~~~~~~Ae~f~~~GkdVVLvlDsltr~A  233 (380)
T PRK12608        192 STFDRPPDEHIRVAELVLERAKRLVEQGKDVVILLDSLTRLA  233 (380)
T ss_pred             ecCCCCHHHHHHHHHHHHHHHHHHHHcCCCEEEEEeCcHHHH
Confidence            111 11       12334556666677777899999999876

>TIGR02204 MsbA_rel ABC transporter, permease/ATP-binding protein

Probab=97.71  E-value=0.00024  Score=71.56  Aligned_cols=36  Identities=22%  Similarity=0.317  Sum_probs=30.9

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEE
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCA  152 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~  152 (315)
                      +++|+.+.|.|++|+|||||+..++.......+.+.
T Consensus       363 i~~Ge~i~IvG~sGsGKSTLlklL~gl~~p~~G~I~  398 (576)
T TIGR02204       363 VRPGETVALVGPSGAGKSTLFQLLLRFYDPQSGRIL  398 (576)
T ss_pred             ecCCCEEEEECCCCCCHHHHHHHHHhccCCCCCEEE
Confidence            679999999999999999999999887766555553

This protein is related to a Proteobacterial ATP transporter that exports lipid A and to eukaryotic P-glycoproteins.

>TIGR01846 type_I_sec_HlyB type I secretion system ABC transporter, HlyB family

Probab=97.71  E-value=0.00017  Score=74.29  Aligned_cols=37  Identities=24%  Similarity=0.322  Sum_probs=31.0

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEE
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCA  152 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~  152 (315)
                      -+++|+.+.|.|++|+|||||+..++.......|.+.
T Consensus       479 ~i~~G~~vaivG~sGsGKSTL~~ll~g~~~p~~G~I~  515 (694)
T TIGR01846       479 DIKPGEFIGIVGPSGSGKSTLTKLLQRLYTPQHGQVL  515 (694)
T ss_pred             EECCCCEEEEECCCCCCHHHHHHHHhcCCCCCCceEE
Confidence            3689999999999999999999888877766555554

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.

>PRK14723 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=97.70  E-value=0.00026  Score=72.65  Aligned_cols=86  Identities=20%  Similarity=0.325  Sum_probs=59.8

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHH-hcC-CeEEEEecCCCCC----h--HHHHHcCCCCCCeEEeCCCCHHHHHH
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQ-KLG-GYCAYLDVENALD----P--SLAEAMGIDAENLLIAQPDSAENLLS  188 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~-~~g-~~v~~i~~E~~~~----~--~~~~~~g~~~~~l~i~~~~~~e~~~~  188 (315)
                      +++|.++.|.||+|+||||++..++..+. ..| .+|.+++.+....    +  .+++.+|++..     ...+.+++..
T Consensus       182 ~~~g~Vi~lVGpnGvGKTTTiaKLA~~~~~~~G~kkV~lit~Dt~RigA~eQL~~~a~~~gvpv~-----~~~~~~~l~~  256 (767)
T PRK14723        182 LAQGGVLALVGPTGVGKTTTTAKLAARCVAREGADQLALLTTDSFRIGALEQLRIYGRILGVPVH-----AVKDAADLRF  256 (767)
T ss_pred             cCCCeEEEEECCCCCcHHHHHHHHHhhHHHHcCCCeEEEecCcccchHHHHHHHHHHHhCCCCcc-----ccCCHHHHHH
Confidence            34688999999999999999999998875 445 4888888775431    1  24455565432     2224566666


Q ss_pred             HHHHHHHcCCccEEeehhHhhh
Q 021239          189 VVDTLTKSGSIDVIVVDSVAAL  210 (315)
Q Consensus       189 ~i~~l~~~~~~~lVVIDsl~~l  210 (315)
                      .+..+   .+.++|+||.-...
T Consensus       257 al~~~---~~~D~VLIDTAGRs  275 (767)
T PRK14723        257 ALAAL---GDKHLVLIDTVGMS  275 (767)
T ss_pred             HHHHh---cCCCEEEEeCCCCC
Confidence            66654   35699999977644

>cd03289 ABCC_CFTR2 The CFTR subfamily domain 2

Probab=97.70  E-value=0.00028  Score=64.59  Aligned_cols=39  Identities=28%  Similarity=0.384  Sum_probs=30.9

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecC
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVE  157 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E  157 (315)
                      +++|+++.|.|++|+|||||+..++.... ..+.+ +++..
T Consensus        27 I~~Ge~~~IvG~nGsGKSTLl~~L~gl~~-~~G~I-~i~g~   65 (275)
T cd03289          27 ISPGQRVGLLGRTGSGKSTLLSAFLRLLN-TEGDI-QIDGV   65 (275)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhhhcC-CCcEE-EECCE
Confidence            67999999999999999999998887765 44444 45543

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.

>cd03227 ABC_Class2 ABC-type Class 2 contains systems involved in cellular processes other than transport

Probab=97.70  E-value=0.00026  Score=59.40  Aligned_cols=116  Identities=15%  Similarity=0.131  Sum_probs=62.8

Q ss_pred             CCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCChHHHHHcCCC--CCC----eEEeCCCC-HHHHHHHHH
Q 021239          119 KGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGID--AEN----LLIAQPDS-AENLLSVVD  191 (315)
Q Consensus       119 ~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~~~~~~~g~~--~~~----l~i~~~~~-~e~~~~~i~  191 (315)
                      .+.+++|.||+|+|||+++..++........+...-+ +.        +.|..  ..+    +...+... ..+.....+
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            3479999999999999999998776664432222200 00        01100  001    00111122 223444444


Q ss_pred             HHHHc--CCccEEeehhHhhhccccccCCCccCCChHHHHHHHHHHHHHHHHHHhccCcEEEEEecccccc
Q 021239          192 TLTKS--GSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVRFSA  260 (315)
Q Consensus       192 ~l~~~--~~~~lVVIDsl~~l~~~~~~~~~~~~~~~~~q~r~i~~~l~~L~~~~~~~~i~VI~inq~~~~~  260 (315)
                      .+...  .+++++++|.+..-...             .....+.+.+.++   ..+ ++++|+++|...-.
T Consensus        91 ~L~~~~~~~~~llllDEp~~gld~-------------~~~~~l~~~l~~~---~~~-~~~vii~TH~~~~~  144 (162)
T cd03227          91 ILALASLKPRPLYILDEIDRGLDP-------------RDGQALAEAILEH---LVK-GAQVIVITHLPELA  144 (162)
T ss_pred             HHHhcCCCCCCEEEEeCCCCCCCH-------------HHHHHHHHHHHHH---Hhc-CCEEEEEcCCHHHH
Confidence            44433  27899999987755421             1122244444433   355 89999999976543

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.

>CHL00176 ftsH cell division protein; Validated

Probab=97.70  E-value=0.00015  Score=73.72  Aligned_cols=117  Identities=15%  Similarity=0.104  Sum_probs=61.8

Q ss_pred             CcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCChHHHHHcCCCCCCeEEeCCCCHHHHHHHHHHHHHcCCc
Q 021239          120 GRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTKSGSI  199 (315)
Q Consensus       120 G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~~~~~~~g~~~~~l~i~~~~~~e~~~~~i~~l~~~~~~  199 (315)
                      ..-++|+||||+|||+++..+|..+   +.+.++++...-..    ...|.           ....+...+.. .....+
T Consensus       216 p~gVLL~GPpGTGKT~LAralA~e~---~~p~i~is~s~f~~----~~~g~-----------~~~~vr~lF~~-A~~~~P  276 (638)
T CHL00176        216 PKGVLLVGPPGTGKTLLAKAIAGEA---EVPFFSISGSEFVE----MFVGV-----------GAARVRDLFKK-AKENSP  276 (638)
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHh---CCCeeeccHHHHHH----Hhhhh-----------hHHHHHHHHHH-HhcCCC
Confidence            3459999999999999999997765   45555555322100    00010           11222222222 234678


Q ss_pred             cEEeehhHhhhccccccCCCccCCChHHHHHHHHHHHHHHHHHHhccCcEEEEEecccc
Q 021239          200 DVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVRF  258 (315)
Q Consensus       200 ~lVVIDsl~~l~~~~~~~~~~~~~~~~~q~r~i~~~l~~L~~~~~~~~i~VI~inq~~~  258 (315)
                      .+|+||.+..+..... .+..+ ... .....+.+.|..+..+....++.||.+++...
T Consensus       277 ~ILfIDEID~l~~~r~-~~~~~-~~~-e~~~~L~~LL~~~dg~~~~~~ViVIaaTN~~~  332 (638)
T CHL00176        277 CIVFIDEIDAVGRQRG-AGIGG-GND-EREQTLNQLLTEMDGFKGNKGVIVIAATNRVD  332 (638)
T ss_pred             cEEEEecchhhhhccc-CCCCC-CcH-HHHHHHHHHHhhhccccCCCCeeEEEecCchH
Confidence            9999999998873211 11111 111 22223444444443333445677776665433

>TIGR02203 MsbA_lipidA lipid A export permease/ATP-binding protein MsbA

Probab=97.69  E-value=0.00022  Score=71.67  Aligned_cols=37  Identities=27%  Similarity=0.340  Sum_probs=31.0

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEE
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAY  153 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~  153 (315)
                      +++|+.+.|.|++|+|||||+..++.......|.+.+
T Consensus       355 i~~G~~v~IvG~sGsGKSTLl~lL~gl~~~~~G~I~i  391 (571)
T TIGR02203       355 IEPGETVALVGRSGSGKSTLVNLIPRFYEPDSGQILL  391 (571)
T ss_pred             ecCCCEEEEECCCCCCHHHHHHHHHhccCCCCCeEEE
Confidence            5799999999999999999999888777666555543

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.

>PRK14259 phosphate ABC transporter ATP-binding protein; Provisional

Probab=97.68  E-value=0.00019  Score=65.30  Aligned_cols=29  Identities=21%  Similarity=0.525  Sum_probs=25.8

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHH
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEA  144 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~  144 (315)
                      -+++|+++.|.|++|+|||||+..++...
T Consensus        35 ~i~~Ge~~~l~G~nGsGKSTLl~~l~Gl~   63 (269)
T PRK14259         35 DIPRGKVTALIGPSGCGKSTVLRSLNRMN   63 (269)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhccc
Confidence            36799999999999999999998888754

>KOG0652 consensus 26S proteasome regulatory complex, ATPase RPT5 [Posttranslational modification, protein turnover, chaperones]

Probab=97.68  E-value=0.00014  Score=65.00  Aligned_cols=120  Identities=18%  Similarity=0.211  Sum_probs=72.7

Q ss_pred             CCCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCChHHHHHcCCCCCCeEEeCCCCHHHHHHHHHHHH
Q 021239          115 GGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLT  194 (315)
Q Consensus       115 GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~~~~~~~g~~~~~l~i~~~~~~e~~~~~i~~l~  194 (315)
                      =|+.+..-+++|||||+|||.++..+|+..-     +.|+-.-.  +            ++.-.-..+...++.-.-.+.
T Consensus       200 lgi~pPKGvLmYGPPGTGKTlmARAcAaqT~-----aTFLKLAg--P------------QLVQMfIGdGAkLVRDAFaLA  260 (424)
T KOG0652|consen  200 LGIRPPKGVLMYGPPGTGKTLMARACAAQTN-----ATFLKLAG--P------------QLVQMFIGDGAKLVRDAFALA  260 (424)
T ss_pred             cCCCCCCceEeeCCCCCcHHHHHHHHHHhcc-----chHHHhcc--h------------HHHhhhhcchHHHHHHHHHHh
Confidence            4788888899999999999999988765431     11211100  0            000001112334444444566


Q ss_pred             HcCCccEEeehhHhhhccccccCCCccCCChHHHHHHHHHHHHHHHHHHhccCcEEEEEecc
Q 021239          195 KSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQV  256 (315)
Q Consensus       195 ~~~~~~lVVIDsl~~l~~~~~~~~~~~~~~~~~q~r~i~~~l~~L~~~~~~~~i~VI~inq~  256 (315)
                      ++..|.+|+||.+.++- ...++++.... . .-+|.+...|.+|-.+.....+-||....-
T Consensus       261 KEkaP~IIFIDElDAIG-tKRfDSek~GD-R-EVQRTMLELLNQLDGFss~~~vKviAATNR  319 (424)
T KOG0652|consen  261 KEKAPTIIFIDELDAIG-TKRFDSEKAGD-R-EVQRTMLELLNQLDGFSSDDRVKVIAATNR  319 (424)
T ss_pred             hccCCeEEEEechhhhc-ccccccccccc-H-HHHHHHHHHHHhhcCCCCccceEEEeeccc
Confidence            67789999999999987 45666553221 1 223456677777766655666777765543

>COG0464 SpoVK ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]

Probab=97.68  E-value=0.00017  Score=71.43  Aligned_cols=120  Identities=20%  Similarity=0.199  Sum_probs=71.3

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCChHHHHHcCCCCCCeEEeCCCCHHHHHHHHHHHHH
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTK  195 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~~~~~~~g~~~~~l~i~~~~~~e~~~~~i~~l~~  195 (315)
                      |+++...++++||||+|||.+|..++...   +.+  |++...+  .            +.-......+..+..+....+
T Consensus       272 ~~~~~~giLl~GpPGtGKT~lAkava~~~---~~~--fi~v~~~--~------------l~sk~vGesek~ir~~F~~A~  332 (494)
T COG0464         272 GLRPPKGVLLYGPPGTGKTLLAKAVALES---RSR--FISVKGS--E------------LLSKWVGESEKNIRELFEKAR  332 (494)
T ss_pred             CCCCCCeeEEECCCCCCHHHHHHHHHhhC---CCe--EEEeeCH--H------------HhccccchHHHHHHHHHHHHH
Confidence            78888899999999999999999887643   223  3333222  0            010111233444444445555


Q ss_pred             cCCccEEeehhHhhhccccccCCCccCCChHHHHHHHHHHHHHHHHHHhccCcEEEEEecccccc
Q 021239          196 SGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVRFSA  260 (315)
Q Consensus       196 ~~~~~lVVIDsl~~l~~~~~~~~~~~~~~~~~q~r~i~~~l~~L~~~~~~~~i~VI~inq~~~~~  260 (315)
                      ...+.+|+||.+..+.+... .+..     ....|.+.+.+..+...-...++.||..+..-..+
T Consensus       333 ~~~p~iiFiDEiDs~~~~r~-~~~~-----~~~~r~~~~lL~~~d~~e~~~~v~vi~aTN~p~~l  391 (494)
T COG0464         333 KLAPSIIFIDEIDSLASGRG-PSED-----GSGRRVVGQLLTELDGIEKAEGVLVIAATNRPDDL  391 (494)
T ss_pred             cCCCcEEEEEchhhhhccCC-CCCc-----hHHHHHHHHHHHHhcCCCccCceEEEecCCCcccc
Confidence            67899999999999985321 1111     11134455555555433345566666665554444

>PRK09087 hypothetical protein; Validated

Probab=97.68  E-value=0.00014  Score=64.69  Aligned_cols=69  Identities=19%  Similarity=0.196  Sum_probs=43.3

Q ss_pred             HHHHHhhCcccccccccccCCC-CCCccccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEE
Q 021239           75 SQLANDFGKESMLSLKRFFGSR-RGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAY  153 (315)
Q Consensus        75 ~~l~~~~~~~~~~~~~~~~~~~-~~~~i~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~  153 (315)
                      .|+..++......++.+|+.+. +...+.    .++...   +. .+..+.|+|++|+|||+|+..++...     .+.|
T Consensus         6 ~Ql~l~~~~~~~~~~~~Fi~~~~N~~a~~----~l~~~~---~~-~~~~l~l~G~~GsGKThLl~~~~~~~-----~~~~   72 (226)
T PRK09087          6 EQLPLNFSHDPAYGRDDLLVTESNRAAVS----LVDHWP---NW-PSPVVVLAGPVGSGKTHLASIWREKS-----DALL   72 (226)
T ss_pred             cceeeCCCCCCCCChhceeecCchHHHHH----HHHhcc---cC-CCCeEEEECCCCCCHHHHHHHHHHhc-----CCEE
Confidence            4666677666667777766422 222222    344432   32 35679999999999999998766543     4557


Q ss_pred             Eec
Q 021239          154 LDV  156 (315)
Q Consensus       154 i~~  156 (315)
                      ++.
T Consensus        73 i~~   75 (226)
T PRK09087         73 IHP   75 (226)
T ss_pred             ecH
Confidence            774

>TIGR01192 chvA glucan exporter ATP-binding protein

Probab=97.68  E-value=0.0002  Score=72.41  Aligned_cols=36  Identities=28%  Similarity=0.267  Sum_probs=29.9

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEE
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCA  152 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~  152 (315)
                      +++|+.+.|.|++|+|||||+..++.......+.+.
T Consensus       358 i~~G~~~~ivG~sGsGKSTL~~ll~g~~~~~~G~i~  393 (585)
T TIGR01192       358 AKAGQTVAIVGPTGAGKTTLINLLQRVYDPTVGQIL  393 (585)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHccCCCCCCCEEE
Confidence            679999999999999999999888776655555543

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.

>PRK09700 D-allose transporter ATP-binding protein; Provisional

Probab=97.67  E-value=0.00012  Score=72.71  Aligned_cols=37  Identities=24%  Similarity=0.356  Sum_probs=29.7

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEE
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAY  153 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~  153 (315)
                      +++|+++.|.||+|+|||||+..++.......+.+.|
T Consensus       286 i~~Ge~~~l~G~NGsGKSTLlk~i~Gl~~p~~G~I~~  322 (510)
T PRK09700        286 VCRGEILGFAGLVGSGRTELMNCLFGVDKRAGGEIRL  322 (510)
T ss_pred             EcCCcEEEEECCCCCCHHHHHHHHhCCCcCCCCeEEE
Confidence            6789999999999999999999888665444455543

>PRK00889 adenylylsulfate kinase; Provisional

Probab=97.67  E-value=7.6e-05  Score=63.30  Aligned_cols=40  Identities=28%  Similarity=0.319  Sum_probs=36.2

Q ss_pred             CCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecC
Q 021239          118 PKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVE  157 (315)
Q Consensus       118 ~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E  157 (315)
                      ++|.++.|.|.||+||||++..++......|..+.+++.+
T Consensus         2 ~~g~~i~~~G~~GsGKST~a~~la~~l~~~g~~v~~id~D   41 (175)
T PRK00889          2 QRGVTVWFTGLSGAGKTTIARALAEKLREAGYPVEVLDGD   41 (175)
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEcCc
Confidence            5799999999999999999999999888778889999875

>TIGR01194 cyc_pep_trnsptr cyclic peptide transporter

Probab=97.66  E-value=0.0002  Score=71.87  Aligned_cols=36  Identities=31%  Similarity=0.294  Sum_probs=30.1

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEE
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCA  152 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~  152 (315)
                      +++|+.+.|.||+|+|||||+.-++.......|.+.
T Consensus       365 i~~G~~~aivG~sGsGKSTl~~ll~g~~~p~~G~i~  400 (555)
T TIGR01194       365 IAQGDIVFIVGENGCGKSTLAKLFCGLYIPQEGEIL  400 (555)
T ss_pred             EcCCcEEEEECCCCCCHHHHHHHHhCCCCCCCcEEE
Confidence            679999999999999999999888776665555554

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.

>PRK13695 putative NTPase; Provisional

Probab=97.66  E-value=0.00015  Score=61.51  Aligned_cols=34  Identities=26%  Similarity=0.354  Sum_probs=26.2

Q ss_pred             EEEEEecCCCChhHHHHHHHHHHHhcCCeEE-EEe
Q 021239          122 IVEIYGREASGKTTLALHVIKEAQKLGGYCA-YLD  155 (315)
Q Consensus       122 i~~i~G~~GsGKTtlal~la~~~~~~g~~v~-~i~  155 (315)
                      .+.|.|++|+|||||+..++..+...|.++. |+.
T Consensus         2 ~i~ltG~~G~GKTTll~~i~~~l~~~G~~~~g~~~   36 (174)
T PRK13695          2 KIGITGPPGVGKTTLVLKIAELLKEEGYKVGGFYT   36 (174)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEEc
Confidence            4789999999999999998877665565543 443

>TIGR00708 cobA cob(I)alamin adenosyltransferase

Probab=97.66  E-value=0.00088  Score=56.83  Aligned_cols=91  Identities=14%  Similarity=0.220  Sum_probs=60.5

Q ss_pred             EEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCC----ChHHHHHcCCCCC----CeEEeCCCC------HHHHH
Q 021239          122 IVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENAL----DPSLAEAMGIDAE----NLLIAQPDS------AENLL  187 (315)
Q Consensus       122 i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~----~~~~~~~~g~~~~----~l~i~~~~~------~e~~~  187 (315)
                      ++.|++++|.||||.|+.++..++..|.+|+++-|=...    +....+.+++...    .+.+...+.      ..+.+
T Consensus         7 li~v~~g~GkGKtt~a~g~a~ra~~~g~~v~ivQFlKg~~~~GE~~~l~~~~~~~~~~g~g~~~~~~~~~~~~~~~~~~~   86 (173)
T TIGR00708         7 IIIVHTGNGKGKTTAAFGMALRALGHGKKVGVIQFIKGAWPNGERAAFEPHGVEFQVMGTGFTWETQNREADTAIAKAAW   86 (173)
T ss_pred             EEEEECCCCCChHHHHHHHHHHHHHCCCeEEEEEEecCCcccChHHHHHhcCcEEEECCCCCeecCCCcHHHHHHHHHHH
Confidence            677788899999999999999999999999877553322    1223333332211    111212221      22445


Q ss_pred             HHHHHHHHcCCccEEeehhHhhhcc
Q 021239          188 SVVDTLTKSGSIDVIVVDSVAALIP  212 (315)
Q Consensus       188 ~~i~~l~~~~~~~lVVIDsl~~l~~  212 (315)
                      +.+++.+....+++||+|.+.....
T Consensus        87 ~~a~~~l~~~~~DlvVLDEi~~A~~  111 (173)
T TIGR00708        87 QHAKEMLADPELDLVLLDELTYALK  111 (173)
T ss_pred             HHHHHHHhcCCCCEEEehhhHHHHH
Confidence            5566777788999999999997773

Alternate name: corrinoid adenosyltransferase.

>PRK10762 D-ribose transporter ATP binding protein; Provisional

Probab=97.66  E-value=0.00015  Score=71.87  Aligned_cols=37  Identities=27%  Similarity=0.450  Sum_probs=29.1

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEE
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAY  153 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~  153 (315)
                      +++|+++.|.|++|+|||||+..++.......+.+.|
T Consensus       275 i~~Ge~~~liG~NGsGKSTLl~~l~G~~~p~~G~I~~  311 (501)
T PRK10762        275 LRKGEILGVSGLMGAGRTELMKVLYGALPRTSGYVTL  311 (501)
T ss_pred             EcCCcEEEEecCCCCCHHHHHHHHhCCCCCCceEEEE
Confidence            6789999999999999999998887655444444433

>PF09848 DUF2075: Uncharacterized conserved protein (DUF2075); InterPro: IPR018647 This domain, found in putative ATP/GTP binding proteins, has no known function

Probab=97.66  E-value=0.00017  Score=68.23  Aligned_cols=92  Identities=25%  Similarity=0.321  Sum_probs=55.2

Q ss_pred             cEEEEEecCCCChhHHHHHHHHHH--HhcCCeEEEEecCCCCChHHHHHcCCCC-CCeEEeCCCCHHHHHHHHH-HHHHc
Q 021239          121 RIVEIYGREASGKTTLALHVIKEA--QKLGGYCAYLDVENALDPSLAEAMGIDA-ENLLIAQPDSAENLLSVVD-TLTKS  196 (315)
Q Consensus       121 ~i~~i~G~~GsGKTtlal~la~~~--~~~g~~v~~i~~E~~~~~~~~~~~g~~~-~~l~i~~~~~~e~~~~~i~-~l~~~  196 (315)
                      .+++|.|.||+|||.+++.++..+  ...+..++|+...........+.+.-.. ....-........+...+. .....
T Consensus         2 ~v~~I~G~aGTGKTvla~~l~~~l~~~~~~~~~~~l~~n~~l~~~l~~~l~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~   81 (352)
T PF09848_consen    2 QVILITGGAGTGKTVLALNLAKELQNSEEGKKVLYLCGNHPLRNKLREQLAKKYNPKLKKSDFRKPTSFINNYSESDKEK   81 (352)
T ss_pred             eEEEEEecCCcCHHHHHHHHHHHhhccccCCceEEEEecchHHHHHHHHHhhhcccchhhhhhhhhHHHHhhcccccccC
Confidence            478999999999999999999999  6778889998877666554433332221 0000000011111111111 01123


Q ss_pred             CCccEEeehhHhhhcc
Q 021239          197 GSIDVIVVDSVAALIP  212 (315)
Q Consensus       197 ~~~~lVVIDsl~~l~~  212 (315)
                      ...++||||.-+.+..
T Consensus        82 ~~~DviivDEAqrl~~   97 (352)
T PF09848_consen   82 NKYDVIIVDEAQRLRT   97 (352)
T ss_pred             CcCCEEEEehhHhhhh
Confidence            4678888888887764

It is found in some proteins described as Schlafen family members, which may have a role in hematopoeitic cell differentiation [].

>COG0552 FtsY Signal recognition particle GTPase [Intracellular trafficking and secretion]

Probab=97.66  E-value=0.00056  Score=63.29  Aligned_cols=111  Identities=19%  Similarity=0.246  Sum_probs=77.2

Q ss_pred             CCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCCh-------HHHHHcCCCCCCeEEeCCCCHHHHHHHHH
Q 021239          119 KGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP-------SLAEAMGIDAENLLIAQPDSAENLLSVVD  191 (315)
Q Consensus       119 ~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~-------~~~~~~g~~~~~l~i~~~~~~e~~~~~i~  191 (315)
                      +..++++.|-+|+||||..-.+|..+..+|.+|+....+ ++..       .++++.|++.=.-. .-.+++.-.++.+.
T Consensus       138 ~p~Vil~vGVNG~GKTTTIaKLA~~l~~~g~~VllaA~D-TFRAaAiEQL~~w~er~gv~vI~~~-~G~DpAaVafDAi~  215 (340)
T COG0552         138 KPFVILFVGVNGVGKTTTIAKLAKYLKQQGKSVLLAAGD-TFRAAAIEQLEVWGERLGVPVISGK-EGADPAAVAFDAIQ  215 (340)
T ss_pred             CcEEEEEEecCCCchHhHHHHHHHHHHHCCCeEEEEecc-hHHHHHHHHHHHHHHHhCCeEEccC-CCCCcHHHHHHHHH
Confidence            467999999999999999999999999999888766654 3332       46777776532111 23455555666666


Q ss_pred             HHHHcCCccEEeehhHhhhccccccCCCccCCChHHHHHHHHHHHHHHHHHHhccCc
Q 021239          192 TLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHT  248 (315)
Q Consensus       192 ~l~~~~~~~lVVIDsl~~l~~~~~~~~~~~~~~~~~q~r~i~~~l~~L~~~~~~~~i  248 (315)
                      ... ..+.++|+||.-..+...               . -+...|+++.+.++....
T Consensus       216 ~Ak-ar~~DvvliDTAGRLhnk---------------~-nLM~EL~KI~rV~~k~~~  255 (340)
T COG0552         216 AAK-ARGIDVVLIDTAGRLHNK---------------K-NLMDELKKIVRVIKKDDP  255 (340)
T ss_pred             HHH-HcCCCEEEEeCcccccCc---------------h-hHHHHHHHHHHHhccccC
Confidence            553 468999999987766521               1 155667777777766543

>PRK14258 phosphate ABC transporter ATP-binding protein; Provisional

Probab=97.66  E-value=0.00031  Score=63.61  Aligned_cols=30  Identities=17%  Similarity=0.306  Sum_probs=26.6

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHh
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQK  146 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~  146 (315)
                      +++|+++.|.|++|+|||||+..++.....
T Consensus        30 i~~Ge~~~I~G~nGsGKSTLl~~l~Gl~~~   59 (261)
T PRK14258         30 IYQSKVTAIIGPSGCGKSTFLKCLNRMNEL   59 (261)
T ss_pred             EcCCcEEEEECCCCCCHHHHHHHHhcccCC
Confidence            679999999999999999999988876543

>COG4544 Uncharacterized conserved protein [Function unknown]

Probab=97.66  E-value=0.00029  Score=61.47  Aligned_cols=136  Identities=23%  Similarity=0.330  Sum_probs=98.4

Q ss_pred             CCCccccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHH--hcCCeEEEEecCCCCChHHHHHcCCCCCC
Q 021239           97 RGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQ--KLGGYCAYLDVENALDPSLAEAMGIDAEN  174 (315)
Q Consensus        97 ~~~~i~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~--~~g~~v~~i~~E~~~~~~~~~~~g~~~~~  174 (315)
                      ....++.|++.+|..|.+||+.-|.+.++.|.-..--+=++..++....  .++++|+|+.+-+..-..-...+|+++++
T Consensus        31 ~~~~LpfGvp~~Da~lpGGglalg~ihe~~ggg~ga~~GaAaAl~~~g~~~r~~gpVvWi~tr~dlf~paL~~~Gl~~~R  110 (260)
T COG4544          31 RAGILPFGVPPIDAALPGGGLALGEIHELEGGGAGAADGAAAALAVLGLAARRGGPVVWILTREDLFPPALAAFGLDPER  110 (260)
T ss_pred             cccccccCCCchhhhcCCcchhhhhhhhccCCCccchhhHHHHHHHHhhhcccCCCEEEEEecccccchhHhhcCCChhh
Confidence            4567899999999999867788888888887654444555555555443  45789999998544333337889999999


Q ss_pred             eEEeCCCCHHHHHHHHHHHHHcCCccEEeehhHhhhccccccCCCccCCChHHHHHHHHHHHHHHHHHHhccCcEEEEEe
Q 021239          175 LLIAQPDSAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLN  254 (315)
Q Consensus       175 l~i~~~~~~e~~~~~i~~l~~~~~~~lVVIDsl~~l~~~~~~~~~~~~~~~~~q~r~i~~~l~~L~~~~~~~~i~VI~in  254 (315)
                      +++..+.+.++.++..++.+.-..+..||.. +..+-    +                 ..-|+|.--+...|.++|++-
T Consensus       111 lifVea~~e~dvL~~~EeaLs~~g~aaVV~E-i~~L~----l-----------------tasRRLqlaae~~G~~~l~lR  168 (260)
T COG4544         111 LIFVEARKEEDVLWNAEEALSFGGLAAVVAE-IRRLD----L-----------------TASRRLQLAAEAAGVPGLVLR  168 (260)
T ss_pred             EEEEeCCcHHHHHHHHHHhhcccchhheeee-eeecc----c-----------------chhHHHHHHHHhcCCcEEEEe
Confidence            9999999999999999988876666655543 22111    0                 123455555577899999998

>TIGR00958 3a01208 Conjugate Transporter-2 (CT2) Family protein

Probab=97.66  E-value=0.00018  Score=74.34  Aligned_cols=36  Identities=33%  Similarity=0.444  Sum_probs=30.7

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEE
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCA  152 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~  152 (315)
                      +++|+.+.|.||+|+||||++..++......++.+.
T Consensus       504 i~~Ge~vaIvG~SGsGKSTLl~lL~gl~~p~~G~I~  539 (711)
T TIGR00958       504 LHPGEVVALVGPSGSGKSTVAALLQNLYQPTGGQVL  539 (711)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHHhccCCCCCEEE
Confidence            679999999999999999999988887766655553

>PRK10522 multidrug transporter membrane component/ATP-binding component; Provisional

Probab=97.66  E-value=0.00015  Score=72.72  Aligned_cols=36  Identities=28%  Similarity=0.396  Sum_probs=29.2

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEE
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCA  152 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~  152 (315)
                      +++|+.+.|.|++|+|||||+..++.......+.+.
T Consensus       346 i~~G~~~aivG~sGsGKSTL~~ll~g~~~~~~G~i~  381 (547)
T PRK10522        346 IKRGELLFLIGGNGSGKSTLAMLLTGLYQPQSGEIL  381 (547)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhCCCCCCCeEEE
Confidence            679999999999999999999888766654444443

>PRK05986 cob(I)alamin adenolsyltransferase/cobinamide ATP-dependent adenolsyltransferase; Validated

Probab=97.65  E-value=0.00085  Score=57.76  Aligned_cols=94  Identities=16%  Similarity=0.188  Sum_probs=63.8

Q ss_pred             CCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCC-C---hHHHHHcC-CCCC----CeEEeCCCC------H
Q 021239          119 KGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENAL-D---PSLAEAMG-IDAE----NLLIAQPDS------A  183 (315)
Q Consensus       119 ~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~-~---~~~~~~~g-~~~~----~l~i~~~~~------~  183 (315)
                      ....+.|++++|.||||.|+.++..++..|.+|+++-|=-.. .   ....+.++ +...    ...+.....      .
T Consensus        21 ~~g~v~v~~g~GkGKtt~a~g~a~ra~g~G~~V~ivQFlKg~~~~GE~~~l~~l~~v~~~~~g~~~~~~~~~~~e~~~~~  100 (191)
T PRK05986         21 EKGLLIVHTGNGKGKSTAAFGMALRAVGHGKKVGVVQFIKGAWSTGERNLLEFGGGVEFHVMGTGFTWETQDRERDIAAA  100 (191)
T ss_pred             cCCeEEEECCCCCChHHHHHHHHHHHHHCCCeEEEEEEecCCCccCHHHHHhcCCCcEEEECCCCCcccCCCcHHHHHHH
Confidence            445899999999999999999999999999999998875433 1   23344332 1111    111111111      1


Q ss_pred             HHHHHHHHHHHHcCCccEEeehhHhhhcc
Q 021239          184 ENLLSVVDTLTKSGSIDVIVVDSVAALIP  212 (315)
Q Consensus       184 e~~~~~i~~l~~~~~~~lVVIDsl~~l~~  212 (315)
                      .+.++.+++.+.+..+++||+|.+.....
T Consensus       101 ~~~~~~a~~~l~~~~ydlvVLDEi~~Al~  129 (191)
T PRK05986        101 REGWEEAKRMLADESYDLVVLDELTYALK  129 (191)
T ss_pred             HHHHHHHHHHHhCCCCCEEEEehhhHHHH
Confidence            23455566777788999999999998773

>PRK08233 hypothetical protein; Provisional

Probab=97.65  E-value=0.00012  Score=62.04  Aligned_cols=82  Identities=21%  Similarity=0.305  Sum_probs=48.5

Q ss_pred             CcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCC-h-HHHHHcCCCCCCeEEeCCCCHHHHHHHHHHHHHcC
Q 021239          120 GRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALD-P-SLAEAMGIDAENLLIAQPDSAENLLSVVDTLTKSG  197 (315)
Q Consensus       120 G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~-~-~~~~~~g~~~~~l~i~~~~~~e~~~~~i~~l~~~~  197 (315)
                      +.++.|.|+||+||||+|..++....  +..+++++...... . .....+. +..+.   .....+.+.+.+..+....
T Consensus         3 ~~iI~I~G~~GsGKtTla~~L~~~l~--~~~~~~~d~~~~~~~~~~~~~~~~-~~~~~---~~~~~~~~~~~l~~~~~~~   76 (182)
T PRK08233          3 TKIITIAAVSGGGKTTLTERLTHKLK--NSKALYFDRYDFDNCPEDICKWID-KGANY---SEWVLTPLIKDIQELIAKS   76 (182)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhhCC--CCceEEECCEEcccCchhhhhhhh-ccCCh---hhhhhHHHHHHHHHHHcCC
Confidence            57899999999999999999987653  23555555432111 1 1111111 01111   2334456666676666656


Q ss_pred             CccEEeehhH
Q 021239          198 SIDVIVVDSV  207 (315)
Q Consensus       198 ~~~lVVIDsl  207 (315)
                      +.++|++|..
T Consensus        77 ~~~~vivd~~   86 (182)
T PRK08233         77 NVDYIIVDYP   86 (182)
T ss_pred             CceEEEEeee
Confidence            6688888964

>cd02037 MRP-like MRP (Multiple Resistance and pH adaptation) is a homologue of the Fer4_NifH superfamily

Probab=97.65  E-value=0.00025  Score=59.74  Aligned_cols=76  Identities=20%  Similarity=0.256  Sum_probs=50.7

Q ss_pred             EEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCCh-HHHHHcCCCCCCeEEeCCCCHHHHH-HHHHHHHHcCCc
Q 021239          122 IVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP-SLAEAMGIDAENLLIAQPDSAENLL-SVVDTLTKSGSI  199 (315)
Q Consensus       122 i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~-~~~~~~g~~~~~l~i~~~~~~e~~~-~~i~~l~~~~~~  199 (315)
                      +....+.+|+||||++.++|..++..|.+|+.+|++..... .+.  +          ........+ ..+..+ ...+.
T Consensus         2 i~v~s~kgG~GKTt~a~~LA~~la~~g~~vllvD~D~q~~~~~~~--~----------~~~~~~~~l~~~~~~~-~~~~y   68 (169)
T cd02037           2 IAVMSGKGGVGKSTVAVNLALALAKLGYKVGLLDADIYGPSIPKM--W----------RGPMKMGAIKQFLTDV-DWGEL   68 (169)
T ss_pred             EEEecCCCcCChhHHHHHHHHHHHHcCCcEEEEeCCCCCCCchHH--H----------hCcchHHHHHHHHHHh-hcCCC
Confidence            45667789999999999999999999999999999876542 111  0          001112222 222222 23578


Q ss_pred             cEEeehhHhhh
Q 021239          200 DVIVVDSVAAL  210 (315)
Q Consensus       200 ~lVVIDsl~~l  210 (315)
                      ++||||.-..+
T Consensus        69 D~VIiD~pp~~   79 (169)
T cd02037          69 DYLVIDMPPGT   79 (169)
T ss_pred             CEEEEeCCCCC
Confidence            99999986554

Like the other members of the superfamily, MRP contains a ATP-binding domain at the N-termini. It is found in bacteria as a membrane-spanning protein and functions as a Na+/H+ antiporter.

>COG4175 ProV ABC-type proline/glycine betaine transport system, ATPase component [Amino acid transport and metabolism]

Probab=97.64  E-value=0.00048  Score=63.27  Aligned_cols=123  Identities=20%  Similarity=0.267  Sum_probs=71.7

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCC-------hHHHHHcCCCCCCeEEeCC---------
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALD-------PSLAEAMGIDAENLLIAQP---------  180 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~-------~~~~~~~g~~~~~l~i~~~---------  180 (315)
                      ++.|++.+|.|-+|||||||...+-.-.-...+++ +++.++-..       ..|.+.+++.++++-+.+.         
T Consensus        51 v~~GeIfViMGLSGSGKSTLvR~~NrLiept~G~i-lv~g~di~~~~~~~Lr~~Rr~~~sMVFQ~FaLlPhrtVl~Nv~f  129 (386)
T COG4175          51 VEEGEIFVIMGLSGSGKSTLVRLLNRLIEPTRGEI-LVDGKDIAKLSAAELRELRRKKISMVFQSFALLPHRTVLENVAF  129 (386)
T ss_pred             ecCCeEEEEEecCCCCHHHHHHHHhccCCCCCceE-EECCcchhcCCHHHHHHHHhhhhhhhhhhhccccchhHhhhhhc
Confidence            67899999999999999999987654443344454 455443221       1244455555443322211         


Q ss_pred             -------CCHH---HHHHH---------------------------HHHHHHcCCccEEeehhH-hhhccccccCCCccC
Q 021239          181 -------DSAE---NLLSV---------------------------VDTLTKSGSIDVIVVDSV-AALIPKCEIGVPING  222 (315)
Q Consensus       181 -------~~~e---~~~~~---------------------------i~~l~~~~~~~lVVIDsl-~~l~~~~~~~~~~~~  222 (315)
                             +..|   ...++                           .+.+  ..+++++..|.- +++-|          
T Consensus       130 GLev~Gv~~~er~~~a~~~l~~VgL~~~~~~yp~eLSGGMqQRVGLARAl--a~~~~IlLMDEaFSALDP----------  197 (386)
T COG4175         130 GLEVQGVPKAEREERALEALELVGLEGYADKYPNELSGGMQQRVGLARAL--ANDPDILLMDEAFSALDP----------  197 (386)
T ss_pred             ceeecCCCHHHHHHHHHHHHHHcCchhhhhcCcccccchHHHHHHHHHHH--ccCCCEEEecCchhhcCh----------
Confidence                   1111   01111                           1111  246788888843 33332          


Q ss_pred             CChHHHHHHHHHHHHHHHHHHhccCcEEEEEeccccc
Q 021239          223 MYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVRFS  259 (315)
Q Consensus       223 ~~~~~q~r~i~~~l~~L~~~~~~~~i~VI~inq~~~~  259 (315)
                          ....++...|.+|.   ++++-|||+++|--+.
T Consensus       198 ----LIR~~mQdeLl~Lq---~~l~KTIvFitHDLdE  227 (386)
T COG4175         198 ----LIRTEMQDELLELQ---AKLKKTIVFITHDLDE  227 (386)
T ss_pred             ----HHHHHHHHHHHHHH---HHhCCeEEEEecCHHH
Confidence                33445667777777   7889999999997544

>PRK11160 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed

Probab=97.64  E-value=0.00022  Score=71.99  Aligned_cols=37  Identities=24%  Similarity=0.329  Sum_probs=30.7

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEE
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCA  152 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~  152 (315)
                      =+++|+.+.|.||+|+|||||+..++.......+.+.
T Consensus       362 ~i~~G~~~aivG~sGsGKSTL~~ll~g~~~p~~G~I~  398 (574)
T PRK11160        362 QIKAGEKVALLGRTGCGKSTLLQLLTRAWDPQQGEIL  398 (574)
T ss_pred             EECCCCEEEEECCCCCCHHHHHHHHhcCCCCCCceEE
Confidence            3679999999999999999999888877765555543

>TIGR02928 orc1/cdc6 family replication initiation protein

Probab=97.64  E-value=0.00045  Score=65.43  Aligned_cols=87  Identities=23%  Similarity=0.311  Sum_probs=54.6

Q ss_pred             cEEEEEecCCCChhHHHHHHHHHHHhc--C----CeEEEEecCCCCCh-----HHHHHc---CCCCCCeEEeCCCCHHHH
Q 021239          121 RIVEIYGREASGKTTLALHVIKEAQKL--G----GYCAYLDVENALDP-----SLAEAM---GIDAENLLIAQPDSAENL  186 (315)
Q Consensus       121 ~i~~i~G~~GsGKTtlal~la~~~~~~--g----~~v~~i~~E~~~~~-----~~~~~~---g~~~~~l~i~~~~~~e~~  186 (315)
                      ..++|+||||+|||+++..++......  +    -.++|+++......     ..++.+   |.....    ...+..++
T Consensus        41 ~~i~I~G~~GtGKT~l~~~~~~~l~~~~~~~~~~~~~v~in~~~~~~~~~~~~~i~~~l~~~~~~~~~----~~~~~~~~  116 (365)
T TIGR02928        41 SNVFIYGKTGTGKTAVTKYVMKELEEAAEDRDVRVVTVYVNCQILDTLYQVLVELANQLRGSGEEVPT----TGLSTSEV  116 (365)
T ss_pred             CcEEEECCCCCCHHHHHHHHHHHHHHHhhccCCceEEEEEECCCCCCHHHHHHHHHHHHhhcCCCCCC----CCCCHHHH
Confidence            468999999999999999988776532  1    36788887554332     233444   322110    11234455


Q ss_pred             HHHHHHHHH-cCCccEEeehhHhhhc
Q 021239          187 LSVVDTLTK-SGSIDVIVVDSVAALI  211 (315)
Q Consensus       187 ~~~i~~l~~-~~~~~lVVIDsl~~l~  211 (315)
                      +..+...+. ..++.+||||.+..+.
T Consensus       117 ~~~l~~~l~~~~~~~vlvIDE~d~L~  142 (365)
T TIGR02928       117 FRRLYKELNERGDSLIIVLDEIDYLV  142 (365)
T ss_pred             HHHHHHHHHhcCCeEEEEECchhhhc
Confidence            544444333 3456789999999886

Members of this protein family are found exclusively in the archaea. This set of DNA binding proteins shows homology to the origin recognition complex subunit 1/cell division control protein 6 family in eukaryotes. Several members may be found in genome and interact with each other.

>PRK14263 phosphate ABC transporter ATP-binding protein; Provisional

Probab=97.64  E-value=0.00026  Score=64.18  Aligned_cols=30  Identities=20%  Similarity=0.297  Sum_probs=26.1

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHH
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQ  145 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~  145 (315)
                      -+++|+++.|.|++|+|||||+..++....
T Consensus        30 ~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~   59 (261)
T PRK14263         30 PIRKNEITGFIGPSGCGKSTVLRSLNRMND   59 (261)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHHcccc
Confidence            367999999999999999999988876653

>PRK09281 F0F1 ATP synthase subunit alpha; Validated

Probab=97.64  E-value=0.0004  Score=68.39  Aligned_cols=114  Identities=18%  Similarity=0.306  Sum_probs=73.6

Q ss_pred             CCCCCccccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCCh--HHHHHc---C
Q 021239           95 SRRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP--SLAEAM---G  169 (315)
Q Consensus        95 ~~~~~~i~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~--~~~~~~---g  169 (315)
                      ....+.+.||+..+|-++.   +-+|.-..|.|++|+|||+||+.++.+....+-.|+|...-+....  +..+.+   +
T Consensus       140 ~~~~~~l~TGi~~ID~l~p---igrGQr~~Ifg~~g~GKt~lal~~i~~~~~~dv~~V~~~IGer~~ev~e~~~~~~~~~  216 (502)
T PRK09281        140 KSVHEPLQTGIKAIDAMIP---IGRGQRELIIGDRQTGKTAIAIDTIINQKGKDVICIYVAIGQKASTVAQVVRKLEEHG  216 (502)
T ss_pred             CCccceeecCCeeeecccc---cccCcEEEeecCCCCCchHHHHHHHHHhcCCCeEEEEEEecCChHHHHHHHHHHhhcC
Confidence            4567789999999999987   7799999999999999999988877766555555678776554433  222222   2


Q ss_pred             CCCCCeEEe-CCC--CHHHHH------HHHHHHHHcCCccEEeehhHhhhc
Q 021239          170 IDAENLLIA-QPD--SAENLL------SVVDTLTKSGSIDVIVVDSVAALI  211 (315)
Q Consensus       170 ~~~~~l~i~-~~~--~~e~~~------~~i~~l~~~~~~~lVVIDsl~~l~  211 (315)
                      .-..-+.+. ..+  ..+...      ...+.+..++.--++++|+++.+.
T Consensus       217 ~l~~tvvv~atsd~p~~~r~~a~~~a~tiAEyfrd~G~~VLli~DdlTr~A  267 (502)
T PRK09281        217 AMEYTIVVAATASDPAPLQYLAPYAGCAMGEYFMDNGKDALIVYDDLSKQA  267 (502)
T ss_pred             CccceEEEEeCCCCCHHHHHHHHHHHHHHHHHHHHcCCCEEEEecCchHHH
Confidence            111122222 222  222222      223344445566799999998875

>COG0488 Uup ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]

Probab=97.64  E-value=0.00032  Score=69.68  Aligned_cols=46  Identities=33%  Similarity=0.428  Sum_probs=36.2

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhc--------CCeEEEEecCCCCC
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKL--------GGYCAYLDVENALD  161 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~--------g~~v~~i~~E~~~~  161 (315)
                      -+.+|+-+.|.|++|+|||||+..++......        +.++.|+.-+....
T Consensus        25 ~~~~G~riGLvG~NGaGKSTLLkilaG~~~~~~G~i~~~~~~~v~~l~Q~~~~~   78 (530)
T COG0488          25 TLNPGERIGLVGRNGAGKSTLLKILAGELEPDSGEVTRPKGLRVGYLSQEPPLD   78 (530)
T ss_pred             eeCCCCEEEEECCCCCCHHHHHHHHcCCCcCCCCeEeecCCceEEEeCCCCCcC
Confidence            46799999999999999999999888766432        33677887666554

>PRK00411 cdc6 cell division control protein 6; Reviewed

Probab=97.64  E-value=0.00039  Score=66.56  Aligned_cols=87  Identities=18%  Similarity=0.254  Sum_probs=57.0

Q ss_pred             cEEEEEecCCCChhHHHHHHHHHHHhcC--CeEEEEecCCCCCh-----HHHHHcCC-CCCCeEEeCCCCHHHHHHHHHH
Q 021239          121 RIVEIYGREASGKTTLALHVIKEAQKLG--GYCAYLDVENALDP-----SLAEAMGI-DAENLLIAQPDSAENLLSVVDT  192 (315)
Q Consensus       121 ~i~~i~G~~GsGKTtlal~la~~~~~~g--~~v~~i~~E~~~~~-----~~~~~~g~-~~~~l~i~~~~~~e~~~~~i~~  192 (315)
                      ..++|+|+||+|||+++..++..+...+  -.++|++.......     ...+.++. ...    ....+.++++..+.+
T Consensus        56 ~~~lI~G~~GtGKT~l~~~v~~~l~~~~~~~~~v~in~~~~~~~~~~~~~i~~~l~~~~~~----~~~~~~~~~~~~~~~  131 (394)
T PRK00411         56 LNVLIYGPPGTGKTTTVKKVFEELEEIAVKVVYVYINCQIDRTRYAIFSEIARQLFGHPPP----SSGLSFDELFDKIAE  131 (394)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHHHHhcCCcEEEEEECCcCCCHHHHHHHHHHHhcCCCCC----CCCCCHHHHHHHHHH
Confidence            4578999999999999999998876543  57888887554332     22333322 110    011245666666665


Q ss_pred             HHH-cCCccEEeehhHhhhc
Q 021239          193 LTK-SGSIDVIVVDSVAALI  211 (315)
Q Consensus       193 l~~-~~~~~lVVIDsl~~l~  211 (315)
                      .+. ...+.+|+||.+..+.
T Consensus       132 ~l~~~~~~~viviDE~d~l~  151 (394)
T PRK00411        132 YLDERDRVLIVALDDINYLF  151 (394)
T ss_pred             HHHhcCCEEEEEECCHhHhh
Confidence            554 3456799999999886

>KOG0738 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=97.63  E-value=0.00022  Score=66.97  Aligned_cols=91  Identities=19%  Similarity=0.208  Sum_probs=65.1

Q ss_pred             ccccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCChHHHHHcCCCCCCeEEeC
Q 021239          100 VISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQ  179 (315)
Q Consensus       100 ~i~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~~~~~~~g~~~~~l~i~~  179 (315)
                      .+|--.|+   .+. |+..|=.-+++.||||+|||.||..+|.++.     +.||....+.-   ..           .-
T Consensus       229 vlPi~mPe---~F~-GirrPWkgvLm~GPPGTGKTlLAKAvATEc~-----tTFFNVSsstl---tS-----------Kw  285 (491)
T KOG0738|consen  229 VLPIWMPE---FFK-GIRRPWKGVLMVGPPGTGKTLLAKAVATECG-----TTFFNVSSSTL---TS-----------KW  285 (491)
T ss_pred             hhhhhhHH---HHh-hcccccceeeeeCCCCCcHHHHHHHHHHhhc-----CeEEEechhhh---hh-----------hh
Confidence            34444444   355 7888888899999999999999999988883     56666322110   00           01


Q ss_pred             CCCHHHHHHHHHHHHHcCCccEEeehhHhhhccc
Q 021239          180 PDSAENLLSVVDTLTKSGSIDVIVVDSVAALIPK  213 (315)
Q Consensus       180 ~~~~e~~~~~i~~l~~~~~~~lVVIDsl~~l~~~  213 (315)
                      -.+.|.++..+-++.+-+.|..|+||.|..+..+
T Consensus       286 RGeSEKlvRlLFemARfyAPStIFiDEIDslcs~  319 (491)
T KOG0738|consen  286 RGESEKLVRLLFEMARFYAPSTIFIDEIDSLCSQ  319 (491)
T ss_pred             ccchHHHHHHHHHHHHHhCCceeehhhHHHHHhc
Confidence            1245778888888888889999999999999843

>TIGR00767 rho transcription termination factor Rho

Probab=97.63  E-value=0.00018  Score=68.62  Aligned_cols=102  Identities=21%  Similarity=0.215  Sum_probs=61.7

Q ss_pred             CcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHhc-CC-eEEEEec-CCCCCh-HHHHHcCCCCCCeEEeC
Q 021239          104 GSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKL-GG-YCAYLDV-ENALDP-SLAEAMGIDAENLLIAQ  179 (315)
Q Consensus       104 G~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~~-g~-~v~~i~~-E~~~~~-~~~~~~g~~~~~l~i~~  179 (315)
                      |+..+|-.+.   +.+|+.+.|.||+|+||||++..++...... .. .+++.-. |...+. ...+.+.   ..+....
T Consensus       155 ~~R~id~~~p---ig~Gq~~~IvG~~g~GKTtL~~~i~~~I~~nhfdv~v~VlLIgER~~EVtDLqrsIl---g~Vvast  228 (415)
T TIGR00767       155 STRVLDLFAP---IGKGQRGLIVAPPKAGKTVLLQKIAQAITRNHPEVELIVLLIDERPEEVTDMQRSVK---GEVVAST  228 (415)
T ss_pred             ceeeeeeEEE---eCCCCEEEEECCCCCChhHHHHHHHHhhcccCCceEEEEEEcCCCCccHHHHHHHhh---ceEEEec
Confidence            4445566665   6799999999999999999998887776544 11 3333333 322332 3333331   1233322


Q ss_pred             CC-C-------HHHHHHHHHHHHHcCCccEEeehhHhhhc
Q 021239          180 PD-S-------AENLLSVVDTLTKSGSIDVIVVDSVAALI  211 (315)
Q Consensus       180 ~~-~-------~e~~~~~i~~l~~~~~~~lVVIDsl~~l~  211 (315)
                      .+ +       .+.+.+.++++...+.--+|+||+++.+.
T Consensus       229 ~d~p~~~~~~va~~v~e~Ae~~~~~GkdVVLlIDEitR~a  268 (415)
T TIGR00767       229 FDEPASRHVQVAEMVIEKAKRLVEHKKDVVILLDSITRLA  268 (415)
T ss_pred             CCCChHHHHHHHHHHHHHHHHHHHcCCCeEEEEEChhHHH
Confidence            22 1       12334445555566666799999999876

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

>COG1132 MdlB ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]

Probab=97.63  E-value=0.00037  Score=70.13  Aligned_cols=58  Identities=26%  Similarity=0.302  Sum_probs=40.7

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecC---CCCChHHHHHcCCCCCC
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVE---NALDPSLAEAMGIDAEN  174 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E---~~~~~~~~~~~g~~~~~  174 (315)
                      -+++|+.+.|.||+|+||||++.-++.-.-...|.+.+ |..   +-....+.+.+++.+++
T Consensus       351 ~i~~Ge~vaiVG~sGsGKSTl~~LL~r~~~~~~G~I~i-dg~dI~~i~~~~lr~~I~~V~Qd  411 (567)
T COG1132         351 SIEPGEKVAIVGPSGSGKSTLIKLLLRLYDPTSGEILI-DGIDIRDISLDSLRKRIGIVSQD  411 (567)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhccCCCCCCeEEE-CCEehhhcCHHHHHHhccEEccc
Confidence            47899999999999999999998887777665666655 321   11222455666765553

>PRK09280 F0F1 ATP synthase subunit beta; Validated

Probab=97.63  E-value=0.00062  Score=66.24  Aligned_cols=114  Identities=21%  Similarity=0.365  Sum_probs=74.1

Q ss_pred             CCCCCccccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHhc-CCeEEEEecCCCCCh--HHHHH-cCC
Q 021239           95 SRRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKL-GGYCAYLDVENALDP--SLAEA-MGI  170 (315)
Q Consensus        95 ~~~~~~i~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~~-g~~v~~i~~E~~~~~--~~~~~-~g~  170 (315)
                      ....+.+.||+..+|-++.   +-+|.-+.|.|++|+|||+|+..++.+..+. ...++|....+....  +..+. .+-
T Consensus       122 ~~~~~~l~TGiraID~l~p---igkGQR~gIfa~~GvGKt~Ll~~i~~~~~~~~~~v~V~~liGER~rEv~efi~~~~~~  198 (463)
T PRK09280        122 STKTEILETGIKVIDLLAP---YAKGGKIGLFGGAGVGKTVLIQELINNIAKEHGGYSVFAGVGERTREGNDLYHEMKES  198 (463)
T ss_pred             CCccceeccCCeeecccCC---cccCCEEEeecCCCCChhHHHHHHHHHHHhcCCCEEEEEEeccCcHHHHHHHHHHHhc
Confidence            4567789999999999987   7799999999999999999999999888754 446666665444433  22222 221


Q ss_pred             C-CCC-eEE-eCCC--CHHHHH------HHHHHHHH-cCCccEEeehhHhhhc
Q 021239          171 D-AEN-LLI-AQPD--SAENLL------SVVDTLTK-SGSIDVIVVDSVAALI  211 (315)
Q Consensus       171 ~-~~~-l~i-~~~~--~~e~~~------~~i~~l~~-~~~~~lVVIDsl~~l~  211 (315)
                      . .++ +.+ ...+  +.+.+.      .+.+.+.. ++.--++++||++.+.
T Consensus       199 ~~l~rsvvV~atsd~p~~~r~~a~~~a~tiAEyfrd~~G~~VLll~DslTR~A  251 (463)
T PRK09280        199 GVLDKTALVFGQMNEPPGARLRVALTGLTMAEYFRDVEGQDVLLFIDNIFRFT  251 (463)
T ss_pred             CCcceeEEEEECCCCCHHHHHHHHHHHHHHHHHHHHhcCCceEEEecchHHHH
Confidence            1 122 222 2222  222222      23334444 5556689999999876

>TIGR03305 alt_F1F0_F1_bet alternate F1F0 ATPase, F1 subunit beta

Probab=97.63  E-value=0.00056  Score=66.35  Aligned_cols=114  Identities=18%  Similarity=0.336  Sum_probs=74.1

Q ss_pred             CCCCCccccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHhc-CCeEEEEecCCCCCh--HHHHHc-CC
Q 021239           95 SRRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKL-GGYCAYLDVENALDP--SLAEAM-GI  170 (315)
Q Consensus        95 ~~~~~~i~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~~-g~~v~~i~~E~~~~~--~~~~~~-g~  170 (315)
                      ....+.+.||+..+|-++.   +-+|.-..|.|++|+|||+|+.+++.+..+. ...++|....+....  +..+.+ +-
T Consensus       116 ~~i~e~L~TGIr~ID~l~p---igkGQr~~Ifg~~G~GKt~l~~~~~~~~~~~~~~v~V~~~iGeR~rEv~e~~~~~~~~  192 (449)
T TIGR03305       116 SSKSEVFETGIKAIDVLVP---LERGGKAGLFGGAGVGKTVLLTEMIHNMVGQHQGVSIFCGIGERCREGEELYREMKEA  192 (449)
T ss_pred             ccCCcccccCceeeccccc---cccCCEEEeecCCCCChhHHHHHHHHHHHhcCCCEEEEEEeccCcHHHHHHHHHHhhc
Confidence            4567899999999999987   7799999999999999999999999997643 456777665444443  222222 21


Q ss_pred             C-CCC-eEEe-CCC--CHHHH------HHHHHHHHH-cCCccEEeehhHhhhc
Q 021239          171 D-AEN-LLIA-QPD--SAENL------LSVVDTLTK-SGSIDVIVVDSVAALI  211 (315)
Q Consensus       171 ~-~~~-l~i~-~~~--~~e~~------~~~i~~l~~-~~~~~lVVIDsl~~l~  211 (315)
                      . .++ +.+. ..+  ..+..      ....+.+.. ++.--++++||++.+.
T Consensus       193 ~~l~rtvvv~~ts~~~~~~r~~~~~~a~tiAEyfrd~~G~~VLl~~DslTR~A  245 (449)
T TIGR03305       193 GVLDNTVMVFGQMNEPPGARFRVGHTALTMAEYFRDDEKQDVLLLIDNIFRFI  245 (449)
T ss_pred             cccceEEEEEeCCCCCHHHHHHHHHHHHHHHHHHHHhcCCceEEEecChHHHH
Confidence            1 122 2222 222  22222      122333433 4555689999999876

A small number of taxonomically diverse prokaryotic species have what appears to be a second ATP synthase, in addition to the normal F1F0 ATPase in bacteria and A1A0 ATPase in archaea. These enzymes use ion gradients to synthesize ATP, and in principle may run in either direction. This model represents the F1 beta subunit of this apparent second ATP synthase.

>TIGR03269 met_CoM_red_A2 methyl coenzyme M reductase system, component A2

Probab=97.63  E-value=0.00026  Score=70.53  Aligned_cols=37  Identities=27%  Similarity=0.364  Sum_probs=29.8

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEE
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAY  153 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~  153 (315)
                      +++|+++.|.||+|+|||||+..++.......+.+.|
T Consensus       307 i~~Ge~~~l~G~NGsGKSTLl~~l~Gl~~p~~G~i~~  343 (520)
T TIGR03269       307 VKEGEIFGIVGTSGAGKTTLSKIIAGVLEPTSGEVNV  343 (520)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhCCCCCCCeEEEE
Confidence            6799999999999999999998887665444555544

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.

>TIGR02858 spore_III_AA stage III sporulation protein AA

Probab=97.63  E-value=0.00017  Score=65.71  Aligned_cols=123  Identities=19%  Similarity=0.084  Sum_probs=66.7

Q ss_pred             HHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCC-C---ChHHHHHcCCCCCCeEEeCCC
Q 021239          106 LKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENA-L---DPSLAEAMGIDAENLLIAQPD  181 (315)
Q Consensus       106 ~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~-~---~~~~~~~~g~~~~~l~i~~~~  181 (315)
                      ..|+.+.. .|-  ...+.|.|++|+|||||+..++.......+.+. ++...- .   ..+++..++.-+++-.....+
T Consensus       100 ~~l~~l~~-~~~--~~~~~i~g~~g~GKttl~~~l~~~~~~~~G~i~-~~g~~v~~~d~~~ei~~~~~~~~q~~~~~r~~  175 (270)
T TIGR02858       100 KLLPYLVR-NNR--VLNTLIISPPQCGKTTLLRDLARILSTGISQLG-LRGKKVGIVDERSEIAGCVNGVPQHDVGIRTD  175 (270)
T ss_pred             HHHHHHHh-CCC--eeEEEEEcCCCCCHHHHHHHHhCccCCCCceEE-ECCEEeecchhHHHHHHHhccccccccccccc
Confidence            34566654 221  157899999999999999998877765444443 332211 1   123444444333322111111


Q ss_pred             ---CHHHHHHHHHHHHHcCCccEEeehhHhhhccccccCCCccCCChHHHHHHHHHHHHHHHHHHhccCcEEEEEeccc
Q 021239          182 ---SAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVR  257 (315)
Q Consensus       182 ---~~e~~~~~i~~l~~~~~~~lVVIDsl~~l~~~~~~~~~~~~~~~~~q~r~i~~~l~~L~~~~~~~~i~VI~inq~~  257 (315)
                         .... ..-+..++...+|+++++|.+...                   ..+...+..+    . .|.++|++.|..
T Consensus       176 v~~~~~k-~~~~~~~i~~~~P~villDE~~~~-------------------e~~~~l~~~~----~-~G~~vI~ttH~~  229 (270)
T TIGR02858       176 VLDGCPK-AEGMMMLIRSMSPDVIVVDEIGRE-------------------EDVEALLEAL----H-AGVSIIATAHGR  229 (270)
T ss_pred             ccccchH-HHHHHHHHHhCCCCEEEEeCCCcH-------------------HHHHHHHHHH----h-CCCEEEEEechh
Confidence               1111 222444555568999999984210                   1122222222    3 599999999964

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.

>PF02283 CobU: Cobinamide kinase / cobinamide phosphate guanyltransferase; InterPro: IPR003203 This family is composed of a group of bifunctional cobalbumin biosynthesis enzymes which display cobinamide kinase and cobinamide phosphate guanyltransferase activity

Probab=97.62  E-value=4.7e-05  Score=64.39  Aligned_cols=122  Identities=17%  Similarity=0.325  Sum_probs=61.6

Q ss_pred             EEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCChHHHHHcCC----CCCCeE-EeCCCCHHHHHHHHHHHHHcC
Q 021239          123 VEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGI----DAENLL-IAQPDSAENLLSVVDTLTKSG  197 (315)
Q Consensus       123 ~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~~~~~~~g~----~~~~l~-i~~~~~~e~~~~~i~~l~~~~  197 (315)
                      |+|.|...||||.+|..++   ...+.+++|+.+-...+.++.+++.-    -+.... +..+.+..+.+   ..   ..
T Consensus         1 ilv~GG~rSGKS~~Ae~la---~~~~~~~~YiAT~~~~D~em~~RI~~H~~~R~~~w~tiE~~~~l~~~~---~~---~~   71 (167)
T PF02283_consen    1 ILVTGGARSGKSSFAERLA---LSFGGPVTYIATARPFDEEMRERIARHRQRRPKGWITIEEPRDLAEAL---EE---LS   71 (167)
T ss_dssp             EEEEESTTSSHHHHHHHHH---TS--SCEEEEESSHHHHHHHHHHHHHHHHHSSTCEEEEE-SS-GGGTS----T---TS
T ss_pred             CEEeCCCCcchHHHHHHHH---HhcCCCcEEEeCCCCCCHHHHHHHHHHHHhCCCCcEEEecchhHHHHH---HH---hc
Confidence            6899999999999999998   33358999999877776544443311    022222 22233222221   11   12


Q ss_pred             CccEEeehhHhhhccccccCCCccCCChHHHHHHHHHHHHHHHHHHhcc-CcEEEEEecccccc
Q 021239          198 SIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQS-HTLIIFLNQVRFSA  260 (315)
Q Consensus       198 ~~~lVVIDsl~~l~~~~~~~~~~~~~~~~~q~r~i~~~l~~L~~~~~~~-~i~VI~inq~~~~~  260 (315)
                      ..+.|+||+++.+.. ..+......      ...+...+.++...+.+. .-.||++|.+...+
T Consensus        72 ~~~~vLlDclt~wl~-n~l~~~~~~------~~~~~~~i~~~l~~l~~~~~~lViVsnEVG~Gi  128 (167)
T PF02283_consen   72 PGDVVLLDCLTLWLA-NLLFAEEDD------EEDILEEIERLLEALRERNADLVIVSNEVGWGI  128 (167)
T ss_dssp             -T-EEEEE-HHHHHH-HHHHHHHTT------HHHHHHHHHHHHHHHHH--SEEEEEEE---SS-
T ss_pred             cCCeEEEeCHHHHHH-HHHHhccCc------HHHHHHHHHHHHHHHHccCCCEEEEEcCCCCCC
Confidence            258999999999883 222211100      011233333343334444 55677777775443

The crystal structure of the enzyme reveals the molecule to be a trimer with a propeller-like shape [].; GO: 0000166 nucleotide binding, 0043752 adenosylcobinamide kinase activity, 0051188 cofactor biosynthetic process; PDB: 1CBU_C 1C9K_B.

>cd00550 ArsA_ATPase Oxyanion-translocating ATPase (ArsA)

Probab=97.62  E-value=0.00036  Score=63.08  Aligned_cols=39  Identities=18%  Similarity=0.199  Sum_probs=36.4

Q ss_pred             EEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCC
Q 021239          122 IVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENAL  160 (315)
Q Consensus       122 i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~  160 (315)
                      ++.+.|.+|+||||++.+++..+++.|.++++++++...
T Consensus         2 ~~~~~gkgG~GKtt~a~~la~~~a~~g~~vLlvd~D~~~   40 (254)
T cd00550           2 YIFFGGKGGVGKTTISAATAVRLAEQGKKVLLVSTDPAH   40 (254)
T ss_pred             EEEEECCCCchHHHHHHHHHHHHHHCCCCceEEeCCCcc
Confidence            688999999999999999999999999999999998864

This ATPase is involved in transport of arsenite, antimonite or other oxyanions across biological membranes in all three kingdoms of life. ArsA contains a highly conserved AAA motif present in the AAA+ ATPase superfamily associated with a variety of cellular activities. To form a functional ATP-driven pump, ArsA interacts with the permease ArsB, which is a channel-forming integral membrane protein. One of the most interesting features of ArsA is the allosteric activation by its transport substrates. A divalent cation, typically Mg2+, is required for its enzymatic activity.

>cd02034 CooC The accessory protein CooC, which contains a nucleotide-binding domain (P-loop) near the N-terminus, participates in the maturation of the nickel center of carbon monoxide dehydrogenase (CODH)

Probab=97.62  E-value=0.00048  Score=54.66  Aligned_cols=85  Identities=24%  Similarity=0.297  Sum_probs=54.6

Q ss_pred             EEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCChHHHHHcCCCCCC-eE--EeCCC--------CHH--HHHHH
Q 021239          123 VEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAEN-LL--IAQPD--------SAE--NLLSV  189 (315)
Q Consensus       123 ~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~~~~~~~g~~~~~-l~--i~~~~--------~~e--~~~~~  189 (315)
                      +.+.|.+|+|||+++..++....+++.+++.++.+.   ..+.+.++....+ ..  ..-+.        ..+  .+.+.
T Consensus         2 i~~~GkgG~GKTt~a~~la~~l~~~g~~V~~id~D~---~~~~~~~~~~~~~~~~~i~~g~~~~~~~g~~~~~n~~~~~~   78 (116)
T cd02034           2 IAITGKGGVGKTTIAALLARYLAEKGKPVLAIDADP---DDLPERLSVEVGEIKLLLVMGMGRPGGEGCYCPENALLNAL   78 (116)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEECCc---hhhHHHHhhccCCceEEEEecccccCCCCCEehhhHHHHHH
Confidence            679999999999999999999988899999999887   3333444333221 11  11111        011  23333


Q ss_pred             HHHHHHcCCccEEeehhHhhhc
Q 021239          190 VDTLTKSGSIDVIVVDSVAALI  211 (315)
Q Consensus       190 i~~l~~~~~~~lVVIDsl~~l~  211 (315)
                      +..+ ...+.+.+++|....+.
T Consensus        79 l~~~-~~~~~~~vivDt~ag~e   99 (116)
T cd02034          79 LRHL-VLTRDEQVVVDTEAGLE   99 (116)
T ss_pred             HHHe-EccCCCEEEEecHHHHH
Confidence            3332 22456799999887765

CODH from Rhodospirillum rubrum catalyzes the reversible oxidation of CO to CO2. CODH contains a nickel-iron-sulfur cluster (C-center) and an iron-sulfur cluster (B-center). CO oxidation occurs at the C-center. Three accessory proteins encoded by cooCTJ genes are involved in nickel incorporation into a nickel site. CooC functions as a nickel insertase that mobilizes nickel to apoCODH using energy released from ATP hydrolysis. CooC is a homodimer and has NTPase activities. Mutation at the P-loop abolishs its function.

>COG1137 YhbG ABC-type (unclassified) transport system, ATPase component [General function prediction only]

Probab=97.62  E-value=1.6e-05  Score=68.36  Aligned_cols=63  Identities=22%  Similarity=0.236  Sum_probs=38.7

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCCh--HHHH-HcCCCCCCeEEe
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP--SLAE-AMGIDAENLLIA  178 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~--~~~~-~~g~~~~~l~i~  178 (315)
                      .+.+|+++.+.||+|+||||.-..++.-.....+++++=+.+-+.-+  .||+ .+|+-+++-.++
T Consensus        26 ~v~~GEiVGLLGPNGAGKTT~Fymi~Glv~~d~G~i~ld~~diT~lPm~~RArlGigYLpQE~SIF   91 (243)
T COG1137          26 EVNSGEIVGLLGPNGAGKTTTFYMIVGLVRPDSGKILLDDEDITKLPMHKRARLGIGYLPQEASIF   91 (243)
T ss_pred             EEcCCcEEEEECCCCCCceeEEEEEEEEEecCCceEEECCcccccCChHHHhhcCcccccccchHh
Confidence            36799999999999999999876655555555556544333333333  2332 245556544333

>TIGR02633 xylG D-xylose ABC transporter, ATP-binding protein

Probab=97.62  E-value=0.00018  Score=71.30  Aligned_cols=30  Identities=23%  Similarity=0.304  Sum_probs=26.2

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHH
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQ  145 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~  145 (315)
                      -+++|+++.|.|++|+|||||+..++....
T Consensus        23 ~i~~Ge~~~liG~nGsGKSTLl~~i~G~~~   52 (500)
T TIGR02633        23 EVRPGECVGLCGENGAGKSTLMKILSGVYP   52 (500)
T ss_pred             EEeCCcEEEEECCCCCCHHHHHHHHhCCCC
Confidence            467999999999999999999988876543

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).

>TIGR01187 potA spermidine/putrescine ABC transporter ATP-binding subunit

Probab=97.62  E-value=0.00013  Score=68.30  Aligned_cols=28  Identities=29%  Similarity=0.242  Sum_probs=21.2

Q ss_pred             EEecCCCChhHHHHHHHHHHHhcCCeEE
Q 021239          125 IYGREASGKTTLALHVIKEAQKLGGYCA  152 (315)
Q Consensus       125 i~G~~GsGKTtlal~la~~~~~~g~~v~  152 (315)
                      |.||+|+|||||+..++.......+.+.
T Consensus         1 l~G~nGsGKSTLl~~iaGl~~p~~G~I~   28 (325)
T TIGR01187         1 LLGPSGCGKTTLLRLLAGFEQPDSGSIM   28 (325)
T ss_pred             CcCCCCCCHHHHHHHHHCCCCCCceEEE
Confidence            5799999999999888876554444443

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).

>COG4148 ModC ABC-type molybdate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=97.62  E-value=9.1e-05  Score=66.83  Aligned_cols=56  Identities=21%  Similarity=0.280  Sum_probs=36.9

Q ss_pred             CCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeE-----EEEecCCCCCh-HHHHHcCCCCC
Q 021239          118 PKGRIVEIYGREASGKTTLALHVIKEAQKLGGYC-----AYLDVENALDP-SLAEAMGIDAE  173 (315)
Q Consensus       118 ~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v-----~~i~~E~~~~~-~~~~~~g~~~~  173 (315)
                      |.-.++.|+|++|+|||++...++.-.....+.+     +++|.+....- .-.+++|+.++
T Consensus        22 p~~GvTAlFG~SGsGKTslin~IaGL~rPdeG~I~lngr~L~Ds~k~i~lp~~~RriGYVFQ   83 (352)
T COG4148          22 PARGITALFGPSGSGKTSLINMIAGLTRPDEGRIELNGRVLVDAEKGIFLPPEKRRIGYVFQ   83 (352)
T ss_pred             CCCceEEEecCCCCChhhHHHHHhccCCccccEEEECCEEeecccCCcccChhhheeeeEee
Confidence            3337999999999999999977766554433332     24666555432 34566777655

>PRK14269 phosphate ABC transporter ATP-binding protein; Provisional

Probab=97.62  E-value=0.00057  Score=61.24  Aligned_cols=28  Identities=18%  Similarity=0.342  Sum_probs=25.1

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHH
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEA  144 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~  144 (315)
                      +.+|+++.|.|++|+|||||+..++...
T Consensus        25 i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   52 (246)
T PRK14269         25 IEQNKITALIGASGCGKSTFLRCFNRMN   52 (246)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhccc
Confidence            5689999999999999999999888754

>PF00006 ATP-synt_ab: ATP synthase alpha/beta family, nucleotide-binding domain This Pfam entry corresponds to chains a,b,c,d,e and f; InterPro: IPR000194 ATPases (or ATP synthases) are membrane-bound enzyme complexes/ion transporters that combine ATP synthesis and/or hydrolysis with the transport of protons across a membrane

Probab=97.62  E-value=0.00036  Score=61.41  Aligned_cols=104  Identities=20%  Similarity=0.366  Sum_probs=67.6

Q ss_pred             cCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCCh--HHHHHc-CC-CCCC--eE
Q 021239          103 TGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP--SLAEAM-GI-DAEN--LL  176 (315)
Q Consensus       103 TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~--~~~~~~-g~-~~~~--l~  176 (315)
                      ||+..+|-++.   +-+|.-+.|.|++|+|||+|+..++.+..  ...++|+...+....  +..+.+ +- ..++  +.
T Consensus         1 TGir~ID~l~P---ig~Gqr~~I~g~~g~GKt~Ll~~i~~~~~--~d~~V~~~iGer~~Ev~~~~~~~~~~~~~~~t~vv   75 (215)
T PF00006_consen    1 TGIRAIDLLFP---IGRGQRIGIFGGAGVGKTVLLQEIANNQD--ADVVVYALIGERGREVTEFIEELKGEGALERTVVV   75 (215)
T ss_dssp             -SHHHHHHHSC---EETTSEEEEEESTTSSHHHHHHHHHHHCT--TTEEEEEEESECHHHHHHHHHHHHHTTGGGGEEEE
T ss_pred             CCCceeccccc---cccCCEEEEEcCcccccchhhHHHHhccc--ccceeeeeccccchhHHHHHHHHhhcccccccccc
Confidence            79999999986   77999999999999999999999998885  334577776555443  222222 11 1222  23


Q ss_pred             EeCCCCH--HH------HHHHHHHHHHcCCccEEeehhHhhhc
Q 021239          177 IAQPDSA--EN------LLSVVDTLTKSGSIDVIVVDSVAALI  211 (315)
Q Consensus       177 i~~~~~~--e~------~~~~i~~l~~~~~~~lVVIDsl~~l~  211 (315)
                      ....+..  ++      -....+.+..+++--++++|++..+.
T Consensus        76 ~~t~~~~~~~r~~~~~~a~t~AEyfrd~G~dVlli~Dsltr~a  118 (215)
T PF00006_consen   76 AATSDEPPAARYRAPYTALTIAEYFRDQGKDVLLIIDSLTRWA  118 (215)
T ss_dssp             EEETTS-HHHHHHHHHHHHHHHHHHHHTTSEEEEEEETHHHHH
T ss_pred             cccchhhHHHHhhhhccchhhhHHHhhcCCceeehhhhhHHHH
Confidence            3333322  21      22334555566667799999998876

ATPases can harness the energy from a proton gradient, using the flux of ions across the membrane via the ATPase proton channel to drive the synthesis of ATP. Some ATPases work in reverse, using the energy from the hydrolysis of ATP to create a proton gradient. There are different types of ATPases, which can differ in function (ATP synthesis and/or hydrolysis), structure (e.g., F-, V- and A-ATPases, which contain rotary motors) and in the type of ions they transport [, ]. The different types include: F-ATPases (F1F0-ATPases), which are found in mitochondria, chloroplasts and bacterial plasma membranes where they are the prime producers of ATP, using the proton gradient generated by oxidative phosphorylation (mitochondria) or photosynthesis (chloroplasts). V-ATPases (V1V0-ATPases), which are primarily found in eukaryotic vacuoles and catalyse ATP hydrolysis to transport solutes and lower pH in organelles. A-ATPases (A1A0-ATPases), which are found in Archaea and function like F-ATPases (though with respect to their structure and some inhibitor responses, A-ATPases are more closely related to the V-ATPases). P-ATPases (E1E2-ATPases), which are found in bacteria and in eukaryotic plasma membranes and organelles, and function to transport a variety of different ions across membranes. E-ATPases, which are cell-surface enzymes that hydrolyse a range of NTPs, including extracellular ATP. The F-ATPases (or F1F0-ATPases), V-ATPases (or V1V0-ATPases) and A-ATPases (or A1A0-ATPases) are composed of two linked complexes: the F1, V1 or A1 complex contains the catalytic core that synthesizes/hydrolyses ATP, and the F0, V0 or A0 complex that forms the membrane-spanning pore. The F-, V- and A-ATPases all contain rotary motors, one that drives proton translocation across the membrane and one that drives ATP synthesis/hydrolysis [, ]. In F-ATPases, there are three copies each of the alpha and beta subunits that form the catalytic core of the F1 complex, while the remaining F1 subunits (gamma, delta, epsilon) form part of the stalks. There is a substrate-binding site on each of the alpha and beta subunits, those on the beta subunits being catalytic, while those on the alpha subunits are regulatory. The alpha and beta subunits form a cylinder that is attached to the central stalk. The alpha/beta subunits undergo a sequence of conformational changes leading to the formation of ATP from ADP, which are induced by the rotation of the gamma subunit, itself driven by the movement of protons through the F0 complex C subunit []. In V- and A-ATPases, the alpha/A and beta/B subunits of the V1 or A1 complex are homologous to the alpha and beta subunits in the F1 complex of F-ATPases, except that the alpha subunit is catalytic and the beta subunit is regulatory. The structure of the alpha and beta subunits is almost identical. Each subunit consists of a N-terminal beta-barrel, a central domain containing the nucleotide-binding site and a C-terminal alpha bundle domain []. This entry represents the central domain. It is found in the alpha and beta subunits from F1, V1, and A1 complexes, as well as in flagellar ATPase and the termination factor Rho. ; GO: 0005524 ATP binding; PDB: 3OEE_N 2HLD_W 3FKS_N 3OE7_O 3OFN_M 2XOK_D 3OEH_V 2WPD_F 3ZRY_D 2OBL_A ....

>PRK10261 glutathione transporter ATP-binding protein; Provisional

Probab=97.61  E-value=9.1e-05  Score=75.43  Aligned_cols=37  Identities=30%  Similarity=0.555  Sum_probs=29.6

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEE
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCA  152 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~  152 (315)
                      -+.+|+++.|.|++|+|||||+..++.......+.+.
T Consensus        38 ~v~~Ge~~~lvG~nGsGKSTLl~~l~Gll~p~~G~i~   74 (623)
T PRK10261         38 SLQRGETLAIVGESGSGKSVTALALMRLLEQAGGLVQ   74 (623)
T ss_pred             EECCCCEEEEECCCCChHHHHHHHHHcCCCCCCeEEE
Confidence            3679999999999999999999998876544444443

>COG0444 DppD ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]

Probab=97.61  E-value=0.00014  Score=66.96  Aligned_cols=30  Identities=37%  Similarity=0.509  Sum_probs=26.9

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHH
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQ  145 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~  145 (315)
                      -+.+|++..|.|++|||||+++..++...-
T Consensus        27 ~i~~GE~lgiVGESGsGKS~~~~aim~llp   56 (316)
T COG0444          27 ELKKGEILGIVGESGSGKSVLAKAIMGLLP   56 (316)
T ss_pred             EEcCCcEEEEEcCCCCCHHHHHHHHHhccC
Confidence            467999999999999999999999987664

>PRK09099 type III secretion system ATPase; Provisional

Probab=97.60  E-value=0.00021  Score=69.25  Aligned_cols=112  Identities=19%  Similarity=0.216  Sum_probs=68.9

Q ss_pred             CCCCccccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCCh-HHHHHc-CC-CC
Q 021239           96 RRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP-SLAEAM-GI-DA  172 (315)
Q Consensus        96 ~~~~~i~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~-~~~~~~-g~-~~  172 (315)
                      ...+.+.||+..+|.++.   +.+|+.+.|.|++|+|||+|+.+++...... ..++.+..|...+- +..+.+ +- ..
T Consensus       142 ~i~e~l~TGi~~ID~l~~---i~~Gq~~~I~G~sG~GKTtLl~~ia~~~~~d-~~vi~~iGer~~ev~ef~~~~~~~~~l  217 (441)
T PRK09099        142 MVEAPLPTGVRIVDGLMT---LGEGQRMGIFAPAGVGKSTLMGMFARGTQCD-VNVIALIGERGREVREFIELILGEDGM  217 (441)
T ss_pred             CcccccCCCceeccceee---ecCCCEEEEECCCCCCHHHHHHHHhCCCCCC-eEEEEEEccChHHHHHHHHHHhhcCCc
Confidence            456789999999999975   6799999999999999999998887655432 23333333433332 111221 11 11


Q ss_pred             CC-eEE-eCCCC--HHHH------HHHHHHHHHcCCccEEeehhHhhhc
Q 021239          173 EN-LLI-AQPDS--AENL------LSVVDTLTKSGSIDVIVVDSVAALI  211 (315)
Q Consensus       173 ~~-l~i-~~~~~--~e~~------~~~i~~l~~~~~~~lVVIDsl~~l~  211 (315)
                      .+ +.+ ...+.  .+..      ....+.+..++.--++++||++.+.
T Consensus       218 ~rtvvv~~tsd~p~~~r~~a~~~a~tiAEyfrd~G~~VLl~~DslTr~A  266 (441)
T PRK09099        218 ARSVVVCATSDRSSIERAKAAYVATAIAEYFRDRGLRVLLMMDSLTRFA  266 (441)
T ss_pred             ceEEEEEECCCCCHHHHHHHHHHHHHHHHHHHHcCCCEEEeccchhHHH
Confidence            22 222 22221  2221      2233445556667799999999876

>PTZ00185 ATPase alpha subunit; Provisional

Probab=97.60  E-value=0.00041  Score=67.89  Aligned_cols=114  Identities=17%  Similarity=0.230  Sum_probs=72.8

Q ss_pred             CCCCCccccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHH--------hcCCeEEEEecCCCCCh--HH
Q 021239           95 SRRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQ--------KLGGYCAYLDVENALDP--SL  164 (315)
Q Consensus        95 ~~~~~~i~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~--------~~g~~v~~i~~E~~~~~--~~  164 (315)
                      ....+.+.||+..+|.++.   +-+|.-..|.|++|+|||++|+..+.+..        .....|+|...-+....  ..
T Consensus       167 ~~v~epL~TGIkaID~LiP---IGRGQR~lIfGd~GtGKTtLAld~IinQ~~~~~~~~~~~~~v~VyvaIGeR~rEV~ei  243 (574)
T PTZ00185        167 SPVNYNLLTGFKAVDTMIP---IGRGQRELIVGDRQTGKTSIAVSTIINQVRINQQILSKNAVISIYVSIGQRCSNVARI  243 (574)
T ss_pred             CCCCCcCcCCceeeecccc---ccCCCEEEeecCCCCChHHHHHHHHHhhhhhccccccCCCCEEEEEEeccchHHHHHH
Confidence            4567889999999999987   67999999999999999999877655554        13457888776554443  22


Q ss_pred             ---HHHcC-CCCCCeEEeCCC--CHHHH------HHHHHHHHHcCCccEEeehhHhhhc
Q 021239          165 ---AEAMG-IDAENLLIAQPD--SAENL------LSVVDTLTKSGSIDVIVVDSVAALI  211 (315)
Q Consensus       165 ---~~~~g-~~~~~l~i~~~~--~~e~~------~~~i~~l~~~~~~~lVVIDsl~~l~  211 (315)
                         .+..| ++-.-+.....+  ...++      ....+.+..++.--++++|+++.+.
T Consensus       244 ~~~L~e~GaL~~TvVV~AtAdep~~~r~~Apy~a~tiAEYFrd~GkdVLiv~DDLTr~A  302 (574)
T PTZ00185        244 HRLLRSYGALRYTTVMAATAAEPAGLQYLAPYSGVTMGEYFMNRGRHCLCVYDDLSKQA  302 (574)
T ss_pred             HHHHHhcCCccceEEEEECCCCCHHHHHHHHHHHHHHHHHHHHcCCCEEEEEcCchHHH
Confidence               22233 221112222222  22222      2223344455666799999998775

>TIGR01257 rim_protein retinal-specific rim ABC transporter

Probab=97.60  E-value=0.00021  Score=80.72  Aligned_cols=38  Identities=21%  Similarity=0.303  Sum_probs=31.8

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEE
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAY  153 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~  153 (315)
                      ++++|+++.|.|++|+||||++..++.......|.+.+
T Consensus      1961 ~I~~GEi~gLLG~NGAGKTTLlkmL~Gll~ptsG~I~i 1998 (2272)
T TIGR01257      1961 GVRPGECFGLLGVNGAGKTTTFKMLTGDTTVTSGDATV 1998 (2272)
T ss_pred             EEcCCcEEEEECCCCCcHHHHHHHHhCCCCCCccEEEE
Confidence            68899999999999999999999888776655555543

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.

>PRK14254 phosphate ABC transporter ATP-binding protein; Provisional

Probab=97.60  E-value=0.00037  Score=64.09  Aligned_cols=28  Identities=18%  Similarity=0.438  Sum_probs=25.3

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHH
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEA  144 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~  144 (315)
                      +.+|+++.|.|++|+|||||+..++...
T Consensus        62 i~~Ge~~~I~G~nGsGKSTLl~~l~Gl~   89 (285)
T PRK14254         62 IPENQVTAMIGPSGCGKSTFLRCINRMN   89 (285)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhccC
Confidence            6799999999999999999998887664

>PRK13545 tagH teichoic acids export protein ATP-binding subunit; Provisional

Probab=97.60  E-value=0.00043  Score=68.41  Aligned_cols=36  Identities=33%  Similarity=0.442  Sum_probs=29.4

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeE
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYC  151 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v  151 (315)
                      -+++|+++.|.|++|+|||||+..++.......+.+
T Consensus        46 sI~~GEivgIiGpNGSGKSTLLkiLaGLl~P~sGeI   81 (549)
T PRK13545         46 EVPEGEIVGIIGLNGSGKSTLSNLIAGVTMPNKGTV   81 (549)
T ss_pred             EEeCCCEEEEEcCCCCCHHHHHHHHhCCCCCCceEE
Confidence            467999999999999999999998887654444444

>PTZ00265 multidrug resistance protein (mdr1); Provisional

Probab=97.60  E-value=0.00037  Score=77.20  Aligned_cols=38  Identities=18%  Similarity=0.251  Sum_probs=31.9

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEE
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAY  153 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~  153 (315)
                      -+++|+.+.|.||+|+|||||+..++.......+.+.+
T Consensus       407 ~i~~Ge~vaIvG~SGsGKSTLl~lL~gl~~p~~G~I~i  444 (1466)
T PTZ00265        407 TLTEGKTYAFVGESGCGKSTILKLIERLYDPTEGDIII  444 (1466)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHHHhccCCCCeEEE
Confidence            47899999999999999999998888777666666544

>KOG0726 consensus 26S proteasome regulatory complex, ATPase RPT2 [Posttranslational modification, protein turnover, chaperones]

Probab=97.59  E-value=9.4e-05  Score=67.06  Aligned_cols=121  Identities=17%  Similarity=0.246  Sum_probs=70.4

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCChH-HHHHcCCCCCCeEEeCCCCHHHHHHHHHHHH
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPS-LAEAMGIDAENLLIAQPDSAENLLSVVDTLT  194 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~~-~~~~~g~~~~~l~i~~~~~~e~~~~~i~~l~  194 (315)
                      |+.+..-+++||+||+|||.||...|.....     .|+-.   ...+ ..+-+            .+...++..+-+..
T Consensus       215 GikpPKGVIlyG~PGTGKTLLAKAVANqTSA-----TFlRv---vGseLiQkyl------------GdGpklvRqlF~vA  274 (440)
T KOG0726|consen  215 GIKPPKGVILYGEPGTGKTLLAKAVANQTSA-----TFLRV---VGSELIQKYL------------GDGPKLVRELFRVA  274 (440)
T ss_pred             CCCCCCeeEEeCCCCCchhHHHHHHhcccch-----hhhhh---hhHHHHHHHh------------ccchHHHHHHHHHH
Confidence            6888888999999999999999776533221     11110   0011 11111            12344555555566


Q ss_pred             HcCCccEEeehhHhhhccccccCCCccCCChHHHHHHHHHHHHHHHHHHhccCcEEEEEeccccc
Q 021239          195 KSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVRFS  259 (315)
Q Consensus       195 ~~~~~~lVVIDsl~~l~~~~~~~~~~~~~~~~~q~r~i~~~l~~L~~~~~~~~i~VI~inq~~~~  259 (315)
                      +.+.|.+|+||.+.++- ...++...|...  .-+|.+...|.+|-.+=.+.++-||+.+.-...
T Consensus       275 ~e~apSIvFiDEIdAiG-tKRyds~Sgger--EiQrtmLELLNQldGFdsrgDvKvimATnrie~  336 (440)
T KOG0726|consen  275 EEHAPSIVFIDEIDAIG-TKRYDSNSGGER--EIQRTMLELLNQLDGFDSRGDVKVIMATNRIET  336 (440)
T ss_pred             HhcCCceEEeehhhhhc-cccccCCCccHH--HHHHHHHHHHHhccCccccCCeEEEEecccccc
Confidence            67899999999999987 456655443321  223345555555544444556777654433333

>PRK10938 putative molybdenum transport ATP-binding protein ModF; Provisional

Probab=97.59  E-value=0.00033  Score=69.28  Aligned_cols=37  Identities=19%  Similarity=0.268  Sum_probs=28.8

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHh-cCCeEEE
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQK-LGGYCAY  153 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~-~g~~v~~  153 (315)
                      +++|+++.|.||+|+|||||+..++..... ..+.+.|
T Consensus       283 i~~Ge~~~i~G~NGsGKSTLl~~l~G~~~~~~~G~i~~  320 (490)
T PRK10938        283 VNPGEHWQIVGPNGAGKSTLLSLITGDHPQGYSNDLTL  320 (490)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHcCCCCcccCCeEEE
Confidence            679999999999999999999988874322 2455544

>PRK13549 xylose transporter ATP-binding subunit; Provisional

Probab=97.59  E-value=0.00018  Score=71.34  Aligned_cols=38  Identities=24%  Similarity=0.329  Sum_probs=29.9

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHH-hcCCeEEE
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQ-KLGGYCAY  153 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~-~~g~~v~~  153 (315)
                      -+++|+++.|.|++|+|||||+..++.... ...+.+.|
T Consensus       284 ~i~~Ge~~~l~G~NGsGKSTLlk~i~Gl~~~~~~G~i~~  322 (506)
T PRK13549        284 SLRRGEILGIAGLVGAGRTELVQCLFGAYPGRWEGEIFI  322 (506)
T ss_pred             EEcCCcEEEEeCCCCCCHHHHHHHHhCCCCCCCCcEEEE
Confidence            367999999999999999999998886654 23555544

>TIGR00955 3a01204 The Eye Pigment Precursor Transporter (EPP) Family protein

Probab=97.58  E-value=0.00034  Score=71.19  Aligned_cols=31  Identities=26%  Similarity=0.398  Sum_probs=27.3

Q ss_pred             CCCCCCcEEEEEecCCCChhHHHHHHHHHHH
Q 021239          115 GGLPKGRIVEIYGREASGKTTLALHVIKEAQ  145 (315)
Q Consensus       115 GGl~~G~i~~i~G~~GsGKTtlal~la~~~~  145 (315)
                      +=+++|+++.|.||+|+|||||+..++....
T Consensus        46 ~~i~~Ge~~aI~G~sGsGKSTLL~~L~g~~~   76 (617)
T TIGR00955        46 GVAKPGELLAVMGSSGAGKTTLMNALAFRSP   76 (617)
T ss_pred             EEEeCCeEEEEECCCCCCHHHHHHHHhCCCC
Confidence            4788999999999999999999988876543

>COG3854 SpoIIIAA ncharacterized protein conserved in bacteria [Function unknown]

Probab=97.58  E-value=0.00054  Score=60.34  Aligned_cols=108  Identities=20%  Similarity=0.279  Sum_probs=66.5

Q ss_pred             CCCcE-EEEEecCCCChhHHHHHHHHHHHh-----cCCeEEEEecCCCCChHHHHHc-CCCC----CCeEEeCC-CCHHH
Q 021239          118 PKGRI-VEIYGREASGKTTLALHVIKEAQK-----LGGYCAYLDVENALDPSLAEAM-GIDA----ENLLIAQP-DSAEN  185 (315)
Q Consensus       118 ~~G~i-~~i~G~~GsGKTtlal~la~~~~~-----~g~~v~~i~~E~~~~~~~~~~~-g~~~----~~l~i~~~-~~~e~  185 (315)
                      +.|.+ +++.|||++||||++..+|....-     .+.+|..+|.-....    ... |++.    .++.+.++ ...+-
T Consensus       134 ~~g~lntLiigpP~~GKTTlLRdiaR~~s~g~~~~l~kkv~IiDersEIa----g~~~gvpq~~~g~R~dVld~cpk~~g  209 (308)
T COG3854         134 QNGWLNTLIIGPPQVGKTTLLRDIARLLSDGINQFLPKKVGIIDERSEIA----GCLNGVPQHGRGRRMDVLDPCPKAEG  209 (308)
T ss_pred             hcCceeeEEecCCCCChHHHHHHHHHHhhccccccCCceEEEEeccchhh----ccccCCchhhhhhhhhhcccchHHHH
Confidence            35666 999999999999999999988763     357888888533221    100 1110    12223332 22333


Q ss_pred             HHHHHHHHHHcCCccEEeehhHhhhccccccCCCccCCChHHHHHHHHHHHHHHHHHHhccCcEEEEEeccc
Q 021239          186 LLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVR  257 (315)
Q Consensus       186 ~~~~i~~l~~~~~~~lVVIDsl~~l~~~~~~~~~~~~~~~~~q~r~i~~~l~~L~~~~~~~~i~VI~inq~~  257 (315)
                      +...    +++..|.++|+|.+.....                +    ..++.    +.+.|+-+|.+.|-.
T Consensus       210 mmma----Irsm~PEViIvDEIGt~~d----------------~----~A~~t----a~~~GVkli~TaHG~  253 (308)
T COG3854         210 MMMA----IRSMSPEVIIVDEIGTEED----------------A----LAILT----ALHAGVKLITTAHGN  253 (308)
T ss_pred             HHHH----HHhcCCcEEEEeccccHHH----------------H----HHHHH----HHhcCcEEEEeeccc
Confidence            4433    4456899999999885541                1    11111    246799999998864

>COG1119 ModF ABC-type molybdenum transport system, ATPase component/photorepair protein PhrA [Inorganic ion transport and metabolism]

Probab=97.58  E-value=0.0014  Score=58.27  Aligned_cols=56  Identities=23%  Similarity=0.230  Sum_probs=38.9

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCC---hHHHHHcCCC
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALD---PSLAEAMGID  171 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~---~~~~~~~g~~  171 (315)
                      =+++|+-..|.|++|+|||||+.-++...-+..+.+..+.-.....   .++.+.+|+.
T Consensus        53 ~V~~ge~W~I~G~NGsGKTTLL~ll~~~~~pssg~~~~~G~~~G~~~~~~elrk~IG~v  111 (257)
T COG1119          53 QVNPGEHWAIVGPNGAGKTTLLSLLTGEHPPSSGDVTLLGRRFGKGETIFELRKRIGLV  111 (257)
T ss_pred             eecCCCcEEEECCCCCCHHHHHHHHhcccCCCCCceeeeeeeccCCcchHHHHHHhCcc
Confidence            4679999999999999999999888777665555555544322211   3556666654

>PRK12597 F0F1 ATP synthase subunit beta; Provisional

Probab=97.58  E-value=0.00063  Score=66.34  Aligned_cols=114  Identities=17%  Similarity=0.312  Sum_probs=73.1

Q ss_pred             CCCCCccccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHhc-CCeEEEEecCCCCCh--HHHHH-cCC
Q 021239           95 SRRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKL-GGYCAYLDVENALDP--SLAEA-MGI  170 (315)
Q Consensus        95 ~~~~~~i~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~~-g~~v~~i~~E~~~~~--~~~~~-~g~  170 (315)
                      ....+.+.||+..+|-++.   +-+|.-+.|.|++|+|||+|+..++.+..++ ...++|....+....  +..+. .+-
T Consensus       121 ~~~~e~l~TGir~ID~l~p---igkGQR~gIfa~~G~GKt~Ll~~~~~~~~~~~~dv~V~~liGER~rEv~ef~~~~~~~  197 (461)
T PRK12597        121 DTSTEILETGIKVIDLLCP---IAKGGKTGLFGGAGVGKTVLMMELIFNISKQHSGSSVFAGVGERSREGHELYHEMKES  197 (461)
T ss_pred             CCcCcceecCCeeecccCc---cccCCEEEeecCCCCChhHHHHHHHHHHHhhCCCEEEEEcCCcchHHHHHHHHHHHhc
Confidence            4567889999999999987   7799999999999999999999999888753 445666655444333  12222 221


Q ss_pred             C-CCC-eEEeCC-C--CHHHH------HHHHHHHHHc-CCccEEeehhHhhhc
Q 021239          171 D-AEN-LLIAQP-D--SAENL------LSVVDTLTKS-GSIDVIVVDSVAALI  211 (315)
Q Consensus       171 ~-~~~-l~i~~~-~--~~e~~------~~~i~~l~~~-~~~~lVVIDsl~~l~  211 (315)
                      . .++ +.+... +  ..+..      ..+.+.+..+ +.--++++||++.+.
T Consensus       198 ~~l~rsvvv~atsd~~~~~R~~a~~~a~tiAEyfrd~~G~~VLl~~DslTR~A  250 (461)
T PRK12597        198 GVLDKTVMVYGQMNEPPGARMRVVLTGLTIAEYLRDEEKEDVLLFIDNIFRFV  250 (461)
T ss_pred             CCcceeEEEecCCCCCHHHHHHHHHHHHHHHHHHHHhcCCceEEEeccchHHH
Confidence            1 122 222222 2  12222      2233444444 556689999998776

>cd01135 V_A-ATPase_B V/A-type ATP synthase (non-catalytic) subunit B

Probab=97.58  E-value=0.0008  Score=61.19  Aligned_cols=114  Identities=13%  Similarity=0.224  Sum_probs=72.5

Q ss_pred             CCCCCccccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHH----hcCCeEEEEecCCCCCh--HHHHHc
Q 021239           95 SRRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQ----KLGGYCAYLDVENALDP--SLAEAM  168 (315)
Q Consensus        95 ~~~~~~i~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~----~~g~~v~~i~~E~~~~~--~~~~~~  168 (315)
                      ....+.+.||+..+|-++.   +-+|.-+.|.|.+|+|||+|+..++.+..    .....|+|...-+....  +..+.+
T Consensus        47 ~~i~e~l~TGIkaID~l~p---ig~GQR~gIfgg~GvGKt~L~~~i~~~~~~~~~~~~~v~V~~~IGeR~rev~e~~~~~  123 (276)
T cd01135          47 IYPEEMIQTGISAIDGMNT---LVRGQKIPIFSGSGLPHNELAAQIARQAGVVGEEENFAVVFAAMGITMEDARFFKDDF  123 (276)
T ss_pred             CCcccccccCcEeeecccc---cccCCEEEeecCCCCChhHHHHHHHHhhhccccCCCCEEEEEEeccccHHHHHHHHHh
Confidence            3567889999999999987   77899999999999999999998877654    11356777776554433  222222


Q ss_pred             -CCC-CCC-eEE-eCCC--CHHHHH------HHHHHHHHc-CCccEEeehhHhhhc
Q 021239          169 -GID-AEN-LLI-AQPD--SAENLL------SVVDTLTKS-GSIDVIVVDSVAALI  211 (315)
Q Consensus       169 -g~~-~~~-l~i-~~~~--~~e~~~------~~i~~l~~~-~~~~lVVIDsl~~l~  211 (315)
                       +-. .++ +.+ ...+  ..+.+.      .+.+.+..+ +.--++++|+++.+.
T Consensus       124 ~~~~~l~~tv~v~~t~~~~~~~r~~a~~~a~aiAEyfrd~~g~~VLl~~D~ltr~A  179 (276)
T cd01135         124 EETGALERVVLFLNLANDPTIERIITPRMALTTAEYLAYEKGKHVLVILTDMTNYA  179 (276)
T ss_pred             hhcCCcceEEEEEecCCCCHHHHHHHHHHHHHHHHHHHhccCCeEEEEEcChhHHH
Confidence             111 122 222 2222  222222      223334344 456689999998776

These ATPases couple ATP hydrolysis to the build up of a H+ gradient, but V-type ATPases do not catalyze the reverse reaction. The Vacuolar (V-type) ATPase is found in the membranes of vacuoles, the golgi apparatus and in other coated vesicles in eukaryotes. Archaea have a protein which is similar in sequence to V-ATPases, but functions like an F-ATPase (called A-ATPase). A similar protein is also found in a few bacteria. This subfamily consists of the non-catalytic beta subunit.

>PRK15134 microcin C ABC transporter ATP-binding protein YejF; Provisional

Probab=97.58  E-value=0.00027  Score=70.60  Aligned_cols=36  Identities=25%  Similarity=0.346  Sum_probs=28.7

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEE
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCA  152 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~  152 (315)
                      -+++|+++.|.|++|+|||||+..++... ...+.+.
T Consensus       308 ~i~~Ge~~~i~G~nGsGKSTLlk~l~Gl~-~~~G~i~  343 (529)
T PRK15134        308 TLRPGETLGLVGESGSGKSTTGLALLRLI-NSQGEIW  343 (529)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhCcC-CCCcEEE
Confidence            36799999999999999999999888654 3444443

>PRK14247 phosphate ABC transporter ATP-binding protein; Provisional

Probab=97.57  E-value=0.00044  Score=62.08  Aligned_cols=30  Identities=27%  Similarity=0.401  Sum_probs=26.3

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHH
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQ  145 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~  145 (315)
                      -+++|+++.|.|++|+|||||+..++....
T Consensus        25 ~i~~Ge~~~i~G~nGsGKSTLl~~i~G~~~   54 (250)
T PRK14247         25 EIPDNTITALMGPSGSGKSTLLRVFNRLIE   54 (250)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhccCC
Confidence            367999999999999999999998887653

>TIGR01039 atpD ATP synthase, F1 beta subunit

Probab=97.57  E-value=0.00079  Score=65.39  Aligned_cols=114  Identities=21%  Similarity=0.373  Sum_probs=72.7

Q ss_pred             CCCCCccccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHhc-CCeEEEEecCCCCCh--HHHHHc-CC
Q 021239           95 SRRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKL-GGYCAYLDVENALDP--SLAEAM-GI  170 (315)
Q Consensus        95 ~~~~~~i~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~~-g~~v~~i~~E~~~~~--~~~~~~-g~  170 (315)
                      ....+.+.||+..+|-++.   +-+|.-+.|.|++|+|||+|+..++.+..+. ...++|....+....  +..+.+ +-
T Consensus       121 ~~~~e~l~TGiraID~l~p---ig~GQr~~If~~~G~GKt~L~~~~~~~~~~~~~~v~V~alIGER~rEv~ef~~~~~~~  197 (461)
T TIGR01039       121 STKVEILETGIKVIDLLAP---YAKGGKIGLFGGAGVGKTVLIQELINNIAKEHGGYSVFAGVGERTREGNDLYHEMKES  197 (461)
T ss_pred             CCcccccccCceeecccCC---cccCCEEEeecCCCCChHHHHHHHHHHHHhcCCCeEEEEEecCCchHHHHHHHHHHhc
Confidence            3457789999999999987   7799999999999999999999999887654 445666655444332  222222 11


Q ss_pred             C-CCC-eEE-eCCC--CHHHHH------HHHHHHHH-cCCccEEeehhHhhhc
Q 021239          171 D-AEN-LLI-AQPD--SAENLL------SVVDTLTK-SGSIDVIVVDSVAALI  211 (315)
Q Consensus       171 ~-~~~-l~i-~~~~--~~e~~~------~~i~~l~~-~~~~~lVVIDsl~~l~  211 (315)
                      . .++ +.+ ...+  ..+.+.      ...+.+.. ++.--++++||++.+.
T Consensus       198 ~~l~rtvvV~atsd~p~~~R~~a~~~a~tiAEyfrd~~G~~VLll~DslTR~A  250 (461)
T TIGR01039       198 GVIDKTALVYGQMNEPPGARMRVALTGLTMAEYFRDEQGQDVLLFIDNIFRFT  250 (461)
T ss_pred             CCcceeEEEEECCCCCHHHHHHHHHHHHHHHHHHHHhcCCeeEEEecchhHHH
Confidence            1 112 222 2222  222222      22233333 3455689999999876

The sequences of ATP synthase F1 alpha and beta subunits are related and both contain a nucleotide-binding site for ATP and ADP. They have a common amino terminal domain but vary at the C-terminus. The beta chain has catalytic activity, while the alpha chain is a regulatory subunit. Proton translocating ATP synthase, F1 beta subunit is homologous to proton translocating ATP synthase archaeal/vacuolar(V1), A subunit.

>PRK15439 autoinducer 2 ABC transporter ATP-binding protein LsrA; Provisional

Probab=97.57  E-value=0.00022  Score=70.95  Aligned_cols=36  Identities=25%  Similarity=0.332  Sum_probs=28.5

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeE
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYC  151 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v  151 (315)
                      -+++|+++.|.|++|+|||||+..++.......+.+
T Consensus       285 ~i~~Ge~~~l~G~NGsGKSTLl~~i~Gl~~p~~G~i  320 (510)
T PRK15439        285 EVRAGEILGLAGVVGAGRTELAETLYGLRPARGGRI  320 (510)
T ss_pred             EEcCCcEEEEECCCCCCHHHHHHHHcCCCCCCCcEE
Confidence            367999999999999999999988876544334444

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

Probab=97.57  E-value=0.00033  Score=66.54  Aligned_cols=82  Identities=23%  Similarity=0.335  Sum_probs=62.6

Q ss_pred             CCcEEEEEecCCCChhHHHHHHHHHHH--hcCCeEEEEecCCCC----Ch--HHHHHcCCCCCCeEEeCCCCHHHHHHHH
Q 021239          119 KGRIVEIYGREASGKTTLALHVIKEAQ--KLGGYCAYLDVENAL----DP--SLAEAMGIDAENLLIAQPDSAENLLSVV  190 (315)
Q Consensus       119 ~G~i~~i~G~~GsGKTtlal~la~~~~--~~g~~v~~i~~E~~~----~~--~~~~~~g~~~~~l~i~~~~~~e~~~~~i  190 (315)
                      ++.++.|.||.|+||||..-.+|+.+.  ....+|.+|+++.-.    ++  .+++-+|++.     .-..+..++...+
T Consensus       202 ~~~vi~LVGPTGVGKTTTlAKLAar~~~~~~~~kVaiITtDtYRIGA~EQLk~Ya~im~vp~-----~vv~~~~el~~ai  276 (407)
T COG1419         202 QKRVIALVGPTGVGKTTTLAKLAARYVMLKKKKKVAIITTDTYRIGAVEQLKTYADIMGVPL-----EVVYSPKELAEAI  276 (407)
T ss_pred             cCcEEEEECCCCCcHHHHHHHHHHHHHhhccCcceEEEEeccchhhHHHHHHHHHHHhCCce-----EEecCHHHHHHHH
Confidence            489999999999999999999999888  556789999987543    22  3566666653     3445677777777


Q ss_pred             HHHHHcCCccEEeehhHh
Q 021239          191 DTLTKSGSIDVIVVDSVA  208 (315)
Q Consensus       191 ~~l~~~~~~~lVVIDsl~  208 (315)
                      ..+   ..+++|.||..+
T Consensus       277 ~~l---~~~d~ILVDTaG  291 (407)
T COG1419         277 EAL---RDCDVILVDTAG  291 (407)
T ss_pred             HHh---hcCCEEEEeCCC
Confidence            766   356999999776

>PRK09580 sufC cysteine desulfurase ATPase component; Reviewed

Probab=97.57  E-value=0.00039  Score=62.26  Aligned_cols=29  Identities=28%  Similarity=0.442  Sum_probs=25.9

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHH
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEA  144 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~  144 (315)
                      -+.+|+++.|.|++|+|||||+..++...
T Consensus        23 ~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   51 (248)
T PRK09580         23 EVRPGEVHAIMGPNGSGKSTLSATLAGRE   51 (248)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHcCCc
Confidence            46799999999999999999999888763

>cd02028 UMPK_like Uridine monophosphate kinase_like (UMPK_like) is a family of proteins highly similar to the uridine monophosphate kinase (UMPK, EC 2

Probab=97.57  E-value=0.00025  Score=60.60  Aligned_cols=40  Identities=25%  Similarity=0.258  Sum_probs=34.0

Q ss_pred             EEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCC
Q 021239          122 IVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALD  161 (315)
Q Consensus       122 i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~  161 (315)
                      ++.|.|+|||||||||..++......|.++..++.+.-..
T Consensus         1 ii~i~G~sgsGKttla~~l~~~l~~~~~~~~~i~~Ddf~~   40 (179)
T cd02028           1 VVGIAGPSGSGKTTFAKKLSNQLRVNGIGPVVISLDDYYV   40 (179)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHHHHcCCCEEEEehhhccc
Confidence            4789999999999999999988877777888888776543

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

>PRK07721 fliI flagellum-specific ATP synthase; Validated

Probab=97.56  E-value=0.001  Score=64.66  Aligned_cols=111  Identities=18%  Similarity=0.267  Sum_probs=66.8

Q ss_pred             CCCccccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCCh-HHH-HHcCCC-CC
Q 021239           97 RGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP-SLA-EAMGID-AE  173 (315)
Q Consensus        97 ~~~~i~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~-~~~-~~~g~~-~~  173 (315)
                      ..+.+.||+..+|.++.   +.+|+.+.|.|++|+|||||+..++..... ...++.+..|...+- +.. +.++.. ..
T Consensus       138 i~~~l~tg~~vid~l~~---i~~Gq~i~I~G~sG~GKStLl~~I~~~~~~-~~gvI~~~Gerg~ev~e~~~~~l~~~~l~  213 (438)
T PRK07721        138 IREPMEVGVRAIDSLLT---VGKGQRVGIFAGSGVGKSTLMGMIARNTSA-DLNVIALIGERGREVREFIERDLGPEGLK  213 (438)
T ss_pred             cccccccchhhhheeee---ecCCcEEEEECCCCCCHHHHHHHHhcccCC-CeEEEEEEecCCccHHHHHHhhcChhhhc
Confidence            45578999999999975   889999999999999999998766654432 333444444443322 111 112211 11


Q ss_pred             -CeE-EeCCC--CHHHH------HHHHHHHHHcCCccEEeehhHhhhc
Q 021239          174 -NLL-IAQPD--SAENL------LSVVDTLTKSGSIDVIVVDSVAALI  211 (315)
Q Consensus       174 -~l~-i~~~~--~~e~~------~~~i~~l~~~~~~~lVVIDsl~~l~  211 (315)
                       .+. +...+  ..+.+      ..+.+.+..++.--++++||++.+.
T Consensus       214 r~v~vv~~~~~~~~~r~~~~~~a~~iAEyfr~~g~~Vll~~Dsltr~A  261 (438)
T PRK07721        214 RSIVVVATSDQPALMRIKGAYTATAIAEYFRDQGLNVMLMMDSVTRVA  261 (438)
T ss_pred             CeEEEEECCCCCHHHHHHHHHHHHHHHHHHHHCCCcEEEEEeChHHHH
Confidence             222 22222  22222      2233444455666789999999876

>PF02492 cobW: CobW/HypB/UreG, nucleotide-binding domain; InterPro: IPR003495 Cobalamin (vitamin B12) is a structurally complex cofactor, consisting of a modified tetrapyrrole with a centrally chelated cobalt

Probab=97.55  E-value=0.0002  Score=61.04  Aligned_cols=86  Identities=23%  Similarity=0.252  Sum_probs=57.7

Q ss_pred             EEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCCh---HHHHHcCCCCCCeE--EeCCCCHHHHHHHHHHHHHc
Q 021239          122 IVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP---SLAEAMGIDAENLL--IAQPDSAENLLSVVDTLTKS  196 (315)
Q Consensus       122 i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~---~~~~~~g~~~~~l~--i~~~~~~e~~~~~i~~l~~~  196 (315)
                      +++|.|..|||||||..+++. ....+.+++++-.|.....   .+.+..|.....+.  ...+.-..++...+.++...
T Consensus         2 v~ii~GfLGsGKTTli~~ll~-~~~~~~~~~vI~ne~g~~~iD~~~l~~~~~~v~~l~~gcicc~~~~~~~~~l~~l~~~   80 (178)
T PF02492_consen    2 VIIITGFLGSGKTTLINHLLK-RNRQGERVAVIVNEFGEVNIDAELLQEDGVPVVELNNGCICCTLRDDLVEALRRLLRE   80 (178)
T ss_dssp             EEEEEESTTSSHHHHHHHHHH-HHTTTS-EEEEECSTTSTHHHHHHHHTTT-EEEEECTTTESS-TTS-HHHHHHHHCCC
T ss_pred             EEEEEcCCCCCHHHHHHHHHH-HhcCCceeEEEEccccccccchhhhcccceEEEEecCCCcccccHHHHHHHHHHHHHh
Confidence            689999999999999999998 6667889999988877543   34444443322111  11222345778888888877


Q ss_pred             C--CccEEeehhHh
Q 021239          197 G--SIDVIVVDSVA  208 (315)
Q Consensus       197 ~--~~~lVVIDsl~  208 (315)
                      +  +++.|+|.+-.
T Consensus        81 ~~~~~d~IiIE~sG   94 (178)
T PF02492_consen   81 YEERPDRIIIETSG   94 (178)
T ss_dssp             CHGC-SEEEEEEEC
T ss_pred             cCCCcCEEEECCcc
Confidence            7  89999997655

Cobalamin is usually found in one of two biologically active forms: methylcobalamin and adocobalamin. Most prokaryotes, as well as animals, have cobalamin-dependent enzymes, whereas plants and fungi do not appear to use it. In bacteria and archaea, these include methionine synthase, ribonucleotide reductase, glutamate and methylmalonyl-CoA mutases, ethanolamine ammonia lyase, and diol dehydratase []. In mammals, cobalamin is obtained through the diet, and is required for methionine synthase and methylmalonyl-CoA mutase []. There are at least two distinct cobalamin biosynthetic pathways in bacteria []: Aerobic pathway that requires oxygen and in which cobalt is inserted late in the pathway []; found in Pseudomonas denitrificans and Rhodobacter capsulatus. Anaerobic pathway in which cobalt insertion is the first committed step towards cobalamin synthesis []; found in Salmonella typhimurium, Bacillus megaterium, and Propionibacterium freudenreichii subsp. shermanii. Either pathway can be divided into two parts: (1) corrin ring synthesis (differs in aerobic and anaerobic pathways) and (2) adenosylation of corrin ring, attachment of aminopropanol arm, and assembly of the nucleotide loop (common to both pathways) []. There are about 30 enzymes involved in either pathway, where those involved in the aerobic pathway are prefixed Cob and those of the anaerobic pathway Cbi. Several of these enzymes are pathway-specific: CbiD, CbiG, and CbiK are specific to the anaerobic route of S. typhimurium, whereas CobE, CobF, CobG, CobN, CobS, CobT, and CobW are unique to the aerobic pathway of P. denitrificans. CobW proteins are generally found proximal to the trimeric cobaltochelatase subunit CobN, which is essential for vitamin B12 (cobalamin) biosynthesis []. They contain a P-loop nucleotide-binding loop in the N-terminal domain and a histidine-rich region in the C-terminal portion suggesting a role in metal binding, possibly as an intermediary between the cobalt transport and chelation systems. CobW might be involved in cobalt reduction leading to cobalt(I) corrinoids. This entry represents CobW-like proteins, including P47K (P31521 from SWISSPROT), a Pseudomonas chlororaphis protein needed for nitrile hydratase expression [], and urease accessory protein UreG, which acts as a chaperone in the activation of urease upon insertion of nickel into the active site [].; PDB: 2WSM_B 1NIJ_A 2HF9_A 2HF8_B.

>PRK08972 fliI flagellum-specific ATP synthase; Validated

Probab=97.55  E-value=0.00027  Score=68.24  Aligned_cols=112  Identities=14%  Similarity=0.205  Sum_probs=67.1

Q ss_pred             CCCCCccccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCCh--HHHHH-cCCC
Q 021239           95 SRRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP--SLAEA-MGID  171 (315)
Q Consensus        95 ~~~~~~i~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~--~~~~~-~g~~  171 (315)
                      ....+.+.||+..+|.++.   +.+|+.+.|.|++|+|||||+..++.....  ..+++....+....  +..+. ++-.
T Consensus       140 ~~i~e~l~TGi~aID~ll~---i~~GqrigI~G~sG~GKSTLL~~I~~~~~~--dv~Vi~lIGER~rEv~efi~~~l~~~  214 (444)
T PRK08972        140 RPITEPLDVGVRAINAMLT---VGKGQRMGLFAGSGVGKSVLLGMMTRGTTA--DVIVVGLVGERGREVKEFIEEILGEE  214 (444)
T ss_pred             CCCCCcccccceeecceEE---EcCCCEEEEECCCCCChhHHHHHhccCCCC--CEEEEEEEcCChHHHHHHHHHhhccC
Confidence            3456789999999999986   889999999999999999999877753321  23333333222222  22222 2211


Q ss_pred             -CCC--eEEeCCCC--HHHH------HHHHHHHHHcCCccEEeehhHhhhc
Q 021239          172 -AEN--LLIAQPDS--AENL------LSVVDTLTKSGSIDVIVVDSVAALI  211 (315)
Q Consensus       172 -~~~--l~i~~~~~--~e~~------~~~i~~l~~~~~~~lVVIDsl~~l~  211 (315)
                       .++  +.+...+.  .+..      ....+.+..++.--++++||++.+.
T Consensus       215 ~l~rtvvv~atsd~p~~~R~~a~~~A~tiAEyfrd~G~~VLl~~DslTR~A  265 (444)
T PRK08972        215 GRARSVVVAAPADTSPLMRLKGCETATTIAEYFRDQGLNVLLLMDSLTRYA  265 (444)
T ss_pred             CcccEEEEEECCCCCHHHHHHHHHHHHHHHHHHHHcCCCEEEEEcChHHHH
Confidence             222  22222222  2221      2233444445556689999999876

>COG4136 ABC-type uncharacterized transport system, ATPase component [General function prediction only]

Probab=97.55  E-value=0.00074  Score=55.75  Aligned_cols=29  Identities=34%  Similarity=0.535  Sum_probs=24.9

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHH
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQ  145 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~  145 (315)
                      +.+|+++-|.||+|||||||..-++...+
T Consensus        25 ia~GeivtlMGPSGcGKSTLls~~~G~La   53 (213)
T COG4136          25 IAKGEIVTLMGPSGCGKSTLLSWMIGALA   53 (213)
T ss_pred             ecCCcEEEEECCCCccHHHHHHHHHhhcc
Confidence            56899999999999999999876666554

>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=97.54  E-value=0.00084  Score=66.17  Aligned_cols=57  Identities=12%  Similarity=0.193  Sum_probs=38.6

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecC--CCCChHHHHHcCCCCC
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVE--NALDPSLAEAMGIDAE  173 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E--~~~~~~~~~~~g~~~~  173 (315)
                      +++|+.+.|+|++|+||||+...++.-.....+...+-+.+  +-....+.+.+.+..+
T Consensus       344 ~~~g~~talvG~SGaGKSTLl~lL~G~~~~~~G~I~vng~~l~~l~~~~~~k~i~~v~Q  402 (559)
T COG4988         344 IKAGQLTALVGASGAGKSTLLNLLLGFLAPTQGEIRVNGIDLRDLSPEAWRKQISWVSQ  402 (559)
T ss_pred             ecCCcEEEEECCCCCCHHHHHHHHhCcCCCCCceEEECCccccccCHHHHHhHeeeeCC
Confidence            67999999999999999999988777666555554443222  2222346666665444

>PRK07196 fliI flagellum-specific ATP synthase; Validated

Probab=97.54  E-value=0.00011  Score=71.12  Aligned_cols=47  Identities=17%  Similarity=0.210  Sum_probs=40.5

Q ss_pred             CCCCCccccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHH
Q 021239           95 SRRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEA  144 (315)
Q Consensus        95 ~~~~~~i~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~  144 (315)
                      ....+.+.||+..+|.++.   +.+|+.+.|.|++|+||||++..++...
T Consensus       133 ~~~~~~l~TGi~aID~ll~---I~~GQ~igI~G~sGaGKSTLl~~I~g~~  179 (434)
T PRK07196        133 RAVDTPLDVGVNAINGLLT---IGKGQRVGLMAGSGVGKSVLLGMITRYT  179 (434)
T ss_pred             cccccccccceeeccceEe---EecceEEEEECCCCCCccHHHHHHhccc
Confidence            3456889999999999976   8899999999999999999987665543

>PLN03232 ABC transporter C family member; Provisional

Probab=97.53  E-value=0.00036  Score=77.67  Aligned_cols=39  Identities=18%  Similarity=0.301  Sum_probs=31.1

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEec
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDV  156 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~  156 (315)
                      +++|+.+.|+|++|+||||++..+..-.....|.+ +++.
T Consensus      1259 I~~GekvaIVG~SGSGKSTL~~lL~rl~~p~~G~I-~IdG 1297 (1495)
T PLN03232       1259 VSPSEKVGVVGRTGAGKSSMLNALFRIVELEKGRI-MIDD 1297 (1495)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhCCCcCCCceE-EECC
Confidence            67999999999999999999988877665555554 4543

>TIGR02546 III_secr_ATP type III secretion apparatus H+-transporting two-sector ATPase

Probab=97.53  E-value=0.00045  Score=66.92  Aligned_cols=113  Identities=19%  Similarity=0.261  Sum_probs=66.1

Q ss_pred             CCCCCccccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCCh-HHH-HHcCCC-
Q 021239           95 SRRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP-SLA-EAMGID-  171 (315)
Q Consensus        95 ~~~~~~i~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~-~~~-~~~g~~-  171 (315)
                      ....+.+.||+..+|.++.   +.+|+.+.|.|++|+|||||+..++..... ...++..-.+...+- ... ...+-. 
T Consensus       123 ~~i~~~l~tG~~~id~l~~---i~~Gq~~~I~G~sG~GKStLl~~I~~~~~~-~~~vi~~iG~~~~ev~~~~~~~~~~~~  198 (422)
T TIGR02546       123 QPIDQPLPTGVRAIDGLLT---CGEGQRIGIFAGAGVGKSTLLGMIARGASA-DVNVIALIGERGREVREFIEHHLGEEG  198 (422)
T ss_pred             cCcccccCCCceeehhhcc---ccCCCEEEEECCCCCChHHHHHHHhCCCCC-CEEEEEEEccCCcCHHHHHHHHhcccc
Confidence            3456789999999999965   789999999999999999998777665432 222222222333332 222 222221 


Q ss_pred             CCC-eEEeCCC---CHHHH------HHHHHHHHHcCCccEEeehhHhhhc
Q 021239          172 AEN-LLIAQPD---SAENL------LSVVDTLTKSGSIDVIVVDSVAALI  211 (315)
Q Consensus       172 ~~~-l~i~~~~---~~e~~------~~~i~~l~~~~~~~lVVIDsl~~l~  211 (315)
                      .++ +.+....   ....+      ....+.+..++.--++++|+++.+.
T Consensus       199 ~~~tvvv~~~s~~p~~~r~~~~~~a~~~AE~f~~~g~~Vl~~~Dsltr~a  248 (422)
T TIGR02546       199 RKRSVLVVSTSDRPSLERLKAAYTATAIAEYFRDQGKRVLLMMDSLTRFA  248 (422)
T ss_pred             ccceEEEeccccCCHHHHHHHHHHHHHHHHHHHHCCCcEEEEEeCchHHH
Confidence            222 2222221   12111      2223334445555688999999765

>PF03308 ArgK: ArgK protein; InterPro: IPR005129 Bacterial periplasmic transport systems require the function of a specific substrate-binding protein, located in the periplasm, and several cytoplasmic membrane transport components

Probab=97.52  E-value=0.00024  Score=63.68  Aligned_cols=89  Identities=21%  Similarity=0.303  Sum_probs=55.7

Q ss_pred             CCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCCh---------HHHHHcCCCCCCeEEeCCCC---HHHH
Q 021239          119 KGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP---------SLAEAMGIDAENLLIAQPDS---AENL  186 (315)
Q Consensus       119 ~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~---------~~~~~~g~~~~~l~i~~~~~---~e~~  186 (315)
                      +..++.|+||||+|||||.-.++..+.+.|.+|..+..+.+.+.         .|+..+.- .+++++....+   .-.+
T Consensus        28 ~a~~iGiTG~PGaGKSTli~~l~~~~~~~g~~VaVlAVDPSSp~tGGAlLGDRiRM~~~~~-d~~vfIRS~atRG~lGGl  106 (266)
T PF03308_consen   28 RAHVIGITGPPGAGKSTLIDALIRELRERGKRVAVLAVDPSSPFTGGALLGDRIRMQELSR-DPGVFIRSMATRGSLGGL  106 (266)
T ss_dssp             -SEEEEEEE-TTSSHHHHHHHHHHHHHHTT--EEEEEE-GGGGCC---SS--GGGCHHHHT-STTEEEEEE---SSHHHH
T ss_pred             CceEEEeeCCCCCcHHHHHHHHHHHHhhcCCceEEEEECCCCCCCCCcccccHHHhcCcCC-CCCEEEeecCcCCCCCCc
Confidence            45689999999999999999999999999999999887765432         24444332 24566554332   2222


Q ss_pred             H---HHHHHHHHcCCccEEeehhHh
Q 021239          187 L---SVVDTLTKSGSIDVIVVDSVA  208 (315)
Q Consensus       187 ~---~~i~~l~~~~~~~lVVIDsl~  208 (315)
                      .   ..+-.+++..++++|+|..+.
T Consensus       107 s~~t~~~v~ll~aaG~D~IiiETVG  131 (266)
T PF03308_consen  107 SRATRDAVRLLDAAGFDVIIIETVG  131 (266)
T ss_dssp             HHHHHHHHHHHHHTT-SEEEEEEES
T ss_pred             cHhHHHHHHHHHHcCCCEEEEeCCC
Confidence            2   223344566789999998765

In Escherichia coli, the arginine-ornithine transport system requires an arginine-ornithine-binding protein and the lysine-arginine-ornithine (LAO) transport system includes a LAO-binding protein. Both periplasmic proteins can be phosphorylated by a single kinase, ArgK [] resulting in reduced levels of transport activity of the periplasmic transport systems that include each of the binding proteins. The ArgK protein acts as an ATPase enzyme and as a kinase.; PDB: 3MD0_A 3P32_A 2QM7_A 2QM8_A 2WWW_D 2P67_A 3NXS_A.

>CHL00060 atpB ATP synthase CF1 beta subunit

Probab=97.52  E-value=0.00077  Score=65.92  Aligned_cols=64  Identities=23%  Similarity=0.391  Sum_probs=51.9

Q ss_pred             CCCCCccccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHh-cCCeEEEEecCCCCC
Q 021239           95 SRRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQK-LGGYCAYLDVENALD  161 (315)
Q Consensus        95 ~~~~~~i~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~-~g~~v~~i~~E~~~~  161 (315)
                      ....+.+.||+..+|-++.   +-+|.-+.|.|++|+|||+|+..++.+..+ .+..++|...-+...
T Consensus       139 ~~i~e~L~TGIraID~l~p---igkGQR~gIfgg~GvGKs~L~~~~~~~~~~~~~dv~V~~lIGERgr  203 (494)
T CHL00060        139 DTKLSIFETGIKVVDLLAP---YRRGGKIGLFGGAGVGKTVLIMELINNIAKAHGGVSVFGGVGERTR  203 (494)
T ss_pred             ccccceeecCceeeeccCC---cccCCEEeeecCCCCChhHHHHHHHHHHHHhcCCeEEEEEeccCch
Confidence            3456889999999999987   779999999999999999999999998543 346677776544443

>PRK05922 type III secretion system ATPase; Validated

Probab=97.52  E-value=0.0005  Score=66.47  Aligned_cols=112  Identities=19%  Similarity=0.311  Sum_probs=67.5

Q ss_pred             CCCCCccccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEE-ecCCCCCh-HHHHHc-C-C
Q 021239           95 SRRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYL-DVENALDP-SLAEAM-G-I  170 (315)
Q Consensus        95 ~~~~~~i~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i-~~E~~~~~-~~~~~~-g-~  170 (315)
                      ....+.+.||+..+|-++.   +.+|+.+.|.|++|+|||||+..++..... . .+.|. -.|...+. ...+.. + .
T Consensus       135 ~~i~e~l~TGIr~ID~ll~---I~~GqrigI~G~nG~GKSTLL~~Ia~~~~~-d-~gvi~liGerg~ev~eyl~q~~~~~  209 (434)
T PRK05922        135 QPIQEIFPTGIKAIDAFLT---LGKGQRIGVFSEPGSGKSSLLSTIAKGSKS-T-INVIALIGERGREVREYIEQHKEGL  209 (434)
T ss_pred             CCcceecCCCceeecceEE---EcCCcEEEEECCCCCChHHHHHHHhccCCC-C-ceEEEEeCCCCchHHHHHHHHHhhc
Confidence            3456789999999999876   889999999999999999998777755432 2 23332 22332221 222221 1 2


Q ss_pred             CCC-CeEEeC-CC--CHHHH------HHHHHHHHHcCCccEEeehhHhhhc
Q 021239          171 DAE-NLLIAQ-PD--SAENL------LSVVDTLTKSGSIDVIVVDSVAALI  211 (315)
Q Consensus       171 ~~~-~l~i~~-~~--~~e~~------~~~i~~l~~~~~~~lVVIDsl~~l~  211 (315)
                      ..+ .+.+.. .+  +.+..      ....+.+..++.--++++||++.+.
T Consensus       210 ~~~rTVlv~atsd~~~~~r~~a~~~a~tiAEyfrd~G~~VLl~~DslTR~A  260 (434)
T PRK05922        210 AAQRTIIIASPAHETAPTKVIAGRAAMTIAEYFRDQGHRVLFIMDSLSRWI  260 (434)
T ss_pred             cccceEEEEECCCCCHHHHHHHHHHHHHHHHHHHHcCCCEEEeccchhHHH
Confidence            222 233332 22  12222      2233444455556689999999876

>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=97.52  E-value=0.0019  Score=58.64  Aligned_cols=28  Identities=25%  Similarity=0.419  Sum_probs=24.7

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHH
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKE  143 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~  143 (315)
                      .+|.|.++.|+|.+|||||||+..+...
T Consensus        17 ~ip~g~~~~vtGvSGsGKStL~~~~l~~   44 (261)
T cd03271          17 DIPLGVLTCVTGVSGSGKSSLINDTLYP   44 (261)
T ss_pred             eccCCcEEEEECCCCCchHHHHHHHHHH
Confidence            4789999999999999999999877543

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.

>COG0488 Uup ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]

Probab=97.51  E-value=0.0007  Score=67.29  Aligned_cols=124  Identities=17%  Similarity=0.224  Sum_probs=74.5

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhc--------CCeEEEEecCCCC---Ch---H----------------HH
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKL--------GGYCAYLDVENAL---DP---S----------------LA  165 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~--------g~~v~~i~~E~~~---~~---~----------------~~  165 (315)
                      .+.+|+-+.|.||+|+|||||+..++......        +-++.||+-+...   ..   +                ..
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            57899999999999999999999887665432        2357788855421   10   1                11


Q ss_pred             HHcCCCCCCeE-EeCCCC-HHHHHHHHHHHHHcCCccEEeehhHhhhccccccCCCccCCChHHHHHHHHHHHHHHHHHH
Q 021239          166 EAMGIDAENLL-IAQPDS-AENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSL  243 (315)
Q Consensus       166 ~~~g~~~~~l~-i~~~~~-~e~~~~~i~~l~~~~~~~lVVIDsl~~l~~~~~~~~~~~~~~~~~q~r~i~~~l~~L~~~~  243 (315)
                      .++++..+... -....+ .|...-.+..+ --.++.++|+|..+....              .      ..+..|...+
T Consensus       424 ~~f~F~~~~~~~~v~~LSGGEk~Rl~La~l-l~~~pNvLiLDEPTNhLD--------------i------~s~~aLe~aL  482 (530)
T COG0488         424 GRFGFTGEDQEKPVGVLSGGEKARLLLAKL-LLQPPNLLLLDEPTNHLD--------------I------ESLEALEEAL  482 (530)
T ss_pred             HHcCCChHHHhCchhhcCHhHHHHHHHHHH-hccCCCEEEEcCCCccCC--------------H------HHHHHHHHHH
Confidence            22333332221 001111 22222222222 235899999998876662              1      1233445555


Q ss_pred             hccCcEEEEEecccccc
Q 021239          244 CQSHTLIIFLNQVRFSA  260 (315)
Q Consensus       244 ~~~~i~VI~inq~~~~~  260 (315)
                      .++.-+||+++|-+.=+
T Consensus       483 ~~f~Gtvl~VSHDr~Fl  499 (530)
T COG0488         483 LDFEGTVLLVSHDRYFL  499 (530)
T ss_pred             HhCCCeEEEEeCCHHHH
Confidence            89999999999987665

>cd01131 PilT Pilus retraction ATPase PilT

Probab=97.51  E-value=0.00043  Score=60.11  Aligned_cols=77  Identities=21%  Similarity=0.209  Sum_probs=44.1

Q ss_pred             EEEEEecCCCChhHHHHHHHHHHHhc-CCeEEEEecCCCCChHHHHHcCCCCCCeEEeC--C-CCHHHHHHHHHHHHHcC
Q 021239          122 IVEIYGREASGKTTLALHVIKEAQKL-GGYCAYLDVENALDPSLAEAMGIDAENLLIAQ--P-DSAENLLSVVDTLTKSG  197 (315)
Q Consensus       122 i~~i~G~~GsGKTtlal~la~~~~~~-g~~v~~i~~E~~~~~~~~~~~g~~~~~l~i~~--~-~~~e~~~~~i~~l~~~~  197 (315)
                      +++|+||+|+||||++..++...... ++.++  ..|++.+......      .-.+.+  . .....+.+.++..+. .
T Consensus         3 lilI~GptGSGKTTll~~ll~~~~~~~~~~i~--t~e~~~E~~~~~~------~~~i~q~~vg~~~~~~~~~i~~aLr-~   73 (198)
T cd01131           3 LVLVTGPTGSGKSTTLAAMIDYINKNKTHHIL--TIEDPIEFVHESK------RSLINQREVGLDTLSFENALKAALR-Q   73 (198)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhhhcCCcEEE--EEcCCccccccCc------cceeeecccCCCccCHHHHHHHHhc-C
Confidence            78999999999999998887777644 33443  3444332110000      001111  0 012234455555544 3


Q ss_pred             CccEEeehhH
Q 021239          198 SIDVIVVDSV  207 (315)
Q Consensus       198 ~~~lVVIDsl  207 (315)
                      +|+++++|.+
T Consensus        74 ~pd~ii~gEi   83 (198)
T cd01131          74 DPDVILVGEM   83 (198)
T ss_pred             CcCEEEEcCC
Confidence            7999999986

PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism known as twitching motility.

>PRK13409 putative ATPase RIL; Provisional

Probab=97.51  E-value=0.00036  Score=70.51  Aligned_cols=35  Identities=26%  Similarity=0.224  Sum_probs=28.6

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeE
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYC  151 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v  151 (315)
                      +++|+++.|.||+|+|||||+..++.......+.+
T Consensus        96 i~~Gev~gLvG~NGaGKSTLlkiL~G~l~p~~G~i  130 (590)
T PRK13409         96 PKEGKVTGILGPNGIGKTTAVKILSGELIPNLGDY  130 (590)
T ss_pred             CCCCCEEEEECCCCCCHHHHHHHHhCCccCCCccc
Confidence            46899999999999999999988887655444454

>PRK06793 fliI flagellum-specific ATP synthase; Validated

Probab=97.50  E-value=0.00043  Score=66.93  Aligned_cols=110  Identities=22%  Similarity=0.306  Sum_probs=68.8

Q ss_pred             CCccccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCCh-HH-HHHc---CCCC
Q 021239           98 GPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP-SL-AEAM---GIDA  172 (315)
Q Consensus        98 ~~~i~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~-~~-~~~~---g~~~  172 (315)
                      .+.+.||+..+|.++.   +.+|+.+.|.|++|+|||+|+..++.+.. ....++.+..|...+- +. ...+   |+.-
T Consensus       137 ~~~l~TGiraID~ll~---I~~Gqri~I~G~sG~GKTtLl~~Ia~~~~-~~~gvI~~iGerg~ev~e~~~~~l~~~gl~~  212 (432)
T PRK06793        137 TDVFETGIKSIDSMLT---IGIGQKIGIFAGSGVGKSTLLGMIAKNAK-ADINVISLVGERGREVKDFIRKELGEEGMRK  212 (432)
T ss_pred             hhccCCCCEEEeccce---ecCCcEEEEECCCCCChHHHHHHHhccCC-CCeEEEEeCCCCcccHHHHHHHHhhhcccce
Confidence            4568899999999875   78999999999999999999988877653 3334444444444432 22 1122   2221


Q ss_pred             CCeEEeCCCC--HHHH------HHHHHHHHHcCCccEEeehhHhhhc
Q 021239          173 ENLLIAQPDS--AENL------LSVVDTLTKSGSIDVIVVDSVAALI  211 (315)
Q Consensus       173 ~~l~i~~~~~--~e~~------~~~i~~l~~~~~~~lVVIDsl~~l~  211 (315)
                      .-+.....+.  ....      ....+.+..+++.-++++|+++.+.
T Consensus       213 tvvv~~tsd~s~~~r~ra~~~a~~iAEyfr~~G~~VLlilDslTr~a  259 (432)
T PRK06793        213 SVVVVATSDESHLMQLRAAKLATSIAEYFRDQGNNVLLMMDSVTRFA  259 (432)
T ss_pred             eEEEEECCCCCHHHHHHHHHHHHHHHHHHHHcCCcEEEEecchHHHH
Confidence            1122222221  1111      1223445566788999999999886

>PRK15064 ABC transporter ATP-binding protein; Provisional

Probab=97.50  E-value=0.00033  Score=69.98  Aligned_cols=31  Identities=16%  Similarity=0.217  Sum_probs=26.8

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHh
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQK  146 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~  146 (315)
                      -+.+|+++.|.||+|+|||||+..++.....
T Consensus        23 ~i~~Ge~~~liG~NGsGKSTLl~~l~Gl~~p   53 (530)
T PRK15064         23 KFGGGNRYGLIGANGCGKSTFMKILGGDLEP   53 (530)
T ss_pred             EECCCCEEEEECCCCCCHHHHHHHHhCCCCC
Confidence            4679999999999999999999988876543

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

Probab=97.50  E-value=2.1e-05  Score=72.92  Aligned_cols=144  Identities=22%  Similarity=0.181  Sum_probs=107.3

Q ss_pred             HHHHHHHHHHHHHHHhhCcccccccccccCCCCCCccccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHH
Q 021239           65 QKDNALRLALSQLANDFGKESMLSLKRFFGSRRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEA  144 (315)
Q Consensus        65 ~~~~~l~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~i~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~  144 (315)
                      ++....+.+++++...+. .-.+.............+++|.-..+.-++.+|.+.+-.+..+++.-+||+...+......
T Consensus         5 ~~~~~~~~al~~~~~~~~-~~~~~~~~~ita~~v~~l~~~~l~~v~~l~~~~~~el~~i~~~s~~~~~k~~~~l~~~~~~   83 (326)
T KOG1433|consen    5 QKRLALQKALEEIGLSPA-PVRFLLAGGITAEDVLLLSEGELSTVEGLAYAGKEELLLIIGLSEAKSGKTVLGLHKLVPM   83 (326)
T ss_pred             HHHHHhhHHHHhcccCcc-chhhhhcccccHhhhhhhcccceEEEeccccCcchhheeeeeecccccccHHHHHHHhhHH
Confidence            445566667788776555 2222233333345567777777777777777899999999999999999999999988873


Q ss_pred             -HhcCCeEEEEecCCCCChHHHHHcCCCCCCeEEeCCCCHHHHHHHHHHH-HHcCCccEEeehhHhh
Q 021239          145 -QKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTL-TKSGSIDVIVVDSVAA  209 (315)
Q Consensus       145 -~~~g~~v~~i~~E~~~~~~~~~~~g~~~~~l~i~~~~~~e~~~~~i~~l-~~~~~~~lVVIDsl~~  209 (315)
                       .+++..+.+.+.+...+......++.......+-+|.+....+...... ......++++||+...
T Consensus        84 ~~~~~~~~~l~Tg~~~lD~lL~gGi~~g~~TEi~G~p~~GKtQlc~~~~v~~~gge~~~l~IDs~s~  150 (326)
T KOG1433|consen   84 LQLRSELGFLSTGSKALDKLLGGGIETGSLTELVGPPGSGKTQLCHTLAVTCGGGEGKVLYIDTEST  150 (326)
T ss_pred             HHhhccceeeccchhhhhHhhccCcccCceeEEecCCCccHHHHHHHHHHhccCCcceEEEEecchh
Confidence             6678888889988888888888777777777888888877666543333 2456789999999995

>COG1703 ArgK Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]

Probab=97.50  E-value=0.00081  Score=61.31  Aligned_cols=89  Identities=24%  Similarity=0.312  Sum_probs=62.1

Q ss_pred             CCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCCh---------HHHHHcCCCCCCeEEeCCCC---HHHH
Q 021239          119 KGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP---------SLAEAMGIDAENLLIAQPDS---AENL  186 (315)
Q Consensus       119 ~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~---------~~~~~~g~~~~~l~i~~~~~---~e~~  186 (315)
                      .-.++.|+|+||+|||||.-.+...+..+|.+|..+..+.+.+.         .|+.++..+ .++++....+   .-.+
T Consensus        50 ~a~viGITG~PGaGKSTli~~L~~~l~~~G~rVaVlAVDPSSp~TGGsiLGDRiRM~~~~~~-~~vFiRs~~srG~lGGl  128 (323)
T COG1703          50 NAHVIGITGVPGAGKSTLIEALGRELRERGHRVAVLAVDPSSPFTGGSILGDRIRMQRLAVD-PGVFIRSSPSRGTLGGL  128 (323)
T ss_pred             CCcEEEecCCCCCchHHHHHHHHHHHHHCCcEEEEEEECCCCCCCCccccccHhhHHhhccC-CCeEEeecCCCccchhh
Confidence            44589999999999999999999999999999999888776553         355555443 3555554432   1122


Q ss_pred             ---HHHHHHHHHcCCccEEeehhHh
Q 021239          187 ---LSVVDTLTKSGSIDVIVVDSVA  208 (315)
Q Consensus       187 ---~~~i~~l~~~~~~~lVVIDsl~  208 (315)
                         ...+-.+++..++|+|+|..+.
T Consensus       129 S~at~~~i~~ldAaG~DvIIVETVG  153 (323)
T COG1703         129 SRATREAIKLLDAAGYDVIIVETVG  153 (323)
T ss_pred             hHHHHHHHHHHHhcCCCEEEEEecC
Confidence               2222334566789999987665

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

Probab=97.50  E-value=0.0006  Score=62.27  Aligned_cols=83  Identities=20%  Similarity=0.272  Sum_probs=56.1

Q ss_pred             EEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCC-------CCChHHHHHcCCC------CCCeEE-eCCCCHHHHH
Q 021239          122 IVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVEN-------ALDPSLAEAMGID------AENLLI-AQPDSAENLL  187 (315)
Q Consensus       122 i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~-------~~~~~~~~~~g~~------~~~l~i-~~~~~~e~~~  187 (315)
                      ++.|+|++|||||||+..++..+..+| +|.++..+.       ..+..+....|.+      .+...+ ....+.++++
T Consensus         3 ~i~i~G~~gSGKTTLi~~Li~~L~~~G-~V~~IKhd~h~~~~~~g~Ds~~~~~aGa~~v~~~s~~~~~~~~~~~~l~~~l   81 (274)
T PRK14493          3 VLSIVGYKATGKTTLVERLVDRLSGRG-RVGTVKHMDTERLNPDGTDTGRHFDAGADVVYGLTDGEWVASGRDRSLDDAL   81 (274)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHhCC-CEEEEEEcCCCcCCCCCCCcHHHHHCCCcEEEEecCCeEEEEecCCCHHHHH
Confidence            688999999999999999999999988 899998764       2223444555433      333322 3334555554


Q ss_pred             HHHHHHHHcCCccEEeehhHhhh
Q 021239          188 SVVDTLTKSGSIDVIVVDSVAAL  210 (315)
Q Consensus       188 ~~i~~l~~~~~~~lVVIDsl~~l  210 (315)
                      ..+.     .+.|+|+||.+...
T Consensus        82 ~~l~-----~~~D~vlVEG~k~~   99 (274)
T PRK14493         82 DDLA-----PGMDYAVVEGFKDS   99 (274)
T ss_pred             HhhC-----cCCCEEEEECCCCC
Confidence            4332     35789999877653

>PRK08472 fliI flagellum-specific ATP synthase; Validated

Probab=97.49  E-value=0.00061  Score=65.92  Aligned_cols=112  Identities=23%  Similarity=0.261  Sum_probs=68.4

Q ss_pred             CCCCCccccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEE-ecCCCCCh-H-HHHHcCCC
Q 021239           95 SRRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYL-DVENALDP-S-LAEAMGID  171 (315)
Q Consensus        95 ~~~~~~i~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i-~~E~~~~~-~-~~~~~g~~  171 (315)
                      ....+.+.||+..+|.++.   +.+|+.+.|.|++|+|||||+..++..... . .++|. ..|...+. . ....++-.
T Consensus       135 ~~i~~~l~tgi~aid~l~~---i~~Gq~~~i~G~sG~GKStLl~~i~~~~~~-~-v~vi~~iGergrev~e~~~~~l~~~  209 (434)
T PRK08472        135 GLIDEVFSVGVKSIDGLLT---CGKGQKLGIFAGSGVGKSTLMGMIVKGCLA-P-IKVVALIGERGREIPEFIEKNLGGD  209 (434)
T ss_pred             CCcceeccchhHHhhhcce---ecCCCEEEEECCCCCCHHHHHHHHhhccCC-C-EEEEEeeCccchhHHHHHHHHhcCc
Confidence            3456678899999999965   889999999999999999999877765432 2 23332 33333332 2 22333332


Q ss_pred             CCCeEEe--CCC--CHHH------HHHHHHHHHHcCCccEEeehhHhhhc
Q 021239          172 AENLLIA--QPD--SAEN------LLSVVDTLTKSGSIDVIVVDSVAALI  211 (315)
Q Consensus       172 ~~~l~i~--~~~--~~e~------~~~~i~~l~~~~~~~lVVIDsl~~l~  211 (315)
                      .++-.+.  ..+  +...      ...+.+.+.+++.--++++||++.+.
T Consensus       210 l~~tvvV~atsddsp~~R~~~~~~a~~iAEyFrd~G~~Vll~~DslTr~A  259 (434)
T PRK08472        210 LENTVIVVATSDDSPLMRKYGAFCAMSVAEYFKNQGLDVLFIMDSVTRFA  259 (434)
T ss_pred             ccceEEEEECCCCCHHHhhHHHHHHHHHHHHHHHcCCCEEEecccchHHH
Confidence            3443322  222  1221      12233444455566789999999876

>TIGR02633 xylG D-xylose ABC transporter, ATP-binding protein

Probab=97.49  E-value=0.00024  Score=70.45  Aligned_cols=37  Identities=22%  Similarity=0.342  Sum_probs=28.9

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHh-cCCeEEE
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQK-LGGYCAY  153 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~-~g~~v~~  153 (315)
                      +.+|+++.|.|++|+|||||+..++..... ..+.+.|
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            678999999999999999999888766542 3444433

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).

>cd03281 ABC_MSH5_euk MutS5 homolog in eukaryotes

Probab=97.49  E-value=0.00064  Score=59.79  Aligned_cols=25  Identities=28%  Similarity=0.282  Sum_probs=22.1

Q ss_pred             CcEEEEEecCCCChhHHHHHHHHHH
Q 021239          120 GRIVEIYGREASGKTTLALHVIKEA  144 (315)
Q Consensus       120 G~i~~i~G~~GsGKTtlal~la~~~  144 (315)
                      +..++|+||+|+|||||+.+++...
T Consensus        29 ~~~~~itGpNg~GKStlLk~i~~~~   53 (213)
T cd03281          29 PSIMVITGPNSSGKSVYLKQVALIV   53 (213)
T ss_pred             ceEEEEECCCCCChHHHHHHHHHHH
Confidence            4789999999999999999998554

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

>cd03285 ABC_MSH2_euk MutS2 homolog in eukaryotes

Probab=97.49  E-value=0.00049  Score=60.97  Aligned_cols=29  Identities=24%  Similarity=0.205  Sum_probs=24.8

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHH
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQ  145 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~  145 (315)
                      .+.+.++.|.||+|+||||++.+++....
T Consensus        27 ~~~~~~~~l~G~n~~GKstll~~i~~~~~   55 (222)
T cd03285          27 RGKSRFLIITGPNMGGKSTYIRQIGVIVL   55 (222)
T ss_pred             ecCCeEEEEECCCCCChHHHHHHHHHHHH
Confidence            35789999999999999999999886543

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

>PF02374 ArsA_ATPase: Anion-transporting ATPase; PDB: 2WOO_A 3IBG_B 3SJA_A 3H84_B 3SJD_A 3ZS9_A 3A37_A 2WOJ_A 3SJC_B 3A36_B

Probab=97.46  E-value=0.001  Score=61.84  Aligned_cols=41  Identities=24%  Similarity=0.276  Sum_probs=36.2

Q ss_pred             cEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCC
Q 021239          121 RIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALD  161 (315)
Q Consensus       121 ~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~  161 (315)
                      .++.+.|.-|+||||++..+|..++.+|.+++.++++.+..
T Consensus         2 r~~~~~GKGGVGKTT~aaA~A~~~A~~G~rtLlvS~Dpa~~   42 (305)
T PF02374_consen    2 RILFFGGKGGVGKTTVAAALALALARRGKRTLLVSTDPAHS   42 (305)
T ss_dssp             SEEEEEESTTSSHHHHHHHHHHHHHHTTS-EEEEESSTTTH
T ss_pred             eEEEEecCCCCCcHHHHHHHHHHHhhCCCCeeEeecCCCcc
Confidence            47899999999999999999999999999999999986543

...

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	315
3hr8_A	356	Crystal Structure Of Thermotoga Maritima Reca Lengt		2e-48
3cmu_A	2050	Mechanism Of Homologous Recombination From The Reca		6e-48
2rec_A	353	Reca Hexamer Model, Electron Microscopy Length = 35		6e-48
3cmt_A	1706	Mechanism Of Homologous Recombination From The Reca		6e-48
1n03_A	352	Model For Active Reca Filament Length = 352		6e-48
1u94_A	356	Crystal Structure Of E. Coli Reca In A Compressed H		7e-48
3cmv_A	1357	Mechanism Of Homologous Recombination From The Reca		7e-48
1ubc_A	349	Structure Of Reca Protein Length = 349		2e-47
2zr0_A	349	Msreca-Q196e Mutant Length = 349		5e-47
2zrc_A	349	Msreca Q196n Form Iv Length = 349		1e-46
2zrh_A	349	Msreca Q196a Form Iv Length = 349		1e-46
1g18_A	350	Reca-Adp-Alf4 Complex Length = 350		3e-46
1xp8_A	366	"deinococcus Radiodurans Reca In Complex With Atp-G		6e-46
2cvf_A	220	Crystal Structure Of The Radb Recombinase Length =		8e-06
4b2i_A	231	Humanised Monomeric Rada In Complex With Indazole L		1e-04
2w0m_A	235	Crystal Structure Of Sso2452 From Sulfolobus Solfat		1e-04
4a6p_A	231	Rada C-Terminal Atpase Domain From Pyrococcus Furio		1e-04
1pzn_A	349	Rad51 (Rada) Length = 349		1e-04
1szp_A	321	A Crystal Structure Of The Rad51 Filament Length =		2e-04
3lda_A	400	Yeast Rad51 H352y Filament Interface Mutant Length		2e-04

>pdb|3HR8|A Chain A, Crystal Structure Of Thermotoga Maritima Reca Length = 356

Iteration: 1
 Score =  189 bits (479), Expect = 2e-48,   Method: Compositional matrix adjust.
 Identities = 103/219 (47%), Positives = 141/219 (64%), Gaps = 3/219 (1%)
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 QSHTLIIFLNQVRFSAKSGQGLGRMDEVTSGGNALKFYA 283
           +S  ++IF NQ+R   K G   G   E T+GG ALKFYA
Sbjct: 186 KSKAVVIFTNQIRM--KIGVMFGS-PETTTGGLALKFYA 221

>pdb|3CMU|A Chain A, Mechanism Of Homologous Recombination From The Reca- SsdnaDSDNA STRUCTURES Length = 2050

Iteration: 1
 Score =  187 bits (475), Expect = 6e-48,   Method: Compositional matrix adjust.
 Identities = 108/222 (48%), Positives = 137/222 (61%), Gaps = 10/222 (4%)
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 LCQSHTLIIFLNQVRFSAKSGQGLGRMDEVTSGGNALKFYAA 284
           L QS+TL+IF+NQ+R   K G   G   E T+GGNALKFYA+
Sbjct: 506 LKQSNTLLIFINQIRM--KIGVMFGN-PETTTGGNALKFYAS 544

>pdb|2REC|A Chain A, Reca Hexamer Model, Electron Microscopy Length = 353

Iteration: 1
 Score =  187 bits (475), Expect = 6e-48,   Method: Compositional matrix adjust.
 Identities = 108/222 (48%), Positives = 137/222 (61%), Gaps = 10/222 (4%)
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 LCQSHTLIIFLNQVRFSAKSGQGLGRMDEVTSGGNALKFYAA 284
           L QS+TL+IF+NQ+R   K G   G   E T+GGNALKFYA+
Sbjct: 183 LKQSNTLLIFINQIRM--KIGVMFGN-PETTTGGNALKFYAS 221

>pdb|3CMT|A Chain A, Mechanism Of Homologous Recombination From The Reca- SsdnaDSDNA STRUCTURES Length = 1706

Iteration: 1
 Score =  187 bits (475), Expect = 6e-48,   Method: Compositional matrix adjust.
 Identities = 108/222 (48%), Positives = 137/222 (61%), Gaps = 10/222 (4%)
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 LCQSHTLIIFLNQVRFSAKSGQGLGRMDEVTSGGNALKFYAA 284
           L QS+TL+IF+NQ+R   K G   G   E T+GGNALKFYA+
Sbjct: 506 LKQSNTLLIFINQIRM--KIGVMFGN-PETTTGGNALKFYAS 544

>pdb|1N03|A Chain A, Model For Active Reca Filament Length = 352

Iteration: 1
 Score =  187 bits (475), Expect = 6e-48,   Method: Compositional matrix adjust.
 Identities = 108/222 (48%), Positives = 137/222 (61%), Gaps = 10/222 (4%)
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 LCQSHTLIIFLNQVRFSAKSGQGLGRMDEVTSGGNALKFYAA 284
           L QS+TL+IF+NQ+R   K G   G   E T+GGNALKFYA+
Sbjct: 182 LKQSNTLLIFINQIRM--KIGVMFGN-PETTTGGNALKFYAS 220

>pdb|1U94|A Chain A, Crystal Structure Of E. Coli Reca In A Compressed Helical Filament Form 2 Length = 356

Iteration: 1
 Score =  187 bits (475), Expect = 7e-48,   Method: Compositional matrix adjust.
 Identities = 108/222 (48%), Positives = 137/222 (61%), Gaps = 10/222 (4%)
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 LCQSHTLIIFLNQVRFSAKSGQGLGRMDEVTSGGNALKFYAA 284
           L QS+TL+IF+NQ+R   K G   G   E T+GGNALKFYA+
Sbjct: 186 LKQSNTLLIFINQIRM--KIGVMFGN-PETTTGGNALKFYAS 224

>pdb|3CMV|A Chain A, Mechanism Of Homologous Recombination From The Reca- SsdnaDSDNA STRUCTURES Length = 1357

Iteration: 1
 Score =  187 bits (475), Expect = 7e-48,   Method: Compositional matrix adjust.
 Identities = 108/222 (48%), Positives = 137/222 (61%), Gaps = 10/222 (4%)
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 LCQSHTLIIFLNQVRFSAKSGQGLGRMDEVTSGGNALKFYAA 284
           L QS+TL+IF+NQ+R   K G   G   E T+GGNALKFYA+
Sbjct: 506 LKQSNTLLIFINQIRM--KIGVMFGN-PETTTGGNALKFYAS 544

>pdb|1UBC|A Chain A, Structure Of Reca Protein Length = 349

Iteration: 1
 Score =  186 bits (471), Expect = 2e-47,   Method: Compositional matrix adjust.
 Identities = 100/221 (45%), Positives = 142/221 (64%), Gaps = 8/221 (3%)
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 CQSHTLIIFLNQVRFSAKSGQGLGRMDEVTSGGNALKFYAA 284
             S T  IF+NQ+R   K G   G   E T+GG ALKFYA+
Sbjct: 185 NNSGTTAIFINQLR--EKIGVMFGS-PETTTGGKALKFYAS 222

>pdb|2ZR0|A Chain A, Msreca-Q196e Mutant Length = 349

Iteration: 1
 Score =  184 bits (467), Expect = 5e-47,   Method: Compositional matrix adjust.
 Identities = 99/221 (44%), Positives = 142/221 (64%), Gaps = 8/221 (3%)
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 CQSHTLIIFLNQVRFSAKSGQGLGRMDEVTSGGNALKFYAA 284
             S T  IF+N++R   K G   G   E T+GG ALKFYA+
Sbjct: 185 NNSGTTAIFINELR--EKIGVMFGS-PETTTGGKALKFYAS 222

>pdb|2ZRC|A Chain A, Msreca Q196n Form Iv Length = 349

Iteration: 1
 Score =  183 bits (465), Expect = 1e-46,   Method: Compositional matrix adjust.
 Identities = 99/221 (44%), Positives = 141/221 (63%), Gaps = 8/221 (3%)
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 CQSHTLIIFLNQVRFSAKSGQGLGRMDEVTSGGNALKFYAA 284
             S T  IF+N +R   K G   G   E T+GG ALKFYA+
Sbjct: 185 NNSGTTAIFINNLR--EKIGVMFGS-PETTTGGKALKFYAS 222

>pdb|2ZRH|A Chain A, Msreca Q196a Form Iv Length = 349

Iteration: 1
 Score =  183 bits (464), Expect = 1e-46,   Method: Compositional matrix adjust.
 Identities = 99/221 (44%), Positives = 141/221 (63%), Gaps = 8/221 (3%)
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 CQSHTLIIFLNQVRFSAKSGQGLGRMDEVTSGGNALKFYAA 284
             S T  IF+N +R   K G   G   E T+GG ALKFYA+
Sbjct: 185 NNSGTTAIFINALR--EKIGVMFGS-PETTTGGKALKFYAS 222

>pdb|1G18|A Chain A, Reca-Adp-Alf4 Complex Length = 350

Iteration: 1
 Score =  182 bits (461), Expect = 3e-46,   Method: Compositional matrix adjust.
 Identities = 98/221 (44%), Positives = 141/221 (63%), Gaps = 8/221 (3%)
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 CQSHTLIIFLNQVRFSAKSGQGLGRMDEVTSGGNALKFYAA 284
             S T  IF+NQ+R   K G   G   E T+GG ALKFYA+
Sbjct: 184 NNSGTTAIFINQLR--DKIGVMFGS-PETTTGGKALKFYAS 221

>pdb|1XP8|A Chain A, "deinococcus Radiodurans Reca In Complex With Atp-Gamma-S" Length = 366

Iteration: 1
 Score =  181 bits (458), Expect = 6e-46,   Method: Compositional matrix adjust.
 Identities = 101/231 (43%), Positives = 144/231 (62%), Gaps = 18/231 (7%)
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 RKIHYSLCQSHTLIIFLNQVRFSAKSGQGLGRM---DEVTSGGNALKFYAA 284
           RK+   L ++ T  IF+NQVR      + +G M    E T+GG ALKFYA+
Sbjct: 191 RKLTAILSKTGTAAIFINQVR------EKIGVMYGNPETTTGGRALKFYAS 235

>pdb|2CVF|A Chain A, Crystal Structure Of The Radb Recombinase Length = 220

Iteration: 1
 Score = 47.8 bits (112), Expect = 8e-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----LAEAMGIDAEN----LLIAQPDSAENLLSVVDTLTKS 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 = 43.9 bits (102), Expect = 1e-04,   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|2W0M|A Chain A, Crystal Structure Of Sso2452 From Sulfolobus Solfataricus P2 Length = 235

Iteration: 1
 Score = 43.9 bits (102), Expect = 1e-04,   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|4A6P|A Chain A, Rada C-Terminal Atpase Domain From Pyrococcus Furiosus Length = 231

Iteration: 1
 Score = 43.9 bits (102), Expect = 1e-04,   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 = 1e-04,   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|1SZP|A Chain A, A Crystal Structure Of The Rad51 Filament Length = 321

Iteration: 1
 Score = 43.5 bits (101), Expect = 2e-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 = 42.7 bits (99), Expect = 2e-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	315
3hr8_A	356	Protein RECA; alpha and beta proteins (A/B, A+B),	4e-94
2zr9_A	349	Protein RECA, recombinase A; recombination, RECA m	4e-93
1u94_A	356	RECA protein, recombinase A; homologous recombinat	7e-93
1xp8_A	366	RECA protein, recombinase A; recombination, radior	6e-92
3cmu_A	2050	Protein RECA, recombinase A; homologous recombinat	2e-86
3cmu_A	2050	Protein RECA, recombinase A; homologous recombinat	1e-85
3cmu_A	2050	Protein RECA, recombinase A; homologous recombinat	2e-85
3cmu_A	2050	Protein RECA, recombinase A; homologous recombinat	2e-85
3cmu_A	2050	Protein RECA, recombinase A; homologous recombinat	8e-85
3cmu_A	2050	Protein RECA, recombinase A; homologous recombinat	7e-80
3cmw_A	1706	Protein RECA, recombinase A; homologous recombinat	1e-85
3cmw_A	1706	Protein RECA, recombinase A; homologous recombinat	1e-85
3cmw_A	1706	Protein RECA, recombinase A; homologous recombinat	2e-85
3cmw_A	1706	Protein RECA, recombinase A; homologous recombinat	5e-85
3cmw_A	1706	Protein RECA, recombinase A; homologous recombinat	9e-80
3io5_A	333	Recombination and repair protein; storage dimer, i	4e-68
1v5w_A	343	DMC1, meiotic recombination protein DMC1/LIM15 hom	2e-46
2z43_A	324	DNA repair and recombination protein RADA; archaea	3e-46
3lda_A	400	DNA repair protein RAD51; DNA binding protein, ATP	4e-38
1pzn_A	349	RAD51, DNA repair and recombination protein RAD51,	4e-36
1n0w_A	243	DNA repair protein RAD51 homolog 1; DNA repair, ho	8e-36
2i1q_A	322	DNA repair and recombination protein RADA; ATPase,	2e-31
2cvh_A	220	DNA repair and recombination protein RADB; filamen	7e-18
1tf7_A	525	KAIC; homohexamer, hexamer, circadian clock protei	5e-12
1tf7_A	525	KAIC; homohexamer, hexamer, circadian clock protei	1e-08
2dr3_A	247	UPF0273 protein PH0284; RECA superfamily ATPase, h	7e-10
2w0m_A	235	SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus	3e-09
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	7e-09
2ehv_A	251	Hypothetical protein PH0186; KAIC, RECA ATPase, un	4e-08
3bs4_A	260	Uncharacterized protein PH0321; structural genomic	5e-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 =  281 bits (722), Expect = 4e-94
 Identities = 117/245 (47%), Positives = 160/245 (65%), Gaps = 11/245 (4%)

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 RKIHYSLCQSHTLIIFLNQVRFSAKSGQGLGRMDEVTSGGNALKFYAALRLRMMRTRLFK 296
           RKI  S+ +S  ++IF NQ+R   K G   G   E T+GG ALKFYA +R+ + R    K
Sbjct: 178 RKIAGSVNKSKAVVIFTNQIR--MKIGVMFGS-PETTTGGLALKFYATMRMEVRRGEPIK 234

Query: 297 IADKV 301
               V
Sbjct: 235 EGKDV 239

>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 =  279 bits (716), Expect = 4e-93
 Identities = 112/244 (45%), Positives = 160/244 (65%), Gaps = 18/244 (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 KIHYSLCQSHTLIIFLNQVRFSAKSGQGLGRMDEVTSGGNALKFYAALRLRMMRTRLFKI 297
           K+  +L  S T  IF+N++R   K G   G   E T+GG ALKFYA++RL + R    K 
Sbjct: 179 KMTGALNNSGTTAIFINELR--EKIGVMFGS-PETTTGGKALKFYASVRLDVRRIETLKD 235

Query: 298 ADKV 301
               
Sbjct: 236 GTDA 239

>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 =  278 bits (714), Expect = 7e-93
 Identities = 124/244 (50%), Positives = 158/244 (64%), Gaps = 18/244 (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 KIHYSLCQSHTLIIFLNQVRFSAKSGQGLGRMDEVTSGGNALKFYAALRLRMMRTRLFKI 297
           K+  +L QS+TL+IF+NQ+R   K G   G   E T+GGNALKFYA++RL + R    K 
Sbjct: 181 KLAGNLKQSNTLLIFINQIR--MKIGVMFGN-PETTTGGNALKFYASVRLDIRRIGAVKE 237

Query: 298 ADKV 301
            + V
Sbjct: 238 GENV 241

>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 =  276 bits (709), Expect = 6e-92
 Identities = 112/238 (47%), Positives = 160/238 (67%), Gaps = 24/238 (10%)

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 KIHYSLCQSHTLIIFLNQVRFSAKSGQGLGRM---DEVTSGGNALKFYAALRLRMMRT 292
           K+   L ++ T  IF+NQVR      + +G M    E T+GG ALKFYA++RL + + 
Sbjct: 192 KLTAILSKTGTAAIFINQVR------EKIGVMYGNPETTTGGRALKFYASVRLDVRKI 243

>3cmu_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 4.20A {Escherichia coli} Length = 2050

 Score =  282 bits (723), Expect = 2e-86
 Identities = 126/269 (46%), Positives = 163/269 (60%), Gaps = 18/269 (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----QSRIMTQALRKIHYSLCQSHTLIIFLNQVRFSAKSGQGLGRMDEV 272
               I G   D+     +R+M+QA+RK+  +L QS+TL+IF+NQ+R   K G   G   E 
Sbjct: 1523 ---IEGEIGDSHMGLAARMMSQAMRKLAGNLKQSNTLLIFINQIR--MKIGVMFGN-PET 1576

Query: 273  TSGGNALKFYAALRLRMMRTRLFKIADKV 301
            T+GGNALKFYA++RL + R    K  + V
Sbjct: 1577 TTGGNALKFYASVRLDIRRIGAVKEGENV 1605

>3cmu_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 4.20A {Escherichia coli} Length = 2050

 Score =  280 bits (717), Expect = 1e-85
 Identities = 125/258 (48%), Positives = 159/258 (61%), Gaps = 18/258 (6%)

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 ----QSRIMTQALRKIHYSLCQSHTLIIFLNQVRFSAKSGQGLGRMDEVTSGGNALKFYA 283
                +R+M+QA+RK+  +L QS+TL+IF+NQ+R   K G   G   E T+GGNALKFYA
Sbjct: 487 HMGLAARMMSQAMRKLAGNLKQSNTLLIFINQIR--MKIGVMFGN-PETTTGGNALKFYA 543

Query: 284 ALRLRMMRTRLFKIADKV 301
           ++RL + R    K  + V
Sbjct: 544 SVRLDIRRIGAVKEGENV 561

>3cmu_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 4.20A {Escherichia coli} Length = 2050

 Score =  279 bits (716), Expect = 2e-85
 Identities = 126/270 (46%), Positives = 163/270 (60%), Gaps = 18/270 (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----QSRIMTQALRKIHYSLCQSHTLIIFLNQVRFSAKSGQGLGRMDE 271
                I G   D+     +R+M+QA+RK+  +L QS+TL+IF+NQ+R   K G   G   E
Sbjct: 1871 ----IEGEIGDSHMGLAARMMSQAMRKLAGNLKQSNTLLIFINQIR--MKIGVMFGN-PE 1923

Query: 272  VTSGGNALKFYAALRLRMMRTRLFKIADKV 301
             T+GGNALKFYA++RL + R    K  + V
Sbjct: 1924 TTTGGNALKFYASVRLDIRRIGAVKEGENV 1953

>3cmu_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 4.20A {Escherichia coli} Length = 2050

 Score =  279 bits (715), Expect = 2e-85
 Identities = 125/255 (49%), Positives = 159/255 (62%), Gaps = 18/255 (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 -QSRIMTQALRKIHYSLCQSHTLIIFLNQVRFSAKSGQGLGRMDEVTSGGNALKFYAALR 286
             +R+M+QA+RK+  +L QS+TL+IF+NQ+R   K G   G   E T+GGNALKFYA++R
Sbjct: 839 LAARMMSQAMRKLAGNLKQSNTLLIFINQIR--MKIGVMFGN-PETTTGGNALKFYASVR 895

Query: 287 LRMMRTRLFKIADKV 301
           L + R    K  + V
Sbjct: 896 LDIRRIGAVKEGENV 910

>3cmu_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 4.20A {Escherichia coli} Length = 2050

 Score =  277 bits (710), Expect = 8e-85
 Identities = 125/258 (48%), Positives = 159/258 (61%), Gaps = 18/258 (6%)

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  ----QSRIMTQALRKIHYSLCQSHTLIIFLNQVRFSAKSGQGLGRMDEVTSGGNALKFYA 283
                 +R+M+QA+RK+  +L QS+TL+IF+NQ+R   K G   G   E T+GGNALKFYA
Sbjct: 1185 HMGLAARMMSQAMRKLAGNLKQSNTLLIFINQIR--MKIGVMFGN-PETTTGGNALKFYA 1241

Query: 284  ALRLRMMRTRLFKIADKV 301
            ++RL + R    K  + V
Sbjct: 1242 SVRLDIRRIGAVKEGENV 1259

>3cmu_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 4.20A {Escherichia coli} Length = 2050

 Score =  263 bits (673), Expect = 7e-80
 Identities = 111/207 (53%), Positives = 142/207 (68%), Gaps = 11/207 (5%)

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----QSRIMTQALRKIHYSLCQSHTLIIFLNQVRFSAKSGQGLGRMDEVTS 274
            I G   D+     +R+M+QA+RK+  +L QS+TL+IF+NQ+R   K G   G   E T+
Sbjct: 130 -IEGEIGDSHMGLAARMMSQAMRKLAGNLKQSNTLLIFINQIR--MKIGVMFGN-PETTT 185

Query: 275 GGNALKFYAALRLRMMRTRLFKIADKV 301
           GGNALKFYA++RL + R    K  + V
Sbjct: 186 GGNALKFYASVRLDIRRIGAVKEGENV 212

>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 =  280 bits (717), Expect = 1e-85
 Identities = 125/258 (48%), Positives = 159/258 (61%), Gaps = 18/258 (6%)

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 ----QSRIMTQALRKIHYSLCQSHTLIIFLNQVRFSAKSGQGLGRMDEVTSGGNALKFYA 283
                +R+M+QA+RK+  +L QS+TL+IF+NQ+R   K G   G   E T+GGNALKFYA
Sbjct: 487 HMGLAARMMSQAMRKLAGNLKQSNTLLIFINQIR--MKIGVMFGN-PETTTGGNALKFYA 543

Query: 284 ALRLRMMRTRLFKIADKV 301
           ++RL + R    K  + V
Sbjct: 544 SVRLDIRRIGAVKEGENV 561

>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 =  279 bits (716), Expect = 1e-85
 Identities = 125/258 (48%), Positives = 159/258 (61%), Gaps = 18/258 (6%)

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  ----QSRIMTQALRKIHYSLCQSHTLIIFLNQVRFSAKSGQGLGRMDEVTSGGNALKFYA 283
                 +R+M+QA+RK+  +L QS+TL+IF+NQ+R   K G   G   E T+GGNALKFYA
Sbjct: 1535 HMGLAARMMSQAMRKLAGNLKQSNTLLIFINQIR--MKIGVMFGN-PETTTGGNALKFYA 1591

Query: 284  ALRLRMMRTRLFKIADKV 301
            ++RL + R    K  + V
Sbjct: 1592 SVRLDIRRIGAVKEGENV 1609

>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 =  279 bits (715), Expect = 2e-85
 Identities = 125/270 (46%), Positives = 165/270 (61%), Gaps = 18/270 (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----QSRIMTQALRKIHYSLCQSHTLIIFLNQVRFSAKSGQGLGRMDE 271
               I G   D+     +R+M+QA+RK+  +L QS+TL+IF+NQ+R   K G   G   E
Sbjct: 828 ----IEGEIGDSHMGLAARMMSQAMRKLAGNLKQSNTLLIFINQIR--MKIGVMFGN-PE 880

Query: 272 VTSGGNALKFYAALRLRMMRTRLFKIADKV 301
            T+GGNALKFYA++RL + R    K  + V
Sbjct: 881 TTTGGNALKFYASVRLDIRRIGAVKEGENV 910

>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 =  278 bits (712), Expect = 5e-85
 Identities = 127/270 (47%), Positives = 164/270 (60%), Gaps = 18/270 (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----QSRIMTQALRKIHYSLCQSHTLIIFLNQVRFSAKSGQGLGRMDE 271
                I G   D+     +R+M+QA+RK+  +L QS+TL+IF+NQ+R   K G   G   E
Sbjct: 1178 ----IEGEIGDSHMGLAARMMSQAMRKLAGNLKQSNTLLIFINQIR--MKIGVMFGN-PE 1230

Query: 272  VTSGGNALKFYAALRLRMMRTRLFKIADKV 301
             T+GGNALKFYA++RL + R    K  + V
Sbjct: 1231 TTTGGNALKFYASVRLDIRRIGAVKEGENV 1260

>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 =  263 bits (673), Expect = 9e-80
 Identities = 111/207 (53%), Positives = 142/207 (68%), Gaps = 11/207 (5%)

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----QSRIMTQALRKIHYSLCQSHTLIIFLNQVRFSAKSGQGLGRMDEVTS 274
            I G   D+     +R+M+QA+RK+  +L QS+TL+IF+NQ+R   K G   G   E T+
Sbjct: 130 -IEGEIGDSHMGLAARMMSQAMRKLAGNLKQSNTLLIFINQIR--MKIGVMFGN-PETTT 185

Query: 275 GGNALKFYAALRLRMMRTRLFKIADKV 301
           GGNALKFYA++RL + R    K  + V
Sbjct: 186 GGNALKFYASVRLDIRRIGAVKEGENV 212

>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 =  215 bits (548), Expect = 4e-68
 Identities = 42/213 (19%), Positives = 83/213 (38%), Gaps = 17/213 (7%)

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--MYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVRFSAKSGQGLGR 268
             K E    +N   +    +++ M    R +       +   I +N         +    
Sbjct: 124 ASKKETEDALNEKVVSDMTRAKTMKSLFRIVTPYFSTKNIPCIAINHTY------ETQEM 177

Query: 269 MDEVTSGGNALKFYAALRLRMMRTRLFKIADKV 301
             +   GG     Y+A  + ++  R  K    +
Sbjct: 178 FSKTVMGGGTGPMYSADTVFIIGKRQIKDGSDL 210

>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 =  159 bits (403), Expect = 2e-46
 Identities = 57/286 (19%), Positives = 111/286 (38%), Gaps = 32/286 (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 VIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVRFSA 260
           ++++DS+ AL  + +      G  ++ Q + + Q L ++     + +  +   NQ+    
Sbjct: 222 LLIIDSIMALF-RVDF--SGRGELAERQ-QKLAQMLSRLQKISEEYNVAVFVTNQMTADP 277

Query: 261 KSGQGLGRMDEVTSGGNALKFYAALRLRMMR----TRLFKIADKVN 302
            +        +   GG+ L   +  R+ + +     R+ KI D   
Sbjct: 278 GATMTFQADPKKPIGGHILAHASTTRISLRKGRGELRIAKIYDSPE 323

>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 =  157 bits (400), Expect = 3e-46
 Identities = 59/256 (23%), Positives = 103/256 (40%), Gaps = 34/256 (13%)

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 QSRIMTQALRKIHYSLCQSHTLIIFLNQVRFSAKSGQGLGRMDEVTSGGNALKFYAALRL 287
           + + + + L ++          +I  NQV   A+     G    V  GG+ L     +R+
Sbjct: 229 RQQKLNKHLHQLTRLAEVYDIAVIITNQVM--ARPDMFYGD-PTVAVGGHTLYHVPGIRI 285

Query: 288 RMMR----TRLFKIAD 299
           ++ +     R+ ++ D
Sbjct: 286 QLKKSRGNRRIARVVD 301

>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 =  138 bits (349), Expect = 4e-38
 Identities = 60/271 (22%), Positives = 99/271 (36%), Gaps = 26/271 (9%)

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 VVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVRFSAKS 262
           VVDSV AL  + +           A+   + + +R +     Q    ++  NQV      
Sbjct: 278 VVDSVMAL-YRTDFS---GRGELSARQMHLAKFMRALQRLADQFGVAVVVTNQVVAQVDG 333

Query: 263 GQGLGRMDEVTSGGNALKFYAALRLRMMRTR 293
           G       +   GGN + + +  RL   + +
Sbjct: 334 GMAFNPDPKKPIGGNIMAYSSTTRLGFKKGK 364

>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 =  132 bits (332), Expect = 4e-36
 Identities = 51/244 (20%), Positives = 95/244 (38%), Gaps = 31/244 (12%)

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 RIMTQALRKIHYSLCQSHTLIIFLNQVRFSAKSGQGLGRMDEVTSGGNALKFYAALRLRM 289
           + + + L  +H         +   NQV+    +  G         GG+ L   A LR+ +
Sbjct: 259 QKLAKHLADLHRLANLYDIAVFVTNQVQARPDAFFG---DPTRPIGGHILAHSATLRVYL 315

Query: 290 MRTR 293
            + +
Sbjct: 316 RKGK 319

>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 =  128 bits (323), Expect = 8e-36
 Identities = 51/223 (22%), Positives = 81/223 (36%), Gaps = 26/223 (11%)

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 VDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVRFSAKSG 263
           VDS  AL      G         A+   + + LR +     +    ++  NQV       
Sbjct: 125 VDSATALYRTDYSGRGELS----ARQMHLARFLRMLLRLADEFGVAVVITNQVVAQVDGA 180

Query: 264 QGLGRMDEVTSGGNALKFYAALRLRMMR----TRLFKIADKVN 302
                  +   GGN +   +  RL + +    TR+ KI D   
Sbjct: 181 AMFAADPKKPIGGNIIAHASTTRLYLRKGRGETRICKIYDSPC 223

>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 =  118 bits (298), Expect = 2e-31
 Identities = 48/255 (18%), Positives = 91/255 (35%), Gaps = 40/255 (15%)

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 PINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVRFSAKSGQGLGRMDEVTSGGNA 278
              G  ++ + + + + +  ++      + +++  NQV     +  G   M E   GG+ 
Sbjct: 224 --RGKLAE-RQQKLGRHMATLNKLADLFNCVVLVTNQVSAKPDAFFG---MAEQAIGGHI 277

Query: 279 LKFYAALRLRMMRTR 293
           +   A  R  + + +
Sbjct: 278 VGHAATFRFFVRKGK 292

>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 = 79.9 bits (198), Expect = 7e-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 = 65.3 bits (159), Expect = 5e-12
 Identities = 29/150 (19%), 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 --PSLAEAMGIDAENLLI----------AQPDSAENLLSVVDTLTKSGSIDVIVVDSVAA 209
                A + G+D E +             +    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 = 54.9 bits (132), Expect = 1e-08
 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 = 57.4 bits (139), Expect = 7e-10
 Identities = 35/195 (17%), Positives = 65/195 (33%), Gaps = 45/195 (23%)

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 NQVRFSAKSGQGLGR 268
           +QV       +G G 
Sbjct: 170 SQVS---VGERGFGG 181

>2w0m_A SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus solfataricus P2} Length = 235

 Score = 55.4 bits (134), Expect = 3e-09
 Identities = 33/150 (22%), Positives = 65/150 (43%), Gaps = 12/150 (8%)

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 D--PSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTKSGSIDVI-VVDSVAALIPKCEIG 217
           D     A+    D E  +  +    + L+   +      ++    +V+ V     K   G
Sbjct: 64  DSIIRQAKQFNWDFEEYIEKKLIIIDALMKEKEDQWSLVNLTPEELVNKVIEAKQKLGYG 123

Query: 218 V------PINGMYSD--AQSRIMTQALRKI 239
                   ++ ++ D  A +R ++  L+++
Sbjct: 124 KARLVIDSVSALFLDKPAMARKISYYLKRV 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 = 56.0 bits (134), Expect = 7e-09
 Identities = 58/375 (15%), Positives = 101/375 (26%), Gaps = 105/375 (28%)

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---QKLG--------GYC----AYLDVENAL---- 160
            + V I G   SGKT +AL V        K+           C      L++   L    
Sbjct: 150 AKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQI 209

Query: 161 DPSLAEAM------------GIDAENLLIAQPDSAENLLSVVD----------------T 192
           DP+                        L+        LL V+                  
Sbjct: 210 DPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLL-VLLNVQNAKAWNAFNLSCKI 268

Query: 193 L--TKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSR-IMTQALRKIHYSL----CQ 245
           L  T+       V D ++A           +   +  + + ++ + L      L      
Sbjct: 269 LLTTR----FKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLT 324

Query: 246 SHTLIIFLNQVRFSAKSGQGLGRMDEV-TSGGNALK-----FYAALRLRMMRTRLFKIA- 298
           ++   + +     +     GL   D       + L          L     R    +++ 
Sbjct: 325 TNPRRLSI----IAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSV 380

Query: 299 --DKVNI----LEVV 307
                +I    L ++
Sbjct: 381 FPPSAHIPTILLSLI 395

>3bs4_A Uncharacterized protein PH0321; structural genomics, unknown function, PSI-2, protein struct initiative; 1.60A {Pyrococcus horikoshii} Length = 260

 Score = 43.3 bits (101), Expect = 5e-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	315
3hr8_A	356	Protein RECA; alpha and beta proteins (A/B, A+B),	100.0
3io5_A	333	Recombination and repair protein; storage dimer, i	100.0
3cmu_A	2050	Protein RECA, recombinase A; homologous recombinat	100.0
3cmw_A	1706	Protein RECA, recombinase A; homologous recombinat	100.0
1u94_A	356	RECA protein, recombinase A; homologous recombinat	100.0
2zr9_A	349	Protein RECA, recombinase A; recombination, RECA m	100.0
1xp8_A	366	RECA protein, recombinase A; recombination, radior	100.0
3cmu_A	2050	Protein RECA, recombinase A; homologous recombinat	100.0
3cmw_A	1706	Protein RECA, recombinase A; homologous recombinat	100.0
2z43_A	324	DNA repair and recombination protein RADA; archaea	99.97
1v5w_A	343	DMC1, meiotic recombination protein DMC1/LIM15 hom	99.97
2i1q_A	322	DNA repair and recombination protein RADA; ATPase,	99.97
3lda_A	400	DNA repair protein RAD51; DNA binding protein, ATP	99.95
1pzn_A	349	RAD51, DNA repair and recombination protein RAD51,	99.94
1n0w_A	243	DNA repair protein RAD51 homolog 1; DNA repair, ho	99.94
2zts_A	251	Putative uncharacterized protein PH0186; KAIC like	99.92
3bh0_A	315	DNAB-like replicative helicase; ATPase, replicatio	99.92
4a1f_A	338	DNAB helicase, replicative DNA helicase; hydrolase	99.92
3bgw_A	444	DNAB-like replicative helicase; ATPase, replicatio	99.9
2q6t_A	444	DNAB replication FORK helicase; hydrolase; 2.90A {	99.9
2dr3_A	247	UPF0273 protein PH0284; RECA superfamily ATPase, h	99.9
2cvh_A	220	DNA repair and recombination protein RADB; filamen	99.9
1q57_A	503	DNA primase/helicase; dntpase, DNA replication, tr	99.89
2r6a_A	454	DNAB helicase, replicative helicase; replication,	99.88
4a74_A	231	DNA repair and recombination protein RADA; hydrola	99.86
2w0m_A	235	SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus	99.81
2ehv_A	251	Hypothetical protein PH0186; KAIC, RECA ATPase, un	99.76
1nlf_A	279	Regulatory protein REPA; replicative DNA helicase	99.75
1cr0_A	296	DNA primase/helicase; RECA-type protein fold, tran	99.72
3bs4_A	260	Uncharacterized protein PH0321; structural genomic	99.72
1tf7_A	525	KAIC; homohexamer, hexamer, circadian clock protei	99.7
2vhj_A	331	Ntpase P4, P4; non- hydrolysable ATP analogue, hyd	99.57
1tf7_A	525	KAIC; homohexamer, hexamer, circadian clock protei	99.47
2b8t_A	223	Thymidine kinase; deoxyribonucleoside kinase, zinc	99.07
3ec2_A	180	DNA replication protein DNAC; helicase loader, rep	98.65
2kjq_A	149	DNAA-related protein; solution structure, NESG, st	98.64
4b4t_J	405	26S protease regulatory subunit 8 homolog; hydrola	98.57
4b4t_K	428	26S protease regulatory subunit 6B homolog; hydrol	98.55
4b4t_I	437	26S protease regulatory subunit 4 homolog; hydrola	98.52
1c9k_A	180	COBU, adenosylcobinamide kinase; alpha/beta struct	98.52
3rlf_A	381	Maltose/maltodextrin import ATP-binding protein M;	98.51
2orw_A	184	Thymidine kinase; TMTK, TP4A, transferase; HET: 4T	98.51
1j8m_F	297	SRP54, signal recognition 54 kDa protein; signalin	98.5
4b4t_M	434	26S protease regulatory subunit 6A; hydrolase, AAA	98.49
4g1u_C	266	Hemin import ATP-binding protein HMUV; membrane tr	98.49
4b4t_L	437	26S protease subunit RPT4; hydrolase, AAA-atpases,	98.48
3tif_A	235	Uncharacterized ABC transporter ATP-binding prote;	98.46
3gfo_A	275	Cobalt import ATP-binding protein CBIO 1; structur	98.45
3tui_C	366	Methionine import ATP-binding protein METN; ABC-tr	98.45
2pcj_A	224	ABC transporter, lipoprotein-releasing system ATP-	98.44
3fvq_A	359	Fe(3+) IONS import ATP-binding protein FBPC; nucle	98.42
2it1_A	362	362AA long hypothetical maltose/maltodextrin trans	98.4
3h4m_A	285	Proteasome-activating nucleotidase; ATPase, PAN, A	98.39
2olj_A	263	Amino acid ABC transporter; ABC domain, ATPase, hy	98.39
2yyz_A	359	Sugar ABC transporter, ATP-binding protein; sugar	98.38
1vpl_A	256	ABC transporter, ATP-binding protein; TM0544, stru	98.37
1oft_A	161	SULA, hypothetical protein PA3008; bacterial cell	98.37
4b4t_H	467	26S protease regulatory subunit 7 homolog; hydrola	98.37
1v43_A	372	Sugar-binding transport ATP-binding protein; ATPas	98.36
1z47_A	355	CYSA, putative ABC-transporter ATP-binding protein	98.35
2onk_A	240	Molybdate/tungstate ABC transporter, ATP-binding p	98.3
1g6h_A	257	High-affinity branched-chain amino acid transport	98.29
3d31_A	348	Sulfate/molybdate ABC transporter, ATP-binding pro	98.28
1g29_1	372	MALK, maltose transport protein MALK; ATPase, acti	98.27
1xwi_A	322	SKD1 protein; VPS4B, AAA ATPase, protein transport	98.26
2qby_A	386	CDC6 homolog 1, cell division control protein 6 ho	98.24
1fnn_A	389	CDC6P, cell division control protein 6; ORC1, AAA	98.23
3kl4_A	433	SRP54, signal recognition 54 kDa protein; signal r	98.23
1xx6_A	191	Thymidine kinase; NESG, northeast structural genom	98.22
1vma_A	306	Cell division protein FTSY; TM0570, structural gen	98.22
2qi9_C	249	Vitamin B12 import ATP-binding protein BTUD; inner	98.22
2j9r_A	214	Thymidine kinase; TK1, DNK, lasso, transferase, AT	98.2
1b0u_A	262	Histidine permease; ABC transporter, transport pro	98.19
2nq2_C	253	Hypothetical ABC transporter ATP-binding protein H	98.18
1oxx_K	353	GLCV, glucose, ABC transporter, ATP binding protei	98.18
1ji0_A	240	ABC transporter; ATP binding protein, structural g	98.15
2v1u_A	387	Cell division control protein 6 homolog; DNA repli	98.14
2ihy_A	279	ABC transporter, ATP-binding protein; ATPase, ABC	98.13
3bos_A	242	Putative DNA replication factor; P-loop containing	98.13
1l8q_A	324	Chromosomal replication initiator protein DNAA; AA	98.12
3dm5_A	443	SRP54, signal recognition 54 kDa protein; protein-	98.12
2orv_A	234	Thymidine kinase; TP4A (P1-(5'-adenosyl)P4-(5'- (2	98.11
2ixe_A	271	Antigen peptide transporter 1; ABC ATPase, hydrola	98.08
1jbk_A	195	CLPB protein; beta barrel, chaperone; 1.80A {Esche	98.07
2r8r_A	228	Sensor protein; KDPD, PFAM02702, MCSG, structural	98.07
2ff7_A	247	Alpha-hemolysin translocation ATP-binding protein	98.07
1lv7_A	257	FTSH; alpha/beta domain, four helix bundle, hydrol	98.06
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	98.03
3eie_A	322	Vacuolar protein sorting-associated protein 4; AAA	98.02
2yhs_A	503	FTSY, cell division protein FTSY; cell cycle, prot	98.01
3cf0_A	301	Transitional endoplasmic reticulum ATPase; AAA, P9	98.01
1w4r_A	195	Thymidine kinase; type II, human, cytosolic, phosp	98.01
2z4s_A	440	Chromosomal replication initiator protein DNAA; AA	98.0
1rj9_A	304	FTSY, signal recognition protein; SRP-GTPase domai	98.0
3e70_C	328	DPA, signal recognition particle receptor; FTSY, S	98.0
2qz4_A	262	Paraplegin; AAA+, SPG7, protease, ADP, structural	97.99
1sgw_A	214	Putative ABC transporter; structural genomics, P p	97.97
3nh6_A	306	ATP-binding cassette SUB-family B member 6, mitoc;	97.97
2p65_A	187	Hypothetical protein PF08_0063; CLPB, malaria, str	97.97
2qp9_X	355	Vacuolar protein sorting-associated protein 4; ATP	97.97
3b9p_A	297	CG5977-PA, isoform A; AAA ATPase, ATP-binding, nuc	97.97
2px0_A	296	Flagellar biosynthesis protein FLHF; SRP GTPase, f	97.96
4gp7_A	171	Metallophosphoesterase; polynucleotide kinase phos	97.96
3e2i_A	219	Thymidine kinase; Zn-binding, ATP-binding, DNA syn	97.94
2ce7_A	476	Cell division protein FTSH; metalloprotease; HET:	97.92
2w58_A	202	DNAI, primosome component (helicase loader); ATP-b	97.92
2qgz_A	308	Helicase loader, putative primosome component; str	97.9
1zu4_A	320	FTSY; GTPase, signal recognition particle, SRP, re	97.9
3t15_A	293	Ribulose bisphosphate carboxylase/oxygenase activ	97.88
1ls1_A	295	Signal recognition particle protein; FFH, SRP54, S	97.87
2j37_W	504	Signal recognition particle 54 kDa protein (SRP54)	97.87
2v3c_C	432	SRP54, signal recognition 54 kDa protein; nucleoti	97.87
3vfd_A	389	Spastin; ATPase, microtubule severing, hydrolase;	97.83
2chg_A	226	Replication factor C small subunit; DNA-binding pr	97.83
1g5t_A	196	COB(I)alamin adenosyltransferase; P-loop protein,	97.83
3d8b_A	357	Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, s	97.82
2ffh_A	425	Protein (FFH); SRP54, signal recognition particle,	97.82
3j16_B	608	RLI1P; ribosome recycling, translation, eukarya, r	97.81
2yz2_A	266	Putative ABC transporter ATP-binding protein TM_0;	97.8
3ozx_A	538	RNAse L inhibitor; ATP binding cassette protein, h	97.8
3b5x_A	582	Lipid A export ATP-binding/permease protein MSBA;	97.79
3ice_A	422	Transcription termination factor RHO; transcriptio	97.79
3hu3_A	489	Transitional endoplasmic reticulum ATPase; VCP, tr	97.79
4dzz_A	206	Plasmid partitioning protein PARF; deviant walker	97.79
3jvv_A	356	Twitching mobility protein; hexameric P-loop ATPas	97.78
3syl_A	309	Protein CBBX; photosynthesis, rubisco activase, AA	97.77
1yqt_A	538	RNAse L inhibitor; ATP-binding cassette, ribosome	97.75
2d2e_A	250	SUFC protein; ABC-ATPase, SUF protein, 310-helix,	97.75
4fcw_A	311	Chaperone protein CLPB; AAA domain; HET: ADP; 2.35	97.74
3bk7_A	607	ABC transporter ATP-binding protein; ABC ATPase, i	97.74
2zan_A	444	Vacuolar protein sorting-associating protein 4B; S	97.74
3b60_A	582	Lipid A export ATP-binding/permease protein MSBA;	97.73
3qf4_B	598	Uncharacterized ABC transporter ATP-binding prote	97.7
1yqt_A	538	RNAse L inhibitor; ATP-binding cassette, ribosome	97.7
2xxa_A	433	Signal recognition particle protein; protein trans	97.7
3n70_A	145	Transport activator; sigma-54, ntpase, PSI, MCSG,	97.69
3oaa_A	513	ATP synthase subunit alpha; rossmann fold, hydrola	97.69
2qby_B	384	CDC6 homolog 3, cell division control protein 6 ho	97.68
2ck3_A	510	ATP synthase subunit alpha\, mitochondrial; hydrol	97.68
2x8a_A	274	Nuclear valosin-containing protein-like; nuclear p	97.67
3zq6_A	324	Putative arsenical pump-driving ATPase; tail-ancho	97.67
2qe7_A	502	ATP synthase subunit alpha; blockage of ATP hydrol	97.66
4a82_A	578	Cystic fibrosis transmembrane conductance regulat;	97.64
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	97.63
2r9v_A	515	ATP synthase subunit alpha; TM1612, structural gen	97.61
3gd7_A	390	Fusion complex of cystic fibrosis transmembrane co	97.6
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	97.57
2yl4_A	595	ATP-binding cassette SUB-family B member 10, mitoc	97.57
1zp6_A	191	Hypothetical protein ATU3015; alpha-beta protein.,	97.57
3ug7_A	349	Arsenical pump-driving ATPase; tail-anchored, memb	97.57
3end_A	307	Light-independent protochlorophyllide reductase ir	97.57
1w5s_A	412	Origin recognition complex subunit 2 ORC2; replica	97.56
3qf4_A	587	ABC transporter, ATP-binding protein; multidrug tr	97.56
3ozx_A	538	RNAse L inhibitor; ATP binding cassette protein, h	97.56
2ck3_D	482	ATP synthase subunit beta\, mitochondrial; hydrola	97.56
3j16_B	608	RLI1P; ribosome recycling, translation, eukarya, r	97.54
1sxj_E	354	Activator 1 40 kDa subunit; clamp loader, processi	97.54
3bk7_A	607	ABC transporter ATP-binding protein; ABC ATPase, i	97.53
3ux8_A	670	Excinuclease ABC, A subunit; UVRA, nucleotide exci	97.52
1fx0_B	498	ATP synthase beta chain; latent ATPase, thermal st	97.52
1sky_E	473	F1-ATPase, F1-ATP synthase; F1FO ATP synthase, alp	97.52
1d2n_A	272	N-ethylmaleimide-sensitive fusion protein; hexamer	97.51
1ixz_A	254	ATP-dependent metalloprotease FTSH; AAA domain fol	97.5
1wcv_1	257	SOJ, segregation protein; ATPase, bacterial, chrom	97.5
3cio_A	299	ETK, tyrosine-protein kinase ETK; WZC, escherichia	97.49
1fx0_A	507	ATP synthase alpha chain; latent ATPase, thermal s	97.48
3bfv_A	271	CAPA1, CAPB2, membrane protein CAPA1, protein tyro	97.48
1sxj_A	516	Activator 1 95 kDa subunit; clamp loader, processi	97.45
3uie_A	200	Adenylyl-sulfate kinase 1, chloroplastic; rossmann	97.43
1sxj_D	353	Activator 1 41 kDa subunit; clamp loader, processi	97.43
3fkq_A	373	NTRC-like two-domain protein; RER070207001320, str	97.43
3thx_A	934	DNA mismatch repair protein MSH2; ABC family ATPas	97.43
2yvu_A	186	Probable adenylyl-sulfate kinase; transferase, str	97.42
2qen_A	350	Walker-type ATPase; unknown function; HET: ADP; 2.	97.41
3b9q_A	302	Chloroplast SRP receptor homolog, alpha subunit CP	97.41
1njg_A	250	DNA polymerase III subunit gamma; rossman-like fol	97.41
3iqw_A	334	Tail-anchored protein targeting factor GET3; ATPas	97.4
2pez_A	179	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	97.4
3c8u_A	208	Fructokinase; YP_612366.1, putative fructose trans	97.4
2pt7_A	330	CAG-ALFA; ATPase, protein-protein complex, type IV	97.4
2qm8_A	337	GTPase/ATPase; G protein, G3E, metallochaperone, c	97.4
3l0o_A	427	Transcription termination factor RHO; helicase, RH	97.38
4a8j_A	361	Elongator complex protein 4; transcription; 2.10A	97.37
2woj_A	354	ATPase GET3; tail-anchored, membrane protein, targ	97.37
1ye8_A	178	Protein THEP1, hypothetical UPF0334 kinase-like pr	97.35
3thx_B	918	DNA mismatch repair protein MSH3; ABC family ATPas	97.35
3kjh_A	254	CO dehydrogenase/acetyl-COA synthase complex, acce	97.35
1rz3_A	201	Hypothetical protein rbstp0775; MCSG, structural g	97.33
1iy2_A	278	ATP-dependent metalloprotease FTSH; AAA domain fol	97.31
3io3_A	348	DEHA2D07832P; chaperone, membrane traffic, ATPase;	97.31
3co5_A	143	Putative two-component system transcriptional RES	97.31
3la6_A	286	Tyrosine-protein kinase WZC; P-loop protein, nucle	97.31
1sxj_C	340	Activator 1 40 kDa subunit; clamp loader, processi	97.31
1sq5_A	308	Pantothenate kinase; P-loop, transferase; HET: PAU	97.29
2og2_A	359	Putative signal recognition particle receptor; nuc	97.28
3g5u_A	1284	MCG1178, multidrug resistance protein 1A; P-glycop	97.28
3u61_B	324	DNA polymerase accessory protein 44; AAA+, ATP hyd	97.27
4f4c_A	1321	Multidrug resistance protein PGP-1; ABC transporte	97.26
4f4c_A	1321	Multidrug resistance protein PGP-1; ABC transporte	97.26
2p67_A	341	LAO/AO transport system kinase; ARGK, structural G	97.25
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	97.25
3p32_A	355	Probable GTPase RV1496/MT1543; structural genomics	97.25
2eyu_A	261	Twitching motility protein PILT; pilus retraction	97.24
2woo_A	329	ATPase GET3; tail-anchored, membrane protein, targ	97.23
1sxj_B	323	Activator 1 37 kDa subunit; clamp loader, processi	97.22
1kgd_A	180	CASK, peripheral plasma membrane CASK; maguk, guan	97.21
2obl_A	347	ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O	97.21
1ihu_A	589	Arsenical pump-driving ATPase; aluminum fluoride,	97.21
3pvs_A	447	Replication-associated recombination protein A; ma	97.21
2dhr_A	499	FTSH; AAA+ protein, hexameric Zn metalloprotease,	97.21
1tue_A	212	Replication protein E1; helicase, replication, E1E	97.21
1htw_A	158	HI0065; nucleotide-binding fold, structural genomi	97.19
3te6_A	318	Regulatory protein SIR3; heterochromatin, gene sil	97.16
1hyq_A	263	MIND, cell division inhibitor (MIND-1); MINC, FTSZ	97.15
2ius_A	512	DNA translocase FTSK; nucleotide-binding, chromoso	97.15
4eun_A	200	Thermoresistant glucokinase; putative sugar kinase	97.13
3vr4_D	465	V-type sodium ATPase subunit D; V-ATPase, rotary m	97.13
3q9l_A	260	Septum site-determining protein MIND; ATPase, bact	97.11
1wb9_A	800	DNA mismatch repair protein MUTS; DNA-binding, ATP	97.11
2www_A	349	Methylmalonic aciduria type A protein, mitochondri	97.1
3tr0_A	205	Guanylate kinase, GMP kinase; purines, pyrimidines	97.1
2ewv_A	372	Twitching motility protein PILT; pilus retraction	97.1
2dpy_A	438	FLII, flagellum-specific ATP synthase; beta barrel	97.09
1znw_A	207	Guanylate kinase, GMP kinase; ATP:GMP-phosphotrans	97.08
2rhm_A	193	Putative kinase; P-loop containing nucleoside trip	97.07
2o8b_B	1022	DNA mismatch repair protein MSH6; DNA damage respo	97.05
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	97.04
1mv5_A	243	LMRA, multidrug resistance ABC transporter ATP-bin	97.04
3a4m_A	260	L-seryl-tRNA(SEC) kinase; P-loop motif, walker A m	97.04
3gqb_B	464	V-type ATP synthase beta chain; A3B3, V-ATPase, AT	97.04
3ea0_A	245	ATPase, para family; alpha-beta-alpha sandwich, st	97.02
2cbz_A	237	Multidrug resistance-associated protein 1; ABC pro	97.02
3vr4_A	600	V-type sodium ATPase catalytic subunit A; V-ATPase	97.01
1m7g_A	211	Adenylylsulfate kinase; APS kinase, transferase, s	97.0
3aez_A	312	Pantothenate kinase; transferase, homodimer, COA b	97.0
2j41_A	207	Guanylate kinase; GMP, GMK, transferase, ATP-bindi	96.99
2c61_A	469	A-type ATP synthase non-catalytic subunit B; hydro	96.99
3igf_A	374	ALL4481 protein; two-domained protein consisting o	96.98
2pze_A	229	Cystic fibrosis transmembrane conductance regulat;	96.98
2v9p_A	305	Replication protein E1; AAA+ molecular motor, DNA	96.98
1knq_A	175	Gluconate kinase; ALFA/beta structure, transferase	96.97
1ewq_A	765	DNA mismatch repair protein MUTS; multiple domains	96.97
3asz_A	211	Uridine kinase; cytidine phosphorylation, transfer	96.97
1s96_A	219	Guanylate kinase, GMP kinase; E.coli, dimer, SAD,	96.95
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	96.94
1ofu_X	119	SULA, hypothetical protein PA3008; bacterial cell	96.94
3b85_A	208	Phosphate starvation-inducible protein; PHOH2, ATP	96.94
3pfi_A	338	Holliday junction ATP-dependent DNA helicase RUVB;	96.93
1z6g_A	218	Guanylate kinase; structural genomics, SGC, struct	96.93
1nks_A	194	Adenylate kinase; thermophilic, transferase; HET:	96.91
1iqp_A	327	RFCS; clamp loader, extended AAA-ATPase domain, co	96.91
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	96.9
1kht_A	192	Adenylate kinase; phosphotransferase, signaling pr	96.89
1jr3_A	373	DNA polymerase III subunit gamma; processivity, pr	96.88
3ux8_A	670	Excinuclease ABC, A subunit; UVRA, nucleotide exci	96.86
3mfy_A	588	V-type ATP synthase alpha chain; A-type ATP syntha	96.85
3vaa_A	199	Shikimate kinase, SK; structural genomics, center	96.85
1lvg_A	198	Guanylate kinase, GMP kinase; transferase; HET: AD	96.84
3tau_A	208	Guanylate kinase, GMP kinase; structural genomics,	96.84
2c9o_A	456	RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-	96.83
3gqb_A	578	V-type ATP synthase alpha chain; A3B3, V-ATPase, A	96.82
2fna_A	357	Conserved hypothetical protein; structural genomic	96.79
2a5y_B	549	CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis	96.78
2plr_A	213	DTMP kinase, probable thymidylate kinase; TMP-bind	96.77
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	96.75
1yrb_A	262	ATP(GTP)binding protein; GTPase, P-loop, rossman f	96.75
1np6_A	174	Molybdopterin-guanine dinucleotide biosynthesis pr	96.75
3g5u_A	1284	MCG1178, multidrug resistance protein 1A; P-glycop	96.74
2zu0_C	267	Probable ATP-dependent transporter SUFC; iron-sulf	96.74
1ihu_A	589	Arsenical pump-driving ATPase; aluminum fluoride,	96.73
1xjc_A	169	MOBB protein homolog; structural genomics, midwest	96.73
2jeo_A	245	Uridine-cytidine kinase 1; UCK, transferase, ATP-b	96.7
2iut_A	574	DNA translocase FTSK; nucleotide-binding, chromoso	96.69
3lnc_A	231	Guanylate kinase, GMP kinase; ALS collaborative cr	96.67
2bbs_A	290	Cystic fibrosis transmembrane conductance regulato	96.66
1hqc_A	324	RUVB; extended AAA-ATPase domain, complex with nuc	96.66
1cp2_A	269	CP2, nitrogenase iron protein; oxidoreductase; 1.9	96.66
2ghi_A	260	Transport protein; multidrug resistance protein, M	96.66
2qor_A	204	Guanylate kinase; phosphotransferase, purine metab	96.66
3uk6_A	368	RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding	96.65
2gno_A	305	DNA polymerase III, gamma subunit-related protein;	96.64
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	96.63
1nn5_A	215	Similar to deoxythymidylate kinase (thymidylate K;	96.63
4eaq_A	229	DTMP kinase, thymidylate kinase; structural genomi	96.61
2r6f_A	972	Excinuclease ABC subunit A; UVRA, nucleotide excis	96.61
2pjz_A	263	Hypothetical protein ST1066; ATP binding protein,	96.61
3fwy_A	314	Light-independent protochlorophyllide reductase I	96.6
1p9r_A	418	General secretion pathway protein E; bacterial typ	96.6
1kag_A	173	SKI, shikimate kinase I; transferase, structural g	96.6
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	96.59
1gvn_B	287	Zeta; postsegregational killing system, plasmid; 1	96.58
2npi_A	460	Protein CLP1; CLP1-PCF11 complex, ATP binding, ter	96.57
1a5t_A	334	Delta prime, HOLB; zinc finger, DNA replication; 2	96.57
2afh_E	289	Nitrogenase iron protein 1; nitrogen fixation, iro	96.56
2axn_A	520	6-phosphofructo-2-kinase/fructose-2,6- biphosphata	96.56
2bdt_A	189	BH3686; alpha-beta protein, structural genomics, P	96.56
3cm0_A	186	Adenylate kinase; ATP-binding, cytoplasm, nucleoti	96.55
1qhx_A	178	CPT, protein (chloramphenicol phosphotransferase);	96.55
4b3f_X	646	DNA-binding protein smubp-2; hydrolase, helicase;	96.55
2qt1_A	207	Nicotinamide riboside kinase 1; non-protein kinase	96.52
3a00_A	186	Guanylate kinase, GMP kinase; domain movement, dim	96.52
2wwf_A	212	Thymidilate kinase, putative; transferase, malaria	96.49
2bjv_A	265	PSP operon transcriptional activator; AAA, transcr	96.47
2vf7_A	842	UVRA2, excinuclease ABC, subunit A.; DNA-binding p	96.43
1svm_A	377	Large T antigen; AAA+ fold, viral protein; HET: AT	96.42
2pbr_A	195	DTMP kinase, thymidylate kinase; transferase, nucl	96.37
3kb2_A	173	SPBC2 prophage-derived uncharacterized protein YOR	96.37
2p5t_B	253	PEZT; postsegregational killing system, phosphoryl	96.37
1a7j_A	290	Phosphoribulokinase; transferase, calvin cycle; 2.	96.36
1y63_A	184	LMAJ004144AAA protein; structural genomics, protei	96.36
2z0h_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	96.35
3tqc_A	321	Pantothenate kinase; biosynthesis of cofactors, pr	96.34
1ofh_A	310	ATP-dependent HSL protease ATP-binding subunit HSL	96.34
2r2a_A	199	Uncharacterized protein; zonular occludens toxin,	96.33
2c95_A	196	Adenylate kinase 1; transferase, AP4A, nucleotide	96.31
1ly1_A	181	Polynucleotide kinase; PNK, phosphatase, transfera	96.3
3ney_A	197	55 kDa erythrocyte membrane protein; structural ge	96.3
2bbw_A	246	Adenylate kinase 4, AK4; nucleotide kinase, nucleo	96.26
3umf_A	217	Adenylate kinase; rossmann fold, transferase; 2.05	96.25
3trf_A	185	Shikimate kinase, SK; amino acid biosynthesis, tra	96.25
3iij_A	180	Coilin-interacting nuclear ATPase protein; alpha a	96.25
2vp4_A	230	Deoxynucleoside kinase; ATP-binding, DNA synthesis	96.24
4ag6_A	392	VIRB4 ATPase, type IV secretory pathway VIRB4 comp	96.24
1tev_A	196	UMP-CMP kinase; ploop, NMP binding region, LID reg	96.22
1g3q_A	237	MIND ATPase, cell division inhibitor; alpha-beta-a	96.2
2oze_A	298	ORF delta'; para, walker type atpases, DNA segrega	96.2
3lw7_A	179	Adenylate kinase related protein (ADKA-like); AMP,	96.2
2gza_A	361	Type IV secretion system protein VIRB11; ATPase, h	96.19
3t61_A	202	Gluconokinase; PSI-biology, structural genomics, p	96.17
2ph1_A	262	Nucleotide-binding protein; alpha-beta protein, st	96.16
2i3b_A	189	HCR-ntpase, human cancer-related ntpase; AAA, ross	96.15
3pxg_A	468	Negative regulator of genetic competence CLPC/MEC;	96.15
3cr8_A	552	Sulfate adenylyltranferase, adenylylsulfate kinase	96.15
2ze6_A	253	Isopentenyl transferase; crown GALL tumor, cytokin	96.08
1gtv_A	214	TMK, thymidylate kinase; transferase, transferase	96.08
3cwq_A	209	Para family chromosome partitioning protein; alpha	96.08
2vli_A	183	Antibiotic resistance protein; transferase, tunica	96.07
2r62_A	268	Cell division protease FTSH homolog; ATPase domain	96.06
1aky_A	220	Adenylate kinase; ATP:AMP phosphotransferase, myok	96.06
3qxc_A	242	Dethiobiotin synthetase; DTBS, structural genomics	96.06
1zd8_A	227	GTP:AMP phosphotransferase mitochondrial; ATP:AMP	96.06
2v54_A	204	DTMP kinase, thymidylate kinase; nucleotide biosyn	96.06
4e22_A	252	Cytidylate kinase; P-loop, CMP/ATP binding, transf	96.04
1odf_A	290	YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser	96.04
1in4_A	334	RUVB, holliday junction DNA helicase RUVB; AAA+-cl	96.04
1uj2_A	252	Uridine-cytidine kinase 2; alpha/beta mononucleoti	96.03
2cdn_A	201	Adenylate kinase; phosphoryl transfer, associative	96.02
2bwj_A	199	Adenylate kinase 5; phosphoryl transfer reaction,	96.01
1u0j_A	267	DNA replication protein; AAA+ protein, P-loop atpa	96.0
3kta_A	182	Chromosome segregation protein SMC; structural mai	95.99
1cke_A	227	CK, MSSA, protein (cytidine monophosphate kinase);	95.99
4edh_A	213	DTMP kinase, thymidylate kinase; structural genomi	95.96
3upu_A	459	ATP-dependent DNA helicase DDA; RECA-like domain,	95.91
1um8_A	376	ATP-dependent CLP protease ATP-binding subunit CL;	95.87
3be4_A	217	Adenylate kinase; malaria, cryptosporidium parvum	95.84
1ojl_A	304	Transcriptional regulatory protein ZRAR; response	95.83
1zak_A	222	Adenylate kinase; ATP:AMP-phosphotransferase, tran	95.82
1via_A	175	Shikimate kinase; structural genomics, transferase	95.81
2iyv_A	184	Shikimate kinase, SK; transferase, aromatic amino	95.81
3sr0_A	206	Adenylate kinase; phosphoryl transfer analogue, AL	95.78
3k9g_A	267	PF-32 protein; ssgcid, SBRI, decode biostructures,	95.77
3e1s_A	574	Exodeoxyribonuclease V, subunit RECD; alpha and be	95.76
3v9p_A	227	DTMP kinase, thymidylate kinase; ssgcid, STRU geno	95.74
3hws_A	363	ATP-dependent CLP protease ATP-binding subunit CL;	95.74
1qf9_A	194	UMP/CMP kinase, protein (uridylmonophosphate/cytid	95.72
3tlx_A	243	Adenylate kinase 2; structural genomics, structura	95.71
3zvl_A	416	Bifunctional polynucleotide phosphatase/kinase; hy	95.7
2jaq_A	205	Deoxyguanosine kinase; transferase, deoxyribonucle	95.66
2f1r_A	171	Molybdopterin-guanine dinucleotide biosynthesis pr	95.64
3fb4_A	216	Adenylate kinase; psychrophIle, phosphotransferase	95.63
1ukz_A	203	Uridylate kinase; transferase; HET: ADP AMP; 1.90A	95.63
3lv8_A	236	DTMP kinase, thymidylate kinase; structural genomi	95.61
1bif_A	469	6-phosphofructo-2-kinase/ fructose-2,6-bisphospha;	95.6
3foz_A	316	TRNA delta(2)-isopentenylpyrophosphate transferas;	95.58
3szr_A	608	Interferon-induced GTP-binding protein MX1; interf	95.57
2qmh_A	205	HPR kinase/phosphorylase; V267F mutation, ATP-bind	95.57
3m6a_A	543	ATP-dependent protease LA 1; alpha, beta, ATP-bind	95.55
2xj4_A	286	MIPZ; replication, cell division, ATPase, WACA; 1.	95.54
1jjv_A	206	Dephospho-COA kinase; P-loop nucleotide-binding fo	95.54
2if2_A	204	Dephospho-COA kinase; alpha-beta protein, structur	95.51
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	95.5
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	95.5
2qag_B	427	Septin-6, protein NEDD5; cell cycle, cell division	95.5
1e6c_A	173	Shikimate kinase; phosphoryl transfer, ADP, shikim	95.49
1zuh_A	168	Shikimate kinase; alpha-beta protein, transferase;	95.48
3a8t_A	339	Adenylate isopentenyltransferase; rossmann fold pr	95.48
1byi_A	224	Dethiobiotin synthase; biotin synthesis, cyclo-lig	95.47
2rcn_A	358	Probable GTPase ENGC; YJEQ, circularly permuted, G	95.44
2oap_1	511	GSPE-2, type II secretion system protein; hexameri	95.44
3nwj_A	250	ATSK2; P loop, shikimate, nucleoside monophosphate	95.43
3ld9_A	223	DTMP kinase, thymidylate kinase; ssgcid, NIH, niai	95.42
3dl0_A	216	Adenylate kinase; phosphotransferase, zinc coordin	95.42
2wsm_A	221	Hydrogenase expression/formation protein (HYPB); m	95.42
4tmk_A	213	Protein (thymidylate kinase); ATP:DTMP phosphotran	95.41
3sfz_A	1249	APAF-1, apoptotic peptidase activating factor 1; a	95.41
1ak2_A	233	Adenylate kinase isoenzyme-2; nucleoside monophosp	95.37
3d3q_A	340	TRNA delta(2)-isopentenylpyrophosphate transferase	95.36
3pg5_A	361	Uncharacterized protein; structural genomics, PSI-	95.35
3sop_A	270	Neuronal-specific septin-3; hydrolase; HET: GDP; 2	95.35
2dy1_A	665	Elongation factor G; translocation, GTP complex, s	95.33
3eph_A	409	TRNA isopentenyltransferase; transferase, alternat	95.29
2yv5_A	302	YJEQ protein; hydrolase, GTPase, permutation, stru	95.29
3crm_A	323	TRNA delta(2)-isopentenylpyrophosphate transferase	95.26
2pt5_A	168	Shikimate kinase, SK; aromatic amino acid biosynth	95.25
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	95.24
1ex7_A	186	Guanylate kinase; substrate-induced FIT, domain mo	95.24
2v6i_A	431	RNA helicase; membrane, hydrolase, transmembrane,	95.22
3euj_A	483	Chromosome partition protein MUKB, linker; MUKB, M	95.18
1uf9_A	203	TT1252 protein; P-loop, nucleotide binding domain,	95.18
3r20_A	233	Cytidylate kinase; structural genomics, seattle st	95.16
1nij_A	318	Hypothetical protein YJIA; structural genomics, P-	95.16
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	95.15
1q3t_A	236	Cytidylate kinase; nucleotide monophosphate kinase	95.15
3q72_A	166	GTP-binding protein RAD; G-domain, CAV2 beta, sign	95.15
1vht_A	218	Dephospho-COA kinase; structural genomics, transfe	95.13
1e9r_A	437	Conjugal transfer protein TRWB; coupling protein,	95.13
2xb4_A	223	Adenylate kinase; ATP-binding, nucleotide-binding,	95.07
2gk6_A	624	Regulator of nonsense transcripts 1; UPF1, helicas	95.05
2r44_A	331	Uncharacterized protein; putative ATPase, structur	95.05
2chq_A	319	Replication factor C small subunit; DNA-binding pr	95.04
1z06_A	189	RAS-related protein RAB-33B; RAB GTPase, RAB33B GT	95.03
1e4v_A	214	Adenylate kinase; transferase(phosphotransferase);	94.98
1pui_A	210	ENGB, probable GTP-binding protein ENGB; structura	94.97
1lw7_A	365	Transcriptional regulator NADR; NMN, NMN adenylyl	94.93
1m8p_A	573	Sulfate adenylyltransferase; rossmann fold, phosph	94.91
3k1j_A	604	LON protease, ATP-dependent protease LON; ATP-bind	94.88
1x6v_B	630	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	94.86
2gks_A	546	Bifunctional SAT/APS kinase; transferase, sulfuryl	94.82
3tqf_A	181	HPR(Ser) kinase; transferase, hydrolase; 2.80A {Co	94.81
1u0l_A	301	Probable GTPase ENGC; permutation, OB-fold, zinc-f	94.75
3ake_A	208	Cytidylate kinase; CMP kinase, CMP complex, open c	94.72
4dcu_A	456	GTP-binding protein ENGA; GTPase, GDP, protein bin	94.71
2hf9_A	226	Probable hydrogenase nickel incorporation protein	94.67
1ltq_A	301	Polynucleotide kinase; phosphatase, alpha/beta, P-	94.65
1t9h_A	307	YLOQ, probable GTPase ENGC; N-terminal beta-barrel	94.53
3qf7_A	365	RAD50; ABC-ATPase, ATPase, hydrolase; HET: ANP; 1.	94.53
1g8p_A	350	Magnesium-chelatase 38 kDa subunit; parallel beta	94.52
3exa_A	322	TRNA delta(2)-isopentenylpyrophosphate transferase	94.49
2grj_A	192	Dephospho-COA kinase; TM1387, EC 2.7.1.24, dephosp	94.47
1tq4_A	413	IIGP1, interferon-inducible GTPase; interferon gam	94.46
2iw3_A	986	Elongation factor 3A; acetylation, ATP-binding, pr	94.45
3ez2_A	398	Plasmid partition protein A; type IA, DNA binding,	94.44
2iw3_A	986	Elongation factor 3A; acetylation, ATP-binding, pr	94.43
1f2t_A	149	RAD50 ABC-ATPase; DNA double-strand break repair,	94.42
2f6r_A	281	COA synthase, bifunctional coenzyme A synthase; 18	94.37
3ez9_A	403	Para; DNA binding, winged-HTH, partition, biosynth	94.35
2ga8_A	359	Hypothetical 39.9 kDa protein; YFR007W, YFH7, unkn	94.31
2xzl_A	802	ATP-dependent helicase NAM7; hydrolase-RNA complex	94.28
2wjy_A	800	Regulator of nonsense transcripts 1; nonsense medi	94.24
2gj8_A	172	MNME, tRNA modification GTPase TRME; G-domain dime	94.2
2ocp_A	241	DGK, deoxyguanosine kinase; protein-nucleotide com	94.11
2xau_A	773	PRE-mRNA-splicing factor ATP-dependent RNA helica;	94.1
3llm_A	235	ATP-dependent RNA helicase A; alpha-beta-alpha, st	94.09
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	94.09
3tmk_A	216	Thymidylate kinase; phosphotransferase; HET: T5A;	94.09
1e69_A	322	Chromosome segregation SMC protein; structural mai	94.08
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	93.93
2c78_A	405	Elongation factor TU-A; hydrolase, GTPase, transla	93.93
3hjn_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	93.93
4hlc_A	205	DTMP kinase, thymidylate kinase; TMK, MRSA, pipiri	93.92
3fgn_A	251	Dethiobiotin synthetase; biotin biosynthesis, BIOD	93.88
2o5v_A	359	DNA replication and repair protein RECF; ABC ATPas	93.87
1w1w_A	430	Structural maintenance of chromosome 1; cohesin, c	93.81
3nbx_X	500	ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structu	93.73
4aby_A	415	DNA repair protein RECN; hydrolase, double strand	93.72
1g41_A	444	Heat shock protein HSLU; AAA-ATPase, CLPY, ATP-dep	93.71
2wji_A	165	Ferrous iron transport protein B homolog; membrane	93.7
3dkp_A	245	Probable ATP-dependent RNA helicase DDX52; DEAD, A	93.66
1w36_D	608	RECD, exodeoxyribonuclease V alpha chain; recombin	93.54
1g8f_A	511	Sulfate adenylyltransferase; alpha-beta protein, b	93.43
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	93.41
2hjg_A	436	GTP-binding protein ENGA; GTPase ENGA KH-domain, h	93.3
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	93.21
3qks_A	203	DNA double-strand break repair RAD50 ATPase; RECA-	93.17
3lfu_A	647	DNA helicase II; SF1 helicase, ATP-binding, DNA da	93.17
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	93.12
2h92_A	219	Cytidylate kinase; rossmann fold, transferase; HET	93.11
2dyk_A	161	GTP-binding protein; GTPase, ribosome-binding prot	93.1
2wjg_A	188	FEOB, ferrous iron transport protein B homolog; me	93.04
1p5z_B	263	DCK, deoxycytidine kinase; nucleoside kinase, P-lo	92.92
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	92.92
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	92.86
3q85_A	169	GTP-binding protein REM 2; G-domain, CAV2 beta, si	92.81
1g16_A	170	RAS-related protein SEC4; G protein RAB, signaling	92.81
2whx_A	618	Serine protease/ntpase/helicase NS3; transcription	92.78
1r8s_A	164	ADP-ribosylation factor 1; protein transport/excha	92.74
3of5_A	228	Dethiobiotin synthetase; structural genomics, cent	92.73
1ek0_A	170	Protein (GTP-binding protein YPT51); vesicular tra	92.72
2erx_A	172	GTP-binding protein DI-RAS2; GTP hydrolysis, trans	92.72
2ged_A	193	SR-beta, signal recognition particle receptor beta	92.66
1wms_A	177	RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, p	92.58
1z08_A	170	RAS-related protein RAB-21; RAB GTPase, vesicular	92.57
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	92.53
1ky3_A	182	GTP-binding protein YPT7P; vesicular traffic, GTP	92.52
1z0j_A	170	RAB-22, RAS-related protein RAB-22A; RAB GTPase, R	92.52
2va8_A	715	SSO2462, SKI2-type helicase; hydrolase, DNA repair	92.48
1ni3_A	392	YCHF GTPase, YCHF GTP-binding protein; structural	92.46
2ygr_A	993	Uvrabc system protein A; hydrolase, nucleotide exc	92.42
3pih_A	916	Uvrabc system protein A; hydrolase, ABC ATPase, DN	92.41
1r2q_A	170	RAS-related protein RAB-5A; GTPase, GNP, atomic re	92.39

>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=9.8e-40  Score=305.83  Aligned_cols=241  Identities=48%  Similarity=0.723  Sum_probs=218.9

Q ss_pred             hHHHHHHHHHHHHHHHHhhCcccccccccccCCCCCCccccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHH
Q 021239           63 IMQKDNALRLALSQLANDFGKESMLSLKRFFGSRRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIK  142 (315)
Q Consensus        63 ~~~~~~~l~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~i~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~  142 (315)
                      ..++.++|+.++.|+.+.|+++..+++.+.....+..++|||+++||.+||+||+++|++++|+||||+||||||++++.
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            35678899999999999999998888776532223789999999999999889999999999999999999999999999


Q ss_pred             HHHhcCCeEEEEecCCCCChHHHHHcCCCCCCeEEeCCCCHHHHHHHHHHHHHcCCccEEeehhHhhhccccccCCCccC
Q 021239          143 EAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPING  222 (315)
Q Consensus       143 ~~~~~g~~v~~i~~E~~~~~~~~~~~g~~~~~l~i~~~~~~e~~~~~i~~l~~~~~~~lVVIDsl~~l~~~~~~~~~~~~  222 (315)
                      .++..+++|+|+++|+++.+.+++++|++++++.+.++.+.+++++.++.+++..++++|||||++.+++..++++.+++
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            99999999999999999999999999999999999999999999999999888889999999999999976778877777


Q ss_pred             CChHHHHHHHHHHHHHHHHHHhccCcEEEEEeccccccCCCCCCCCCccccccccccccccceEEEEEecccccccCeee
Q 021239          223 MYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVRFSAKSGQGLGRMDEVTSGGNALKFYAALRLRMMRTRLFKIADKVN  302 (315)
Q Consensus       223 ~~~~~q~r~i~~~l~~L~~~~~~~~i~VI~inq~~~~~~~~~~~~~~~~~~~gG~~~~~~~~~rl~l~k~~~~k~~~~~~  302 (315)
                      .+...+++.+++.++.|..++++++++||++||+++++  +.+|+ ++..++||++|.|++++||.++|.+++|+++++.
T Consensus       164 ~q~~~qar~la~~L~~L~~lak~~~~tVI~inqv~~k~--g~~fg-~p~~~~GG~~l~h~~~~rl~l~k~~~~k~g~~~~  240 (356)
T 3hr8_A          164 MQVGLQARLMSQALRKIAGSVNKSKAVVIFTNQIRMKI--GVMFG-SPETTTGGLALKFYATMRMEVRRGEPIKEGKDVI  240 (356)
T ss_dssp             SCSSHHHHHHHHHHHHHHHHHHTSSCEEEEEEESSSCS--SSSSC-SCSSCTHHHHHHHHCSEEEEEEEEEEEEETTEEE
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHhcCCEEEEEeeeeecc--ccccC-CcccCCCcchhhhhCcEEEEEEeccccccCCccc
Confidence            77778889999999999999999999999999999888  56787 8889999999999999999999998889998888


Q ss_pred             ccce
Q 021239          303 ILEV  306 (315)
Q Consensus       303 g~~~  306 (315)
                      |+.+
T Consensus       241 g~~~  244 (356)
T 3hr8_A          241 GNVI  244 (356)
T ss_dssp             EEEE
T ss_pred             ccEE
Confidence            8653

>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=100.00  E-value=2.4e-40  Score=302.32  Aligned_cols=204  Identities=21%  Similarity=0.335  Sum_probs=153.9

Q ss_pred             CCCccccCcHHHHHhhc---CCCCCCCcEEEEEecCCCChhHHHHHHHHHHHhc--CCeEEEEecCCCCChHHHHHcCCC
Q 021239           97 RGPVISTGSLKLDLALG---IGGLPKGRIVEIYGREASGKTTLALHVIKEAQKL--GGYCAYLDVENALDPSLAEAMGID  171 (315)
Q Consensus        97 ~~~~i~TG~~~LD~~l~---~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~~--g~~v~~i~~E~~~~~~~~~~~g~~  171 (315)
                      ..+++|||+++||.+||   +||+++| +++|+||||+||||||++++.++++.  |++|+||++|+++.+.+++++|++
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            45789999999999998   4899999 99999999999999999999999986  899999999999999999999999


Q ss_pred             CCCeEEeCCCCHHHH-HHHHHHH--HHcCCccEEeehhHhhhccccccCCCccCCChH--HHHHHHHHHHHHHHHHHhcc
Q 021239          172 AENLLIAQPDSAENL-LSVVDTL--TKSGSIDVIVVDSVAALIPKCEIGVPINGMYSD--AQSRIMTQALRKIHYSLCQS  246 (315)
Q Consensus       172 ~~~l~i~~~~~~e~~-~~~i~~l--~~~~~~~lVVIDsl~~l~~~~~~~~~~~~~~~~--~q~r~i~~~l~~L~~~~~~~  246 (315)
                      .+++++.++.+.+++ ++.++.+  +++..+++|||||+++++++.++++++++.+.+  .|+|.+++.|++|.++++++
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 8877776  677889999999999999777888777655444  68889999999999999999


Q ss_pred             CcEEEEEeccccccCCCCCCCCCccccccccccccccceEEEEEecccccccCeeecccee
Q 021239          247 HTLIIFLNQVRFSAKSGQGLGRMDEVTSGGNALKFYAALRLRMMRTRLFKIADKVNILEVV  307 (315)
Q Consensus       247 ~i~VI~inq~~~~~~~~~~~~~~~~~~~gG~~~~~~~~~rl~l~k~~~~k~~~~~~g~~~~  307 (315)
                      |++||+|||++. +  +.+|| +++ ++||+++ |++++||.++|.+++|++++++|++++
T Consensus       162 ~i~vi~tNQV~k-~--G~~fg-~p~-~~GG~~l-~~ss~Rl~lrk~~~ik~~~~~~G~~~~  216 (333)
T 3io5_A          162 NIPCIAINHTYE-T--QEMFS-KTV-MGGGTGP-MYSADTVFIIGKRQIKDGSDLQGYQFV  216 (333)
T ss_dssp             TCEEEEEEEC--------------------CCG-GGGSSEEEEEEEC----------CEEE
T ss_pred             CCEEEEECCeee-c--CcccC-CCC-CCCccee-eeeeEEEEEEeccccccCCccEEeEEE
Confidence            999999999987 6  56897 555 4999999 999999999999999999999999964

>3cmu_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 4.20A {Escherichia coli}

Probab=100.00  E-value=1.6e-38  Score=344.96  Aligned_cols=240  Identities=51%  Similarity=0.733  Sum_probs=217.2

Q ss_pred             HHHHHHHHHHHHHHHHhhCcccccccccccCCCCCCccccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHH
Q 021239           64 MQKDNALRLALSQLANDFGKESMLSLKRFFGSRRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKE  143 (315)
Q Consensus        64 ~~~~~~l~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~i~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~  143 (315)
                      .++.++++.++.|+++.||++..|++.+. ...+.+.||||+..||.+||+||+|+|.+++|+||.++|||||+++.+++
T Consensus      1720 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~g~~~~d~~l~~gg~p~g~~~e~~~~~~~g~~~~~~~~~~~ 1798 (2050)
T 3cmu_A         1720 ENKQKALAAALGQIEKQFGKGSIMRLGED-RSMDVETISTGSLSLDIALGAGGLPMGRIVEIYGPESSGKTTLTLQVIAA 1798 (2050)
T ss_dssp             TTHHHHHHHHHHHHHHHHCTTSEEEGGGC-TTTCCCEECCSCHHHHHHHSSSSEETTSEEEEECCTTSSHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHHhcCCcceEECCCC-cccCCCcccCCcHHHHHhhCCCCCcCCcEEEEECCCCcCHHHHHHHHHHH
Confidence            36888999999999999999999999873 24578999999999999999999999999999999999999999999999


Q ss_pred             HHhcCCeEEEEecCCCCChHHHHHcCCCCCCeEEeCCCCHHHHHHHHHHHHHcCCccEEeehhHhhhccccccCCCccCC
Q 021239          144 AQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGM  223 (315)
Q Consensus       144 ~~~~g~~v~~i~~E~~~~~~~~~~~g~~~~~l~i~~~~~~e~~~~~i~~l~~~~~~~lVVIDsl~~l~~~~~~~~~~~~~  223 (315)
                      +++.|+.|+|||.|+..++.+++.+|++.+++++.+|++.|+.++++..+++.+.+++|||||++++.|+.+++++.|+.
T Consensus      1799 ~~~~~~~~~~~d~~~~~~~~~~~~~g~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~d~~~a~~p~~~~~~~~~~~ 1878 (2050)
T 3cmu_A         1799 AQREGKTCAFIDAEHALDPIYARKLGVDIDNLLCSQPDTGEQALEICDALARSGAVDVIVVDSVAALTPKAEIEGEIGDS 1878 (2050)
T ss_dssp             HHTTTCCEEEECTTSCCCHHHHHHTTCCTTTCEEECCSSHHHHHHHHHHHHHHTCCSEEEESCGGGCCCHHHHC------
T ss_pred             HhhcCCEEEEEcCccccCHHHHHHcCCCHHHeEEecCCcHHHHHHHHHHHHhcCCCcEEEEcchhhcCcHHHhcCccccc
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ChHHHHHHHHHHHHHHHHHHhccCcEEEEEeccccccCCCCCCCCCccccccccccccccceEEEEEecccccccCeeec
Q 021239          224 YSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVRFSAKSGQGLGRMDEVTSGGNALKFYAALRLRMMRTRLFKIADKVNI  303 (315)
Q Consensus       224 ~~~~q~r~i~~~l~~L~~~~~~~~i~VI~inq~~~~~~~~~~~~~~~~~~~gG~~~~~~~~~rl~l~k~~~~k~~~~~~g  303 (315)
                      +.+.|+|.|++.||+|.....+.++++|++||++.++  |.+|| +|+.+.||+++.||+++|+.++|.+.+|++++++|
T Consensus      1879 ~~~~~~r~~~~~~r~~~~~~~~~~~~~~~~~q~r~~~--~~~~~-~~~~~~gg~~~~~~~~~r~~~~~~~~~~~~~~~~~ 1955 (2050)
T 3cmu_A         1879 HMGLAARMMSQAMRKLAGNLKQSNTLLIFINQIRMKI--GVMFG-NPETTTGGNALKFYASVRLDIRRIGAVKEGENVVG 1955 (2050)
T ss_dssp             -CCHHHHHHHHHHHHHHHHHHTTTCEEEEEECCC-----------CCCCCSSHHHHHHHEEEEEEEEEEEEEEETTEEEE
T ss_pred             chhHHHHHHHHHHHHHHhhhccCceEEEEhhHhHHHh--ccccC-CCCCcCCcchhheeeeeeeeeeeecccccCCeeee
Confidence            9999999999999999999999999999999999999  78999 89999999999999999999999999999999999


Q ss_pred             ccee
Q 021239          304 LEVV  307 (315)
Q Consensus       304 ~~~~  307 (315)
                      |+++
T Consensus      1956 ~~~~ 1959 (2050)
T 3cmu_A         1956 SETR 1959 (2050)
T ss_dssp             EEEE
T ss_pred             eEEE
Confidence            9985

>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=100.00  E-value=4e-38  Score=339.00  Aligned_cols=240  Identities=51%  Similarity=0.730  Sum_probs=214.8

Q ss_pred             HHHHHHHHHHHHHHHHhhCcccccccccccCCCCCCccccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHH
Q 021239           64 MQKDNALRLALSQLANDFGKESMLSLKRFFGSRRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKE  143 (315)
Q Consensus        64 ~~~~~~l~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~i~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~  143 (315)
                      +++.+.+..++.|+++.||++..+++..-. ....+.||||+..||.+||+||+|+|.+++|+||+|+|||||+++++++
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            467888899999999999999988776522 3568999999999999999889999999999999999999999999999


Q ss_pred             HHhcCCeEEEEecCCCCChHHHHHcCCCCCCeEEeCCCCHHHHHHHHHHHHHcCCccEEeehhHhhhccccccCCCccCC
Q 021239          144 AQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGM  223 (315)
Q Consensus       144 ~~~~g~~v~~i~~E~~~~~~~~~~~g~~~~~l~i~~~~~~e~~~~~i~~l~~~~~~~lVVIDsl~~l~~~~~~~~~~~~~  223 (315)
                      ++++|+.|+||+.|++.++.+++.+|+|++++++.+|++.|+.+++++.+++++.+++|||||++++.++.+.+++.|+.
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             ChHHHHHHHHHHHHHHHHHHhccCcEEEEEeccccccCCCCCCCCCccccccccccccccceEEEEEecccccccCeeec
Q 021239          224 YSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVRFSAKSGQGLGRMDEVTSGGNALKFYAALRLRMMRTRLFKIADKVNI  303 (315)
Q Consensus       224 ~~~~q~r~i~~~l~~L~~~~~~~~i~VI~inq~~~~~~~~~~~~~~~~~~~gG~~~~~~~~~rl~l~k~~~~k~~~~~~g  303 (315)
                      +.+.|+|.|++.|++|...+++.++++|+|||++.++  |.+|| +|+.++||+++.||+++|+.++|.+.+|++++++|
T Consensus      1535 ~~~~~ar~m~~~lr~l~~~~~~~~~~~i~~~~~~~~~--~~~~~-~~~~~~~g~al~~~~~~r~~~~~~~~~~~~~~~~~ 1611 (1706)
T 3cmw_A         1535 HMGLAARMMSQAMRKLAGNLKQSNTLLIFINQIRMKI--GVMFG-NPETTTGGNALKFYASVRLDIRRIGAVKEGENVVG 1611 (1706)
T ss_dssp             -CCHHHHHHHHHHHHHHHHHHHHTCEEEEEECBC-----------CCCCBSSCSHHHHHEEEEEEEEEEEEEEETTEEEE
T ss_pred             chhHHHHHHHHHHHHHHHHHHhCCcEEEEeecccccc--ceecC-CCccccCcceeeeeeeeeeeeeeccccccCCeeEe
Confidence            9999999999999999999999999999999999999  78999 89999999999999999999999999999999999


Q ss_pred             ccee
Q 021239          304 LEVV  307 (315)
Q Consensus       304 ~~~~  307 (315)
                      |+++
T Consensus      1612 ~~~~ 1615 (1706)
T 3cmw_A         1612 SETR 1615 (1706)
T ss_dssp             EEEE
T ss_pred             eEEE
Confidence            9985

>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=100.00  E-value=4.1e-37  Score=288.83  Aligned_cols=238  Identities=51%  Similarity=0.739  Sum_probs=193.3

Q ss_pred             HHHHHHHHHHHHHHHHhhCcccccccccccCCCCCCccccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHH
Q 021239           64 MQKDNALRLALSQLANDFGKESMLSLKRFFGSRRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKE  143 (315)
Q Consensus        64 ~~~~~~l~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~i~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~  143 (315)
                      .++.++++.+++||++.|+++..+++.+.. ......+|||++.||.+|++||+++|++++|+|+||+||||||++++.+
T Consensus         8 ~~~~~~l~~~~~~i~~~~~~~~~~~l~~~~-~~~~~~i~TG~~~LD~~Lg~GGl~~G~ii~I~G~pGsGKTtLal~la~~   86 (356)
T 1u94_A            8 ENKQKALAAALGQIEKQFGKGSIMRLGEDR-SMDVETISTGSLSLDIALGAGGLPMGRIVEIYGPESSGKTTLTLQVIAA   86 (356)
T ss_dssp             --CHHHHHHHHHHHHHHHCTTSSCCTTCCC-BCCCCEECCSCHHHHHHTSSSSEETTSEEEEECSTTSSHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHhhCCCCceEccccc-cccCCcccCCCHHHHHHhccCCccCCeEEEEECCCCCCHHHHHHHHHHH
Confidence            356789999999999999999887776642 3568899999999999997689999999999999999999999999999


Q ss_pred             HHhcCCeEEEEecCCCCChHHHHHcCCCCCCeEEeCCCCHHHHHHHHHHHHHcCCccEEeehhHhhhccccccCCCccCC
Q 021239          144 AQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGM  223 (315)
Q Consensus       144 ~~~~g~~v~~i~~E~~~~~~~~~~~g~~~~~l~i~~~~~~e~~~~~i~~l~~~~~~~lVVIDsl~~l~~~~~~~~~~~~~  223 (315)
                      ++..|++|+||++|+++++.+++++|++.+++.+.++.+.+++.+.++.+++..++++|||||++.+.+..+++++.++.
T Consensus        87 ~~~~g~~vlyid~E~s~~~~~a~~~g~~~~~l~i~~~~~~e~~~~~~~~l~~~~~~~lVVIDsl~~l~~~~e~~~~~g~~  166 (356)
T 1u94_A           87 AQREGKTCAFIDAEHALDPIYARKLGVDIDNLLCSQPDTGEQALEICDALARSGAVDVIVVDSVAALTPKAEIEGEIGDS  166 (356)
T ss_dssp             HHHTTCCEEEEESSCCCCHHHHHHTTCCGGGCEEECCSSHHHHHHHHHHHHHHTCCSEEEEECGGGCCCHHHHTTC----
T ss_pred             HHHCCCeEEEEeCCCCccHHHHHHcCCChhheeeeCCCCHHHHHHHHHHHHhccCCCEEEEcCHHHhcchhhhccccccc
Confidence            99999999999999999999999999999999999999999999999888888899999999999998544554433333


Q ss_pred             ChHHHHHHHHHHHHHHHHHHhccCcEEEEEeccccccCCCCCCCCCccccccccccccccceEEEEEecccccccCeeec
Q 021239          224 YSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVRFSAKSGQGLGRMDEVTSGGNALKFYAALRLRMMRTRLFKIADKVNI  303 (315)
Q Consensus       224 ~~~~q~r~i~~~l~~L~~~~~~~~i~VI~inq~~~~~~~~~~~~~~~~~~~gG~~~~~~~~~rl~l~k~~~~k~~~~~~g  303 (315)
                      ....+.+.+.+.+++|..++++++++||++||++..+  +.+|+ ++..|.||++|.|++++|+.++|.+..|+++.+.|
T Consensus       167 ~~~~q~r~~~~~l~~L~~~a~~~~~~VI~~nq~~~~~--~~~fg-~~~~~~gG~~l~~~advrl~l~r~~~~k~g~~~~g  243 (356)
T 1u94_A          167 HMGLAARMMSQAMRKLAGNLKQSNTLLIFINQIRMKI--GVMFG-NPETTTGGNALKFYASVRLDIRRIGAVKEGENVVG  243 (356)
T ss_dssp             --CHHHHHHHHHHHHHHHHHHHHTCEEEEEEC-----------------CTTCSHHHHHCSEEEEEEEEEEEESSSSEEE
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHhCCEEEEEecccccc--CcccC-CCcccCCCcceeeeccEEEEEEEeeeeccCccccC
Confidence            3335667789999999999999999999999999887  45676 67889999999999999999999987777766656


Q ss_pred             cc
Q 021239          304 LE  305 (315)
Q Consensus       304 ~~  305 (315)
                      ++
T Consensus       244 ~~  245 (356)
T 1u94_A          244 SE  245 (356)
T ss_dssp             EE
T ss_pred             cE
Confidence            54

>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=100.00  E-value=6.9e-37  Score=286.88  Aligned_cols=239  Identities=45%  Similarity=0.727  Sum_probs=199.3

Q ss_pred             HHHHHHHHHHHHHHHHhhCcccccccccccCCCCCCccccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHH
Q 021239           64 MQKDNALRLALSQLANDFGKESMLSLKRFFGSRRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKE  143 (315)
Q Consensus        64 ~~~~~~l~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~i~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~  143 (315)
                      .++.++++.+++++++.|+++..+++.+.. ......++||+++||.+|++||+++|++++|+|+||+||||||++++.+
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            367789999999999999999887776642 3567899999999999997789999999999999999999999999999


Q ss_pred             HHhcCCeEEEEecCCCCChHHHHHcCCCCCCeEEeCCCCHHHHHHHHHHHHHcCCccEEeehhHhhhccccccCCCccCC
Q 021239          144 AQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGM  223 (315)
Q Consensus       144 ~~~~g~~v~~i~~E~~~~~~~~~~~g~~~~~l~i~~~~~~e~~~~~i~~l~~~~~~~lVVIDsl~~l~~~~~~~~~~~~~  223 (315)
                      ++..|++|+|+++|+++.+.+++++|++.+++.+.++.+.+++++.++.++...++++|||||++.+.+..+++++.++.
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            99999999999999999999999999999999999999999999999888888889999999999998555555544443


Q ss_pred             ChHHHHHHHHHHHHHHHHHHhccCcEEEEEeccccccCCCCCCCCCccccccccccccccceEEEEEecccccccCeeec
Q 021239          224 YSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVRFSAKSGQGLGRMDEVTSGGNALKFYAALRLRMMRTRLFKIADKVNI  303 (315)
Q Consensus       224 ~~~~q~r~i~~~l~~L~~~~~~~~i~VI~inq~~~~~~~~~~~~~~~~~~~gG~~~~~~~~~rl~l~k~~~~k~~~~~~g  303 (315)
                      ..+.+++.+.+.+++|...++++|++||++||++.++  +.+|+ ++..|.||.+|.|++++|+.++|.+..|++....|
T Consensus       165 ~~~~q~r~~~~~l~~L~~~a~~~~~tVI~inh~~~~~--~~~~~-~p~~~~gg~~l~~~ad~~l~lrr~~~~k~g~~~~g  241 (349)
T 2zr9_A          165 HVGLQARLMSQALRKMTGALNNSGTTAIFINELREKI--GVMFG-SPETTTGGKALKFYASVRLDVRRIETLKDGTDAVG  241 (349)
T ss_dssp             CCCHHHHHHHHHHHHHHHHHHHHTCEEEEEEECC--------------CCSSHHHHHHHCSEEEEEEEEEEECSSSSCCE
T ss_pred             hhhHHHHHHHHHHHHHHHHHHHhCCEEEEEecccccc--CcccC-CCcccCCchHhhhccceEEEEEEeeeeecCccccC
Confidence            3335667788999999999999999999999999887  44676 67889999999999999999999988787776666


Q ss_pred             cce
Q 021239          304 LEV  306 (315)
Q Consensus       304 ~~~  306 (315)
                      ++.
T Consensus       242 ~~~  244 (349)
T 2zr9_A          242 NRT  244 (349)
T ss_dssp             EEE
T ss_pred             CEE
Confidence            543

>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=100.00  E-value=9.1e-37  Score=287.34  Aligned_cols=239  Identities=46%  Similarity=0.725  Sum_probs=188.8

Q ss_pred             hHHHHHHHHHHHHHHHHhhCcccccccccccCCCCCCccccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHH
Q 021239           63 IMQKDNALRLALSQLANDFGKESMLSLKRFFGSRRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIK  142 (315)
Q Consensus        63 ~~~~~~~l~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~i~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~  142 (315)
                      .+++.+.++.++++|++.|+++..+++.+.. ......+|||+++||.+|++||+++|++++|+|+||+|||+||++++.
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            3468889999999999999998777766532 356789999999999999778999999999999999999999999999


Q ss_pred             HHHhcCCeEEEEecCCCCChHHHHHcCCCCCCeEEeCCCCHHHHHHHHHHHHHcCCccEEeehhHhhhccccccCCCccC
Q 021239          143 EAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPING  222 (315)
Q Consensus       143 ~~~~~g~~v~~i~~E~~~~~~~~~~~g~~~~~l~i~~~~~~e~~~~~i~~l~~~~~~~lVVIDsl~~l~~~~~~~~~~~~  222 (315)
                      +++..|++|+||++|+++.+.+++++|++.+++++.++.+.+++++.++.+++..++++|||||++.+.++.+++++.++
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            99999999999999999999999999999999999999999999999999888889999999999999854555443333


Q ss_pred             CChHHHHHHHHHHHHHHHHHHhccCcEEEEEeccccccCCCCCCCCCccccccccccccccceEEEEEeccc-ccccCee
Q 021239          223 MYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVRFSAKSGQGLGRMDEVTSGGNALKFYAALRLRMMRTRL-FKIADKV  301 (315)
Q Consensus       223 ~~~~~q~r~i~~~l~~L~~~~~~~~i~VI~inq~~~~~~~~~~~~~~~~~~~gG~~~~~~~~~rl~l~k~~~-~k~~~~~  301 (315)
                      .....+.+.+.+.+++|..++++++++||++||++..+  +.+|+ ++..|.||.+|.|++++|+.++|.+. .|+++++
T Consensus       177 ~~~~~~~r~~~~~lr~L~~~a~~~~~~VI~~nq~~~~~--~~~fg-~p~~~~gg~al~~~a~~rl~L~r~~~~~k~~~~~  253 (366)
T 1xp8_A          177 SLPGLQARLMSQALRKLTAILSKTGTAAIFINQVREKI--GVMYG-NPETTTGGRALKFYASVRLDVRKIGQPTKVGNDA  253 (366)
T ss_dssp             --CCHHHHHHHHHHHHHHHHHTTTCCEEEEEEEC------------------CHHHHHHHCSEEEEEEEESCCC------
T ss_pred             chhhHHHHHHHHHHHHHHHHHHHcCCEEEEEEeccccc--CcccC-CccccCCcchhhheeeEEEEEEecchhcccCccc
Confidence            22235667789999999999999999999999999888  44676 67889999999999999999999987 6776666


Q ss_pred             eccc
Q 021239          302 NILE  305 (315)
Q Consensus       302 ~g~~  305 (315)
                      .|+.
T Consensus       254 ~g~~  257 (366)
T 1xp8_A          254 VANT  257 (366)
T ss_dssp             CEEE
T ss_pred             cCCE
Confidence            6653

>3cmu_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 4.20A {Escherichia coli}

Probab=100.00  E-value=2.3e-33  Score=304.75  Aligned_cols=240  Identities=51%  Similarity=0.733  Sum_probs=218.2

Q ss_pred             HHHHHHHHHHHHHHHHhhCcccccccccccCCCCCCccccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHH
Q 021239           64 MQKDNALRLALSQLANDFGKESMLSLKRFFGSRRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKE  143 (315)
Q Consensus        64 ~~~~~~l~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~i~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~  143 (315)
                      .++.++++.++.++.+.|++...+++.+. .....+.+|||+++||.+||+||+++|+.++|+||||+|||+||.+++.+
T Consensus      1372 ~~~~~~~~~~~~~~~~~~~~~si~~~~~~-~~~~~~~isTG~~~LD~lLG~GGi~~g~~vll~GppGtGKT~LA~ala~e 1450 (2050)
T 3cmu_A         1372 ENKQKALAAALGQIEKQFGKGSIMRLGED-RSMDVETISTGSLSLDIALGAGGLPMGRIVEIYGPESSGKTTLTLQVIAA 1450 (2050)
T ss_dssp             TTHHHHHHHHHHHHHHHHCTTSEEEGGGC-TTTSCCEECCSCHHHHHHHSSSSEETTSEEEEECCTTSSHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHhhcCCcceeecccc-cccccccccCCCHHHHHhcCCCCccCCeEEEEECCCCCCHHHHHHHHHHH
Confidence            35778999999999999999988877664 23567899999999999999899999999999999999999999999999


Q ss_pred             HHhcCCeEEEEecCCCCChHHHHHcCCCCCCeEEeCCCCHHHHHHHHHHHHHcCCccEEeehhHhhhccccccCCCccCC
Q 021239          144 AQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGM  223 (315)
Q Consensus       144 ~~~~g~~v~~i~~E~~~~~~~~~~~g~~~~~l~i~~~~~~e~~~~~i~~l~~~~~~~lVVIDsl~~l~~~~~~~~~~~~~  223 (315)
                      ++.+|++|+||++|+.+.+.+++.+|++++++.+.++++.+++.+.+++++++..+++||||+++++.+..+.+++.++.
T Consensus      1451 a~~~G~~v~Fi~~e~~~~~l~a~~~G~dl~~l~v~~~~~~E~~l~~~~~lvr~~~~~lVVIDsi~al~p~~~~~g~~~~~ 1530 (2050)
T 3cmu_A         1451 AQREGKTCAFIDAEHALDPIYARKLGVDIDNLLCSQPDTGEQALEICDALARSGAVDVIVVDSVAALTPKAEIEGEIGDS 1530 (2050)
T ss_dssp             HHTTTCCEEEECTTSCCCHHHHHHTTCCTTTCEEECCSSHHHHHHHHHHHHHHTCCSEEEESCGGGCCCHHHHHSCTTCC
T ss_pred             HHHcCCcEEEEEcccccCHHHHHHcCCCchhceeecCChHHHHHHHHHHHHhcCCCCEEEEcChhHhccccccccccccc
Confidence            99999999999999999999999999999999999999999999999999999999999999999999765554444544


Q ss_pred             ChHHHHHHHHHHHHHHHHHHhccCcEEEEEeccccccCCCCCCCCCccccccccccccccceEEEEEecccccccCeeec
Q 021239          224 YSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVRFSAKSGQGLGRMDEVTSGGNALKFYAALRLRMMRTRLFKIADKVNI  303 (315)
Q Consensus       224 ~~~~q~r~i~~~l~~L~~~~~~~~i~VI~inq~~~~~~~~~~~~~~~~~~~gG~~~~~~~~~rl~l~k~~~~k~~~~~~g  303 (315)
                      ....+.|.+++.|++|...+++.+++||++||....+  +.+|| +++.++||++|.|++++||.++|.+.+|++++++|
T Consensus      1531 ~~~~~~R~lsqlL~~L~~~~~~~~v~VI~tNq~~~~~--g~~fg-~~~~t~gg~al~~~~s~rl~~~~~~~~k~~~~~~g 1607 (2050)
T 3cmu_A         1531 HMGLAARMMSQAMRKLAGNLKQSNTLLIFINQIRMKI--GVMFG-NPETTTGGNALKFYASVRLDIRRIGAVKEGENVVG 1607 (2050)
T ss_dssp             CTTHHHHHHHHHHHHHHHHHHTTTCEEEEEECEEECT--TCCSS-CCEEESSHHHHHHHEEEEEEEEEEEEEEETTEEEE
T ss_pred             ccchHHHHHHHHHHHHHHHHHhCCcEEEEEccccccc--hhhcC-CCcccCCCceeeeeeeEEEEeeccccccccccccc
Confidence            4445778889999999999999999999999999999  66898 88999999999999999999999999999999999


Q ss_pred             ccee
Q 021239          304 LEVV  307 (315)
Q Consensus       304 ~~~~  307 (315)
                      ++++
T Consensus      1608 ~~~~ 1611 (2050)
T 3cmu_A         1608 SETR 1611 (2050)
T ss_dssp             EEEE
T ss_pred             ceEE
Confidence            9875

>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=100.00  E-value=9.5e-33  Score=297.42  Aligned_cols=238  Identities=51%  Similarity=0.739  Sum_probs=210.3

Q ss_pred             HHHHHHHHHHHHHHHHhhCcccccccccccCCCCCCccccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHH
Q 021239           64 MQKDNALRLALSQLANDFGKESMLSLKRFFGSRRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKE  143 (315)
Q Consensus        64 ~~~~~~l~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~i~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~  143 (315)
                      .++...++.+++++++.|+++..+++.+.. ......+|||+++||.+|++||+++|++++|+|+||+|||+||++++.+
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            456778999999999999999888776632 2467899999999999997789999999999999999999999999999


Q ss_pred             HHhcCCeEEEEecCCCCChHHHHHcCCCCCCeEEeCCCCHHHHHHHHHHHHHcCCccEEeehhHhhhccccccCCCccCC
Q 021239          144 AQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGM  223 (315)
Q Consensus       144 ~~~~g~~v~~i~~E~~~~~~~~~~~g~~~~~l~i~~~~~~e~~~~~i~~l~~~~~~~lVVIDsl~~l~~~~~~~~~~~~~  223 (315)
                      +++.|++|+||++|++.++.+++.+|++.+++.+.++++.+++.+.++.++++.++++|||||++.+++..++++..++.
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            99999999999999999999999999999999999999999999999998888999999999999998655555555554


Q ss_pred             ChHHHHHHHHHHHHHHHHHHhccCcEEEEEeccccccCCCCCCCCCccccccccccccccceEEEEEecccccccCeeec
Q 021239          224 YSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVRFSAKSGQGLGRMDEVTSGGNALKFYAALRLRMMRTRLFKIADKVNI  303 (315)
Q Consensus       224 ~~~~q~r~i~~~l~~L~~~~~~~~i~VI~inq~~~~~~~~~~~~~~~~~~~gG~~~~~~~~~rl~l~k~~~~k~~~~~~g  303 (315)
                      +.+.+.+.+.+.++.|+.+++++||+||++||+++.+  +.+|+ ++++|+||.+|.|++|+|+.+.|.+..++++...|
T Consensus       487 ~~~~q~r~~s~~Lr~L~~~ak~~~v~VI~inQl~~~v--g~~fg-~~~~p~gg~ale~~ADv~L~L~R~~~~~~g~~~~~  563 (1706)
T 3cmw_A          487 HMGLAARMMSQAMRKLAGNLKQSNTLLIFINQIRMKI--GVMFG-NPETTTGGNALKFYASVRLDIRRIGAVKEGENVVG  563 (1706)
T ss_dssp             CTTHHHHHHHHHHHHHHHHHHHHTCEEEEEECEEECT--TCCSS-CCEEESSCSHHHHHEEEEEEEEEEEEEEETTEEEE
T ss_pred             chhHHHHHHHHHHHHHHHHHHHcCCEEEEEeeccccc--ccccC-CCccCCCCcceeeeCCEEEEEEeccccccCccccC
Confidence            4556778899999999999999999999999999988  45787 67899999999999999999999987666665555


Q ss_pred             cc
Q 021239          304 LE  305 (315)
Q Consensus       304 ~~  305 (315)
                      ++
T Consensus       564 ~~  565 (1706)
T 3cmw_A          564 SE  565 (1706)
T ss_dssp             EE
T ss_pred             cE
Confidence            44

>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=99.97  E-value=1.3e-30  Score=242.03  Aligned_cols=222  Identities=23%  Similarity=0.322  Sum_probs=142.4

Q ss_pred             ccchHHHHHHHHHHHHHHHHhhCcccccccccccCCCCCCccccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHH
Q 021239           60 DAKIMQKDNALRLALSQLANDFGKESMLSLKRFFGSRRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALH  139 (315)
Q Consensus        60 ~~~~~~~~~~l~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~i~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~  139 (315)
                      +.+..+..+.++.+.+++.+.|.++..+...    ..+...++||++.||.+|+ ||+++|++++|+|+||+|||+||++
T Consensus        52 g~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~i~TG~~~LD~~L~-GGl~~G~i~~i~G~~GsGKT~la~~  126 (324)
T 2z43_A           52 GIPLSTAQKIIKEARDALDIRFKTALEVKKE----RMNVKKISTGSQALDGLLA-GGIETRTMTEFFGEFGSGKTQLCHQ  126 (324)
T ss_dssp             --------------------CCCCHHHHHHH----HCSCCEECCSCHHHHHHTT-TSEETTSEEEEEESTTSSHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHhhcccCccchhhhhhh----hccCCcccCCchhHHHhcC-CCCCCCcEEEEECCCCCCHhHHHHH
Confidence            3444445555666666777777776654322    1457899999999999999 9999999999999999999999999


Q ss_pred             HHHHHHhc------CCeEEEEecCCCCChH----HHHHcCCCCC----CeEEeCCCCHHH---HHHHHHHHHHc-CCccE
Q 021239          140 VIKEAQKL------GGYCAYLDVENALDPS----LAEAMGIDAE----NLLIAQPDSAEN---LLSVVDTLTKS-GSIDV  201 (315)
Q Consensus       140 la~~~~~~------g~~v~~i~~E~~~~~~----~~~~~g~~~~----~l~i~~~~~~e~---~~~~i~~l~~~-~~~~l  201 (315)
                      ++.+++..      +++|+||++|++++..    +++++|++.+    ++++.++.+.++   +++.+..++++ .++++
T Consensus       127 la~~~~~~~~~gg~~~~vlyi~~e~~~~~~~l~~~~~~~g~~~~~~~~~l~~~~~~~~~~~~~~l~~l~~~~~~~~~~~l  206 (324)
T 2z43_A          127 LSVNVQLPPEKGGLSGKAVYIDTEGTFRWERIENMAKALGLDIDNVMNNIYYIRAINTDHQIAIVDDLQELVSKDPSIKL  206 (324)
T ss_dssp             HHHHTTSCGGGTCCSCEEEEEESSSCCCHHHHHHHHHHTTCCHHHHHHTEEEEECCSHHHHHHHHHHHHHHHHHCTTEEE
T ss_pred             HHHHHhcccccCCCCCeEEEEECCCCCCHHHHHHHHHHhCCCHHHHhccEEEEeCCCHHHHHHHHHHHHHHHHhccCCCE
Confidence            99998765      7899999999997653    6777888874    788888887775   45556666766 78999


Q ss_pred             EeehhHhhhccccccCCCccCCChHHHHHHHHHHHHHHHHHHhccCcEEEEEeccccccCCCCCCCCCcccccccccccc
Q 021239          202 IVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVRFSAKSGQGLGRMDEVTSGGNALKF  281 (315)
Q Consensus       202 VVIDsl~~l~~~~~~~~~~~~~~~~~q~r~i~~~l~~L~~~~~~~~i~VI~inq~~~~~~~~~~~~~~~~~~~gG~~~~~  281 (315)
                      |||||++.++. .++.+. ++  .......+.+.++.|.+++++++++||++||++...+  .+|+ ++..|+||.+|.|
T Consensus       207 vVIDsl~~l~~-~~~~~~-g~--~~~r~~~~~~~l~~L~~la~~~~~~Vi~~nq~~~~~~--~~~~-~~~~~~gg~~l~~  279 (324)
T 2z43_A          207 IVVDSVTSHFR-AEYPGR-EN--LAVRQQKLNKHLHQLTRLAEVYDIAVIITNQVMARPD--MFYG-DPTVAVGGHTLYH  279 (324)
T ss_dssp             EEETTTTHHHH-HHSCTT-TS--HHHHHHHHHHHHHHHHHHHHHHTCEEEEEEEC-------------------------
T ss_pred             EEEeCcHHHhh-hhhcCc-cc--HHHHHHHHHHHHHHHHHHHHHhCCEEEEEcceeecCC--CcCC-CCCCCCchHHHHh
Confidence            99999999983 333321 11  1122234778889999999999999999999998873  3565 6778999999999


Q ss_pred             ccceEEEEEecc
Q 021239          282 YAALRLRMMRTR  293 (315)
Q Consensus       282 ~~~~rl~l~k~~  293 (315)
                      ++++||.++|.+
T Consensus       280 ~~d~~l~l~r~~  291 (324)
T 2z43_A          280 VPGIRIQLKKSR  291 (324)
T ss_dssp             --CEEEEEEECS
T ss_pred             hCcEEEEEEEcC
Confidence            999999999875

>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=99.97  E-value=8.5e-31  Score=245.22  Aligned_cols=224  Identities=23%  Similarity=0.317  Sum_probs=149.0

Q ss_pred             cchHHHHHHHHHHHHHHHHhhCcccccccccccCCCCCCccccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHH
Q 021239           61 AKIMQKDNALRLALSQLANDFGKESMLSLKRFFGSRRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHV  140 (315)
Q Consensus        61 ~~~~~~~~~l~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~i~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~l  140 (315)
                      .+..+..+.++.+.+++.+.|.++..+.-..    .+...++||++.||.+|+ ||+++|++++|+|+||+|||+||+++
T Consensus        68 is~~~~~~~~~~a~~~~~~~~~~~~~~~~~~----~~~~~i~TG~~~LD~~Lg-GGl~~G~i~~I~G~~GsGKTtla~~l  142 (343)
T 1v5w_A           68 LSEAKVDKIKEAANKLIEPGFLTAFEYSEKR----KMVFHITTGSQEFDKLLG-GGIESMAITEAFGEFRTGKTQLSHTL  142 (343)
T ss_dssp             ------------------CCSEEHHHHHHHG----GGCCCBCCSCHHHHHHTT-SSBCSSEEEEEECCTTCTHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHhhcccCCCcHHHHHhhh----cccceeecCChhHHHHhc-CCCCCCeEEEEECCCCCCHHHHHHHH
Confidence            3334444555556666666666655432211    346789999999999999 99999999999999999999999999


Q ss_pred             HHHHHh------cCCeEEEEecCCCCChH----HHHHcCCCC----CCeEEeCCCCHHHHH---HHHHHHHHc--CCccE
Q 021239          141 IKEAQK------LGGYCAYLDVENALDPS----LAEAMGIDA----ENLLIAQPDSAENLL---SVVDTLTKS--GSIDV  201 (315)
Q Consensus       141 a~~~~~------~g~~v~~i~~E~~~~~~----~~~~~g~~~----~~l~i~~~~~~e~~~---~~i~~l~~~--~~~~l  201 (315)
                      +.+++.      .+++|+||++|+++...    +++++|++.    +++++.++.+.+++.   ..+..++.+  .++++
T Consensus       143 a~~~~~~~~~gg~~~~vlyi~~E~~~~~~~l~~~~~~~g~~~~~~l~~l~~~~~~~~e~~~~ll~~l~~~i~~~~~~~~l  222 (343)
T 1v5w_A          143 CVTAQLPGAGGYPGGKIIFIDTENTFRPDRLRDIADRFNVDHDAVLDNVLYARAYTSEHQMELLDYVAAKFHEEAGIFKL  222 (343)
T ss_dssp             HHHTTSCBTTTBCCCEEEEEESSSCCCHHHHHHHHHHTTCCHHHHHHTEEEEECCSTTHHHHHHHHHHHHHHHSCSSEEE
T ss_pred             HHHHhcccccCCCCCeEEEEECCCCCCHHHHHHHHHHcCCCHHHHHhceeEeecCCHHHHHHHHHHHHHHHHhcCCCccE
Confidence            998765      57899999999987764    677888887    478888777666544   445666766  78999


Q ss_pred             EeehhHhhhccccccCCCccCCChHHHHHHHHHHHHHHHHHHhccCcEEEEEeccccccCCCCCCCCCcccccccccccc
Q 021239          202 IVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVRFSAKSGQGLGRMDEVTSGGNALKF  281 (315)
Q Consensus       202 VVIDsl~~l~~~~~~~~~~~~~~~~~q~r~i~~~l~~L~~~~~~~~i~VI~inq~~~~~~~~~~~~~~~~~~~gG~~~~~  281 (315)
                      |||||++.++. .++.+. ++  .......+.+.++.|.++++++|++||++||+++......+|.+++.+|+||++|.|
T Consensus       223 vVIDsl~~l~~-~~~~~~-g~--~~~r~~~l~~~l~~L~~la~~~~~~Vi~~nq~~~~~~~~~~~~g~~~~~~gg~~i~~  298 (343)
T 1v5w_A          223 LIIDSIMALFR-VDFSGR-GE--LAERQQKLAQMLSRLQKISEEYNVAVFVTNQMTADPGATMTFQADPKKPIGGHILAH  298 (343)
T ss_dssp             EEEETSGGGHH-HHCCGG-GC--HHHHHHHHHHHHHHHHHHHHHHTCEEEEEECC-------------------CCTTTT
T ss_pred             EEEechHHHHH-HHhccc-cc--HHHHHHHHHHHHHHHHHHHHHhCCEEEEEeeceecCCCccccCCCCCcCCchHHHHH
Confidence            99999999983 343321 11  111223477888899999999999999999999887543356226778999999999


Q ss_pred             ccceEEEEEecc
Q 021239          282 YAALRLRMMRTR  293 (315)
Q Consensus       282 ~~~~rl~l~k~~  293 (315)
                      ++++||.++|.+
T Consensus       299 ~ad~~l~l~r~~  310 (343)
T 1v5w_A          299 ASTTRISLRKGR  310 (343)
T ss_dssp             SSSEEEEEEESS
T ss_pred             hCCEEEEEEEcC
Confidence            999999999874

>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=99.97  E-value=5.7e-30  Score=237.34  Aligned_cols=222  Identities=22%  Similarity=0.275  Sum_probs=169.6

Q ss_pred             ccchHHHHHHHHHHHHHHHHhhCcccccccccccCCCCCCccccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHH
Q 021239           60 DAKIMQKDNALRLALSQLANDFGKESMLSLKRFFGSRRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALH  139 (315)
Q Consensus        60 ~~~~~~~~~~l~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~i~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~  139 (315)
                      +++..+..+.++.+.+++...|.++..+...    ......++||++.||.+|+ ||+++|++++|+|+||+|||+||++
T Consensus        43 gis~~~a~~~i~~a~~~~~~~~~~~~~~~~~----~~~~~~i~TG~~~LD~~l~-GGl~~g~i~~i~G~~gsGKT~la~~  117 (322)
T 2i1q_A           43 GISEKAAAKMIMGARDLCDLGFKSGIDLLKQ----RSTVWKLSTSSSELDSVLG-GGLESQSVTEFAGVFGSGKTQIMHQ  117 (322)
T ss_dssp             TCCHHHHHHHHHHHHHHTTCSCCCTHHHHHH----HTTCCEECCSCHHHHHHTT-SSEETTEEEEEEESTTSSHHHHHHH
T ss_pred             CcCHHHHHHHHHHHHHhhhhcCCcHHHHHHH----hccCCeecCCChhHHHhcC-CCccCCeEEEEECCCCCCHHHHHHH
Confidence            3455555666666777777777776654221    1457899999999999999 9999999999999999999999999


Q ss_pred             HHHHHHh------------cC----CeEEEEecCCCCChH----HHHHcCCCC----CCeEEeCCCCHHH---HHHHHHH
Q 021239          140 VIKEAQK------------LG----GYCAYLDVENALDPS----LAEAMGIDA----ENLLIAQPDSAEN---LLSVVDT  192 (315)
Q Consensus       140 la~~~~~------------~g----~~v~~i~~E~~~~~~----~~~~~g~~~----~~l~i~~~~~~e~---~~~~i~~  192 (315)
                      ++.+++.            .|    ++|+||++|++++..    +++++|++.    +++++.++.+.++   +++.+..
T Consensus       118 la~~~~l~~~~~~~~~~~~~gg~~~~~v~yi~~e~~~~~~~l~~~~~~~g~~~~~~~~~l~~~~~~~~~~~~~~l~~l~~  197 (322)
T 2i1q_A          118 SCVNLQNPEFLFYDEEAVSKGEVAQPKAVYIDTEGTFRPERIMQMAEHAGIDGQTVLDNTFVARAYNSDMQMLFAEKIED  197 (322)
T ss_dssp             HHHHTTCGGGEECCTTTSCTTTTSSEEEEEEESSSCCCHHHHHHHHHHHTCCHHHHHHTEEEEECSSHHHHHHHHHTHHH
T ss_pred             HHHHHhccccccccccccccCCCCCceEEEEECCCCCCHHHHHHHHHHcCCCHHHHhcCEEEEeCCCHHHHHHHHHHHHH
Confidence            9988642            24    799999999997654    677889887    4788888888775   4455666


Q ss_pred             HHHc-CCccEEeehhHhhhccccccCCCccCCChHHHHHHHHHHHHHHHHHHhccCcEEEEEeccccccCCCCCCCCCcc
Q 021239          193 LTKS-GSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVRFSAKSGQGLGRMDE  271 (315)
Q Consensus       193 l~~~-~~~~lVVIDsl~~l~~~~~~~~~~~~~~~~~q~r~i~~~l~~L~~~~~~~~i~VI~inq~~~~~~~~~~~~~~~~  271 (315)
                      .+++ .++++|||||++.++. .++.+. +  ........+.+.++.|.+++++++++||++||++...+  .+|+ ++.
T Consensus       198 ~~~~~~~~~lvVIDsl~~l~~-~~~~~~-~--~~~~r~~~~~~~~~~L~~la~~~~~~vi~~nq~~~~~~--~~~g-~~~  270 (322)
T 2i1q_A          198 LIQEGNNIKLVVIDSLTSTFR-NEYTGR-G--KLAERQQKLGRHMATLNKLADLFNCVVLVTNQVSAKPD--AFFG-MAE  270 (322)
T ss_dssp             HHHTTCEEEEEEEECSSHHHH-HHCCCT-T--SHHHHHHHHHHHHHHHHHHHHHTTCEEEEEECEECC----------CC
T ss_pred             HHhhccCccEEEEECcHHHHH-HHhcCC-c--cHHHHHHHHHHHHHHHHHHHHHhCCEEEEECceeecCC--CCCC-CCc
Confidence            6776 7899999999999983 333321 1  11122234778899999999999999999999998873  3565 677


Q ss_pred             ccccccccccccceEEEEEecc
Q 021239          272 VTSGGNALKFYAALRLRMMRTR  293 (315)
Q Consensus       272 ~~~gG~~~~~~~~~rl~l~k~~  293 (315)
                      .|.||..|.|++++||.++|.+
T Consensus       271 ~~~g~~~~~~~~d~~i~l~~~~  292 (322)
T 2i1q_A          271 QAIGGHIVGHAATFRFFVRKGK  292 (322)
T ss_dssp             EESSHHHHHHHCSEEEEEEECS
T ss_pred             CCCCcHHHHhcCcEEEEEEecC
Confidence            8999999999999999999875

>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=99.95  E-value=1.3e-27  Score=227.27  Aligned_cols=192  Identities=26%  Similarity=0.408  Sum_probs=136.9

Q ss_pred             CCCccccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHh------cCCeEEEEecCCCCChH----HHH
Q 021239           97 RGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQK------LGGYCAYLDVENALDPS----LAE  166 (315)
Q Consensus        97 ~~~~i~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~------~g~~v~~i~~E~~~~~~----~~~  166 (315)
                      ...+++||+++||++|+ ||+++|++++|+||||+|||||+++++.+++.      .+++++||++|+.+...    +++
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            56889999999999999 99999999999999999999999999887764      36789999999987763    567


Q ss_pred             HcCCCCC----CeEEeCCCCHHHHH---HHHHHHHHcCCccEEeehhHhhhccccccCCCccCCChHHHHHHHHHHHHHH
Q 021239          167 AMGIDAE----NLLIAQPDSAENLL---SVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKI  239 (315)
Q Consensus       167 ~~g~~~~----~l~i~~~~~~e~~~---~~i~~l~~~~~~~lVVIDsl~~l~~~~~~~~~~~~~~~~~q~r~i~~~l~~L  239 (315)
                      ++|++++    ++.+....+.++..   ..+...+...++++||||+++.+++ .++.+. +  ....+.+.+.++++.|
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            7898875    77887777766544   3344555667899999999999984 344321 1  1122334456778888


Q ss_pred             HHHHhccCcEEEEEeccccccCCCCCCCCCccccccccccccccceEEEEEecc
Q 021239          240 HYSLCQSHTLIIFLNQVRFSAKSGQGLGRMDEVTSGGNALKFYAALRLRMMRTR  293 (315)
Q Consensus       240 ~~~~~~~~i~VI~inq~~~~~~~~~~~~~~~~~~~gG~~~~~~~~~rl~l~k~~  293 (315)
                      .++++++|++||++||++...++..+|++++.+|+||..|.|++++||.|++.+
T Consensus       311 ~~lake~gitVIlv~Hv~~~~~g~~~~~g~~~~p~gg~~l~~~ad~vl~L~~~~  364 (400)
T 3lda_A          311 QRLADQFGVAVVVTNQVVAQVDGGMAFNPDPKKPIGGNIMAYSSTTRLGFKKGK  364 (400)
T ss_dssp             HHHHHHHCCEEEEEEEC--------------------CHHHHHCSEEEEEEECS
T ss_pred             HHHHHHcCCEEEEEEeecccCCccccccCCCccCCchhHHHHhcceEEEEEecC
Confidence            888899999999999998776543346557788999999999999999999964

>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=99.94  E-value=4.5e-26  Score=213.55  Aligned_cols=218  Identities=23%  Similarity=0.284  Sum_probs=147.4

Q ss_pred             HHHHHHHHHHHHHHHH-hhCcccccccccccCCCCCCccccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHH
Q 021239           64 MQKDNALRLALSQLAN-DFGKESMLSLKRFFGSRRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIK  142 (315)
Q Consensus        64 ~~~~~~l~~~l~~l~~-~~~~~~~~~~~~~~~~~~~~~i~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~  142 (315)
                      .+..+.++.+.+++.+ .|.++..+.-.    ......+|||+++||.+|+ ||+++|++++|+||||+|||||+++++.
T Consensus        79 ~~~~~~l~~~~~~~~~~~~~~~~~~~~~----~~~~~~isTG~~~LD~lL~-ggi~~G~i~~I~G~~GsGKTTL~~~l~~  153 (349)
T 1pzn_A           79 GTALKIIQAARKAANLGTFMRADEYLKK----RATIGRISTGSKSLDKLLG-GGIETQAITEVFGEFGSGKTQLAHTLAV  153 (349)
T ss_dssp             HHHHHHHHHHHHHCSTTSCEEHHHHHHH----HHTCCEECCSCHHHHHHHT-SSEESSEEEEEEESTTSSHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhhccccCCccHHHHHhh----hccCCeecCCCHHHHHHhc-CCCCCCeEEEEECCCCCCHHHHHHHHHH
Confidence            3344444445555544 44444332111    1356889999999999999 9999999999999999999999999999


Q ss_pred             HHHhc------CCeEEEEecCCCCChH----HHHHcCCCC----CCeEEeCCCCH---HHHHHHHHHHHHc-----CCcc
Q 021239          143 EAQKL------GGYCAYLDVENALDPS----LAEAMGIDA----ENLLIAQPDSA---ENLLSVVDTLTKS-----GSID  200 (315)
Q Consensus       143 ~~~~~------g~~v~~i~~E~~~~~~----~~~~~g~~~----~~l~i~~~~~~---e~~~~~i~~l~~~-----~~~~  200 (315)
                      .++..      +++|+||++|+.+...    +++..+++.    +++.+....+.   .++++.+..++..     .+++
T Consensus       154 ~~~~~~~~Gg~~G~vi~i~~e~~~~~~~i~~i~q~~~~~~~~v~~ni~~~~~~~~~~~~~~l~~~~~~~~~lS~G~~~~~  233 (349)
T 1pzn_A          154 MVQLPPEEGGLNGSVIWIDTENTFRPERIREIAQNRGLDPDEVLKHIYVARAFNSNHQMLLVQQAEDKIKELLNTDRPVK  233 (349)
T ss_dssp             HTTSCGGGTSCSCEEEEEESSSCCCHHHHHHHHHTTTCCHHHHGGGEEEEECCSHHHHHHHHHHHHHHHHHSSSSSSCEE
T ss_pred             HhccchhcCCCCCeEEEEeCCCCCCHHHHHHHHHHcCCCHHHHhhCEEEEecCChHHHHHHHHHHHHHHHHhccccCCCC
Confidence            87532      4789999999986543    455566654    46766665443   3456666677766     6899


Q ss_pred             EEeehhHhhhccccccCCCccCCChHHHHHHHHHHHHHHHHHHhccCcEEEEEeccccccCCCCCCCCCccccccccccc
Q 021239          201 VIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVRFSAKSGQGLGRMDEVTSGGNALK  280 (315)
Q Consensus       201 lVVIDsl~~l~~~~~~~~~~~~~~~~~q~r~i~~~l~~L~~~~~~~~i~VI~inq~~~~~~~~~~~~~~~~~~~gG~~~~  280 (315)
                      +|||||+++.+. .++.+..   ........+.+.++.|.++++++|++||++||.....+  .+|+ ++..+.||+.|.
T Consensus       234 llIlDs~ta~ld-~~~~~~~---~~~~r~~~~~~~l~~L~~la~~~~~tvii~~h~~~~~~--~~~~-~~~~~~~G~~l~  306 (349)
T 1pzn_A          234 LLIVDSLTSHFR-SEYIGRG---ALAERQQKLAKHLADLHRLANLYDIAVFVTNQVQARPD--AFFG-DPTRPIGGHILA  306 (349)
T ss_dssp             EEEEETSSTTHH-HHCCSTT---THHHHHHHHHHHHHHHHHHHHHTTCEEEEEEECC------------------CCCCC
T ss_pred             EEEEeCchHhhh-hhhcccc---cHHHHHHHHHHHHHHHHHHHHHcCcEEEEEcccccccc--cccC-CccccCCcceEe
Confidence            999999999883 3332210   11112223567777888888999999999999987663  3455 678899999999


Q ss_pred             cccceEEEEEecc
Q 021239          281 FYAALRLRMMRTR  293 (315)
Q Consensus       281 ~~~~~rl~l~k~~  293 (315)
                      |+++.||.++|.+
T Consensus       307 ~~~~~rL~l~~~~  319 (349)
T 1pzn_A          307 HSATLRVYLRKGK  319 (349)
T ss_dssp             TTCSEEEEEEECT
T ss_pred             ecCcEEEEEEEcC
Confidence            9999999999864

>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=99.94  E-value=9.2e-26  Score=199.37  Aligned_cols=192  Identities=23%  Similarity=0.309  Sum_probs=129.1

Q ss_pred             CCCccccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHh------cCCeEEEEecCCCCCh----HHHH
Q 021239           97 RGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQK------LGGYCAYLDVENALDP----SLAE  166 (315)
Q Consensus        97 ~~~~i~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~------~g~~v~~i~~E~~~~~----~~~~  166 (315)
                      +.+.++||++.||++|+ ||+++|++++|+||||+|||||+.+++.+++.      .+++++|+++|+.+..    .+++
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 99999999999999999999999999987654      3689999999997654    2567


Q ss_pred             HcCCCC----CCeEEeCCCCHHHHHHH---HHHHHHcCCccEEeehhHhhhccccccCCCccCCChHHHHHHHHHHHHHH
Q 021239          167 AMGIDA----ENLLIAQPDSAENLLSV---VDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKI  239 (315)
Q Consensus       167 ~~g~~~----~~l~i~~~~~~e~~~~~---i~~l~~~~~~~lVVIDsl~~l~~~~~~~~~~~~~~~~~q~r~i~~~l~~L  239 (315)
                      .+|+++    +++.+..+.+.++....   +...+...++++||||+++.+.. ..+.+..   ....+.+.+.+.+..|
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            788887    67877777776655443   55556667899999999998873 2222110   0012222356677777


Q ss_pred             HHHHhccCcEEEEEeccccccCCCCCCCCCccccccccccccccceEEEEEecc
Q 021239          240 HYSLCQSHTLIIFLNQVRFSAKSGQGLGRMDEVTSGGNALKFYAALRLRMMRTR  293 (315)
Q Consensus       240 ~~~~~~~~i~VI~inq~~~~~~~~~~~~~~~~~~~gG~~~~~~~~~rl~l~k~~  293 (315)
                      .++++++|++||+++|..+.......|.+++..|+||..|.+.++.++.+.+.+
T Consensus       157 ~~~~~~~~~tvi~~~h~~~~~~~~~~~~~~~~~~~g~~~~~~~~d~vi~l~~~~  210 (243)
T 1n0w_A          157 LRLADEFGVAVVITNQVVAQVDGAAMFAADPKKPIGGNIIAHASTTRLYLRKGR  210 (243)
T ss_dssp             HHHHHHHCCEEEEEC-------------------------CCTTCEEEEEEECS
T ss_pred             HHHHHHcCCEEEEEeeeeecCCCccccCCCcccCCccChhhhcCcEEEEEEEcC
Confidence            777899999999999998876432234335677899999999999999999853

>2zts_A Putative uncharacterized protein PH0186; KAIC like protein, ATP-binding, nucleotide-binding, ATP- binding protein; HET: ADP; 2.07A {Pyrococcus horikoshii}

Probab=99.92  E-value=5.6e-25  Score=194.87  Aligned_cols=176  Identities=19%  Similarity=0.235  Sum_probs=130.8

Q ss_pred             CCCCccccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHh-cCCeEEEEecCCCCCh--HHHHHcCCCC
Q 021239           96 RRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQK-LGGYCAYLDVENALDP--SLAEAMGIDA  172 (315)
Q Consensus        96 ~~~~~i~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~-~g~~v~~i~~E~~~~~--~~~~~~g~~~  172 (315)
                      .+.++||||+++||++|+ ||+++|++++|+|+||+|||+||++++.+++. .+.+|+|+++|++...  .++.+++.+.
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 99999999999999999999999999988654 5789999999998776  3455555442


Q ss_pred             C------CeEE------------------eCCCCHHHHHHHHHHHHHcCCccEEeehhHhhhccccccCCCccCCChHHH
Q 021239          173 E------NLLI------------------AQPDSAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQ  228 (315)
Q Consensus       173 ~------~l~i------------------~~~~~~e~~~~~i~~l~~~~~~~lVVIDsl~~l~~~~~~~~~~~~~~~~~q  228 (315)
                      +      ++.+                  ......+++.+.+...+...+++++|||+++.+....  ...       . 
T Consensus        86 ~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vviD~~~~l~~~~--~~~-------~-  155 (251)
T 2zts_A           86 EKYEKEGKIAIVDGVSSVVGLPSEEKFVLEDRFNVDNFLRYIYRVVKAINAKRLVIDSIPSIALRL--EEE-------R-  155 (251)
T ss_dssp             HHHHHTTSEEEEC-------------------CCHHHHHHHHHHHHHHTTCSEEEEECHHHHHHHS--SSG-------G-
T ss_pred             HHHHhcCcchhhhhHHHHhhcccchhccccccccHHHHHHHHHHHHHhcCCcEEEEEcHHHHhhhc--cCh-------H-
Confidence            2      1211                  1223556778888888888999999999999887321  111       1 


Q ss_pred             HHHHHHHHHHHHHHHhccCcEEEEEeccccccCCCCCCCCCccccccccccccccceEEEEEecc
Q 021239          229 SRIMTQALRKIHYSLCQSHTLIIFLNQVRFSAKSGQGLGRMDEVTSGGNALKFYAALRLRMMRTR  293 (315)
Q Consensus       229 ~r~i~~~l~~L~~~~~~~~i~VI~inq~~~~~~~~~~~~~~~~~~~gG~~~~~~~~~rl~l~k~~  293 (315)
                        .+.+.++.|+.+++++|+++++++|+.+...+         ...+...+.+.+|..+.+.+..
T Consensus       156 --~~~~~~~~L~~~a~~~~i~vi~~~q~~~~~~~---------~~~~~~~~~~~aD~vi~l~~~~  209 (251)
T 2zts_A          156 --KIREVLLKLNTILLEMGVTTILTTEAPDPQHG---------KLSRYGIEEFIARGVIVLDLQE  209 (251)
T ss_dssp             --GHHHHHHHHHHHHHHHCCEEEEEECCC----C---------CSSSSSCGGGGCSEEEEEEEEE
T ss_pred             --HHHHHHHHHHHHHHHcCCCeEEEEEEeccccc---------ccccCCceeEEeeEEEEEEEEe
Confidence              13456677788889999999999999755421         2334456788889888887654

>3bh0_A DNAB-like replicative helicase; ATPase, replication; 2.35A {Bacillus phage SPP1}

Probab=99.92  E-value=1e-23  Score=194.95  Aligned_cols=187  Identities=18%  Similarity=0.158  Sum_probs=141.9

Q ss_pred             CCCccccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCChH--HHH--HcCCCC
Q 021239           97 RGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPS--LAE--AMGIDA  172 (315)
Q Consensus        97 ~~~~i~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~~--~~~--~~g~~~  172 (315)
                      ...+++||+++||.++|  |+++|++++|+|+||+|||+|+++++.+++.+|.+|+||++|++..+.  |+.  ..+++.
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  999999999999999999999999999999888999999999987762  222  124431


Q ss_pred             ---------------------------CCeEEeCC--CCHHHHHHHHHHHHHcCCcc--EEeehhHhhhccccccCCCcc
Q 021239          173 ---------------------------ENLLIAQP--DSAENLLSVVDTLTKSGSID--VIVVDSVAALIPKCEIGVPIN  221 (315)
Q Consensus       173 ---------------------------~~l~i~~~--~~~e~~~~~i~~l~~~~~~~--lVVIDsl~~l~~~~~~~~~~~  221 (315)
                                                 .++++.+.  .+.+++...+++++++++++  +|||||++.+... . ..   
T Consensus       125 ~~l~~~~~~l~~~~~~~l~~a~~~l~~~~i~i~d~~~~~~~~i~~~i~~l~~~~~~~~~lVVID~l~~l~~~-~-~~---  199 (315)
T 3bh0_A          125 QKIKAARRDFASEDWGKLSMAIGEISNSNINIFDKAGQSVNYIWSKTRQTKRKNPGKRVIVMIDYLQLLEPA-K-AN---  199 (315)
T ss_dssp             HHHHSCHHHHCSSCHHHHHHHHHHHHTSCEEEECCSCCBHHHHHHHHHHHHHTSSSCCEEEEEECGGGSBCS-C-TT---
T ss_pred             HHHhcCCCCCCHHHHHHHHHHHHHHhCCCEEEECCCCCCHHHHHHHHHHHHHhcCCCCeEEEEeCchhcCCC-C-CC---
Confidence                                       14555554  36889999999988888899  9999999998731 1 00   


Q ss_pred             CCChHHHHHHHHHHHHHHHHHHhccCcEEEEEeccccccCCCCCCCCCccccccccccccccceEEEEEeccc
Q 021239          222 GMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVRFSAKSGQGLGRMDEVTSGGNALKFYAALRLRMMRTRL  294 (315)
Q Consensus       222 ~~~~~~q~r~i~~~l~~L~~~~~~~~i~VI~inq~~~~~~~~~~~~~~~~~~~gG~~~~~~~~~rl~l~k~~~  294 (315)
                       .   .....+..+++.|+.+|+++||+||+++|+++.........+......+...+.+.+|+++.|.+...
T Consensus       200 -~---~r~~~i~~~~~~Lk~lAk~~~i~vi~lsql~r~~e~r~~~~p~l~dlr~sg~ie~~aD~vi~L~r~~~  268 (315)
T 3bh0_A          200 -D---SRTNQISQISRDLKKMARELDVVVIALSQLSRQVEQRQDKRPMLSDLRESGQLEQDADIIEFLYRDDY  268 (315)
T ss_dssp             -S---CHHHHHHHHHHHHHHHHHHHTCEEEEEECCCGGGTTSSSCCCCGGGGTTTSHHHHHCSEEEEEEEHHH
T ss_pred             -C---CHHHHHHHHHHHHHHHHHHhCCeEEEEeecCcccccCCCCCCCHHHhhhhhhhHhhCCEEEEEecccc
Confidence             0   12234677788888888999999999999987764311100011123456779999999999998753

>4a1f_A DNAB helicase, replicative DNA helicase; hydrolase, DNA replication, ATPase; HET: FLC; 2.50A {Helicobacter pylori}

Probab=99.92  E-value=5.5e-24  Score=197.79  Aligned_cols=186  Identities=17%  Similarity=0.162  Sum_probs=142.4

Q ss_pred             CCCccccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCChHHHH----HcCCCC
Q 021239           97 RGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAE----AMGIDA  172 (315)
Q Consensus        97 ~~~~i~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~~~~~----~~g~~~  172 (315)
                      ...+++||++.||.+++  |+++|++++|+|+||+|||+|++++|.+++..|.+|+||++|++..+...+    ..+++.
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            56789999999999996  999999999999999999999999999999999999999999998763222    123322


Q ss_pred             -------------------------CCeEEeCCC--CHHHHHHHHHHHHHcC-CccEEeehhHhhhccccccCCCccCCC
Q 021239          173 -------------------------ENLLIAQPD--SAENLLSVVDTLTKSG-SIDVIVVDSVAALIPKCEIGVPINGMY  224 (315)
Q Consensus       173 -------------------------~~l~i~~~~--~~e~~~~~i~~l~~~~-~~~lVVIDsl~~l~~~~~~~~~~~~~~  224 (315)
                                               .++++.+..  +.+++...++++.+.+ ++++|||||++.+.......++     
T Consensus       103 ~~l~~g~Ls~~e~~~l~~a~~~l~~~~l~I~d~~~~si~~i~~~ir~l~~~~gg~~lIVIDyLqlm~~~~~~~~r-----  177 (338)
T 4a1f_A          103 HDLESGRLDDDQWENLAKCFDHLSQKKLFFYDKSYVRIEQIRLQLRKLKSQHKELGIAFIDYLQLMSGSKATKER-----  177 (338)
T ss_dssp             HHHHHTCCCHHHHHHHHHHHHHHHHSCEEEECCTTCCHHHHHHHHHHHHHHCTTEEEEEEEEEECCCTHHHHHHC-----
T ss_pred             HHHhcCCCCHHHHHHHHHHHHHHhcCCeEEeCCCCCcHHHHHHHHHHHHHhcCCCCEEEEechHHhcCCCCCCCh-----
Confidence                                     135665543  6889999999988887 8999999999988742111111     


Q ss_pred             hHHHHHHHHHHHHHHHHHHhccCcEEEEEeccccccCCCCCCCCCccccccccccccccceEEEEEecc
Q 021239          225 SDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVRFSAKSGQGLGRMDEVTSGGNALKFYAALRLRMMRTR  293 (315)
Q Consensus       225 ~~~q~r~i~~~l~~L~~~~~~~~i~VI~inq~~~~~~~~~~~~~~~~~~~gG~~~~~~~~~rl~l~k~~  293 (315)
                          ..++..+.+.|+.+|++++|+||+++|+++.......-.+......++.++.+.+|+++.+.|..
T Consensus       178 ----~~ei~~isr~LK~lAkel~vpVi~lsQl~R~~e~r~dkrP~lsDLreSg~IeqdAD~Vl~l~R~~  242 (338)
T 4a1f_A          178 ----HEQIAEISRELKTLARELEIPIIALVQLNRSLENRDDKRPILSDIKDSGGIEQDADIVLFLYRGY  242 (338)
T ss_dssp             ----CCCHHHHHHHHHHHHHHHTSCEEEEEECCGGGGGSSSCSCCGGGSEETTEECCCCSEEEEEECHH
T ss_pred             ----HHHHHHHHHHHHHHHHHcCCeEEEEEecCccccccccCCCChHhcccchhhhhhCcEEEEEecch
Confidence                11255667777778899999999999999887442111111122356778999999999999975

>3bgw_A DNAB-like replicative helicase; ATPase, replication; 3.91A {Bacillus phage SPP1}

Probab=99.90  E-value=9.7e-23  Score=196.60  Aligned_cols=187  Identities=18%  Similarity=0.170  Sum_probs=142.8

Q ss_pred             CCCccccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCChHHH----HHcCCC-
Q 021239           97 RGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLA----EAMGID-  171 (315)
Q Consensus        97 ~~~~i~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~~~~----~~~g~~-  171 (315)
                      ...+++||+++||+++|  |+++|++++|+|+||+|||+|++++|.+++.+|.+|+||++|++..+...    ...|++ 
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            46789999999999996  99999999999999999999999999999988999999999999987322    222433 


Q ss_pred             --------------------------CCCeEEeCC--CCHHHHHHHHHHHHHcCCcc--EEeehhHhhhccccccCCCcc
Q 021239          172 --------------------------AENLLIAQP--DSAENLLSVVDTLTKSGSID--VIVVDSVAALIPKCEIGVPIN  221 (315)
Q Consensus       172 --------------------------~~~l~i~~~--~~~e~~~~~i~~l~~~~~~~--lVVIDsl~~l~~~~~~~~~~~  221 (315)
                                                ..++++.+.  .+.+++...+++++++++++  +|||||++.+... .. .+  
T Consensus       254 ~~l~~g~~~l~~~~~~~l~~a~~~l~~~~l~i~d~~~~s~~~i~~~ir~l~~~~~~~~~lIVID~Lq~~~~~-~~-~~--  329 (444)
T 3bgw_A          254 QKIKAARRDFASEDWGKLSMAIGEISNSNINIFDKAGQSVNYIWSKTRQTKRKNPGKRVIVMIDYLQLLEPA-KA-ND--  329 (444)
T ss_dssp             HHHHHTGGGTCCSCHHHHHHHHHHHHTSCEEEECCSSCBHHHHHHHHHHHHHHSCSSCEEEEEECSTTSBCS-CS-SS--
T ss_pred             HHHhcccCCCCHHHHHHHHHHHHHHhcCCEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEEecHHhccCC-CC-CC--
Confidence                                      124555554  37889999999998888999  9999999998732 10 10  


Q ss_pred             CCChHHHHHHHHHHHHHHHHHHhccCcEEEEEeccccccCCCCCCCCCccccccccccccccceEEEEEeccc
Q 021239          222 GMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVRFSAKSGQGLGRMDEVTSGGNALKFYAALRLRMMRTRL  294 (315)
Q Consensus       222 ~~~~~~q~r~i~~~l~~L~~~~~~~~i~VI~inq~~~~~~~~~~~~~~~~~~~gG~~~~~~~~~rl~l~k~~~  294 (315)
                           ....++..+++.|+.+++++||+||+++|+++.........+......++.++.+.+|+++.+.|.+.
T Consensus       330 -----~r~~~i~~i~~~Lk~lAke~~v~vi~lsql~r~~e~r~~krp~lsdlr~Sg~ieq~aD~Vi~L~r~~~  397 (444)
T 3bgw_A          330 -----SRTNQISQISRDLKKMARELDVVVIALSQLSRQVEQRQDKRPMLSDLRESGQLEQDADIIEFLYRDDY  397 (444)
T ss_dssp             -----CHHHHHHHHHHHHHHHHHHHTCEEEEEEECCGGGGGSSCCCCCGGGCCSCSHHHHHCSEEEECCBGGG
T ss_pred             -----CHHHHHHHHHHHHHHHHHHhCCeEEEEecCCccccccCCCCCchhhhhhhhhHHhhCCEEEEEecccc
Confidence                 12234677788888888999999999999987763311100011122455579999999999998754

>2q6t_A DNAB replication FORK helicase; hydrolase; 2.90A {Thermus aquaticus}

Probab=99.90  E-value=2.7e-22  Score=193.67  Aligned_cols=190  Identities=18%  Similarity=0.167  Sum_probs=138.8

Q ss_pred             CCCccccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHh-cCCeEEEEecCCCCChHH----HHHcCCC
Q 021239           97 RGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQK-LGGYCAYLDVENALDPSL----AEAMGID  171 (315)
Q Consensus        97 ~~~~i~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~-~g~~v~~i~~E~~~~~~~----~~~~g~~  171 (315)
                      ...+++||++.||.++|  |+++|++++|+|+||+|||+|+++++.+++. .|.+|+||++|++..+..    +...+++
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            45789999999999995  9999999999999999999999999999987 478999999999877632    2334554


Q ss_pred             CC-------------------------CeEEeCCC--CHHHHHHHHHHHHHcCCccEEeehhHhhhccccccCCCccCCC
Q 021239          172 AE-------------------------NLLIAQPD--SAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMY  224 (315)
Q Consensus       172 ~~-------------------------~l~i~~~~--~~e~~~~~i~~l~~~~~~~lVVIDsl~~l~~~~~~~~~~~~~~  224 (315)
                      .+                         ++++.+..  +.+++...+++++.++++++|||||++.+....  .+.. .. 
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            43                         24454443  678899999998888899999999999987310  0000 00 


Q ss_pred             hHHHHHHHHHHHHHHHHHHhccCcEEEEEeccccccCCCCCCCCCccccccccccccccceEEEEEeccc
Q 021239          225 SDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVRFSAKSGQGLGRMDEVTSGGNALKFYAALRLRMMRTRL  294 (315)
Q Consensus       225 ~~~q~r~i~~~l~~L~~~~~~~~i~VI~inq~~~~~~~~~~~~~~~~~~~gG~~~~~~~~~rl~l~k~~~  294 (315)
                        .....+..+++.|+.++++++|+||+++|+++.........+......++.++.+.+|.++.+.|...
T Consensus       333 --~r~~~i~~i~~~Lk~lAke~~v~vi~lsql~r~~e~r~~~~p~l~dlr~Sg~ie~~aD~vi~L~r~~~  400 (444)
T 2q6t_A          333 --NRQQEIAAISRGLKALARELGIPIIALSQLSRAVEARPNKRPMLSDLRESGSIEQDADLVMFIYRDEY  400 (444)
T ss_dssp             --CHHHHHHHHHHHHHHHHHHHTSCEEEEEECCGGGGSSSSCSCCGGGGGGGCTTGGGCSEEEEEEEGGG
T ss_pred             --CHHHHHHHHHHHHHHHHHHhCCeEEEEecCCcccccCCCCCCChHHhcchhHHHHhCCEEEEEecccc
Confidence              12234677788888888999999999999988764311000011122355678999999999999864

>2dr3_A UPF0273 protein PH0284; RECA superfamily ATPase, hexamer, structural genomics; HET: ADP; 2.00A {Pyrococcus horikoshii}

Probab=99.90  E-value=4.6e-23  Score=182.28  Aligned_cols=169  Identities=20%  Similarity=0.283  Sum_probs=128.6

Q ss_pred             CccccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCCh--HHHHHcCCCCC---
Q 021239           99 PVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP--SLAEAMGIDAE---  173 (315)
Q Consensus        99 ~~i~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~--~~~~~~g~~~~---  173 (315)
                      ++++||++.||++|+ ||+++|++++|+|+||+|||||+++++.+.+..+++|+|+++|++...  .++.++|++++   
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            579999999999999 999999999999999999999999999999988999999999998654  35566777653   


Q ss_pred             ---CeEEeC-------------------CCCHHHHHHHHHHHHHcCCccEEeehhHhhhccccccCCCccCCChHHHHHH
Q 021239          174 ---NLLIAQ-------------------PDSAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRI  231 (315)
Q Consensus       174 ---~l~i~~-------------------~~~~e~~~~~i~~l~~~~~~~lVVIDsl~~l~~~~~~~~~~~~~~~~~q~r~  231 (315)
                         ++.+.+                   +.+.+++.+.+.+.++..++++||||+++.+... .    .      .+   
T Consensus        82 ~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~vviD~~~~l~~~-~----~------~~---  147 (247)
T 2dr3_A           82 EKGMFAMVDAFTAGIGKSKEYEKYIVHDLTDIREFIEVLRQAIRDINAKRVVVDSVTTLYIN-K----P------AM---  147 (247)
T ss_dssp             HHTSEEEEECSTTTTCC--CCCSCBCSCCSSHHHHHHHHHHHHHHHTCCEEEEETSGGGTTT-C----G------GG---
T ss_pred             hCCcEEEEecchhhcccccccccccccCccCHHHHHHHHHHHHHHhCCCEEEECCchHhhcC-C----H------HH---
Confidence               343332                   2356677778888777778999999999988621 1    0      01   


Q ss_pred             HHHHHHHHHHHHhccCcEEEEEeccccccCCCCCCCCCccccccccccccccceEEEEEecc
Q 021239          232 MTQALRKIHYSLCQSHTLIIFLNQVRFSAKSGQGLGRMDEVTSGGNALKFYAALRLRMMRTR  293 (315)
Q Consensus       232 i~~~l~~L~~~~~~~~i~VI~inq~~~~~~~~~~~~~~~~~~~gG~~~~~~~~~rl~l~k~~  293 (315)
                      ..+.+..|.+.+++.|++||+++|......           ...+..|.+++|.++.+.+..
T Consensus       148 ~~~~l~~l~~~~~~~~~~vi~~~h~~~~~~-----------~~~~~~~~~~~D~vi~L~~~~  198 (247)
T 2dr3_A          148 ARSIILQLKRVLAGTGCTSIFVSQVSVGER-----------GFGGPGVEHGVDGIIRLDLDE  198 (247)
T ss_dssp             HHHHHHHHHHHHHHTTCEEEEEEECC---------------CCC-CCHHHHSSEEEEEEEEE
T ss_pred             HHHHHHHHHHHHHHCCCeEEEEecCCCCcc-----------cccccccceeEEEEEEEEEEc
Confidence            224455666667899999999999976431           112335888889999998864

>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=99.90  E-value=6.5e-23  Score=178.32  Aligned_cols=175  Identities=27%  Similarity=0.437  Sum_probs=132.4

Q ss_pred             ccccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCChH----HHHHcCCCCC--
Q 021239          100 VISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPS----LAEAMGIDAE--  173 (315)
Q Consensus       100 ~i~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~~----~~~~~g~~~~--  173 (315)
                      +++||++.||.+++ ||+++|++++|+|+||+|||||+.+++.   ..+++|+|+++|+.....    +.+.++++.+  
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   568899999999865553    2334455432  


Q ss_pred             --CeEEeCCCCHHH---HHHHHHHHHHcCCccEEeehhHhhhccccccCCCccCCChHHHHHHHHHHHHHHHHHHhccCc
Q 021239          174 --NLLIAQPDSAEN---LLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHT  248 (315)
Q Consensus       174 --~l~i~~~~~~e~---~~~~i~~l~~~~~~~lVVIDsl~~l~~~~~~~~~~~~~~~~~q~r~i~~~l~~L~~~~~~~~i  248 (315)
                        ++.+.++.+.++   .++.++.++.. ++++||||+++.+..... ...       ...+.+.+.++.|..+++++++
T Consensus        77 ~~~~~~~~~~~~~~~~~~~~~~~~l~~~-~~~lliiD~~~~~l~~~~-~~~-------~~~~~~~~~~~~L~~l~~~~~~  147 (220)
T 2cvh_A           77 LSRFILFTPSDFKEQRRVIGSLKKTVDS-NFALVVVDSITAHYRAEE-NRS-------GLIAELSRQLQVLLWIARKHNI  147 (220)
T ss_dssp             HHHEEEECCTTTSHHHHHHHHHHHHCCT-TEEEEEEECCCCCTTGGG-GSS-------TTHHHHHHHHHHHHHHHHHHTC
T ss_pred             hhcEEEEecCCHHHHHHHHHHHHHHhhc-CCCEEEEcCcHHHhhhcC-chH-------HHHHHHHHHHHHHHHHHHHcCC
Confidence              456666555443   44555555544 799999999998863211 100       1123456677777777799999


Q ss_pred             EEEEEeccccccCCCCCCCCCccccccccccccccceEEEEEecc
Q 021239          249 LIIFLNQVRFSAKSGQGLGRMDEVTSGGNALKFYAALRLRMMRTR  293 (315)
Q Consensus       249 ~VI~inq~~~~~~~~~~~~~~~~~~~gG~~~~~~~~~rl~l~k~~  293 (315)
                      +||+++|.......      ....|.|+..|.+.++.++.+.+..
T Consensus       148 ~vi~~~h~~~~~~~------~~~~p~~~~~~~~~~d~vi~l~~~~  186 (220)
T 2cvh_A          148 PVIVINQVHFDSRT------EMTKPVAEQTLGYRCKDILRLDKLP  186 (220)
T ss_dssp             CEEEEECSSSSCTT------SSCCSCCCHHHHHTSSEEEEEEECS
T ss_pred             EEEEEeeEEEcCCC------CccccCCCcceeecCcEEEEEEEec
Confidence            99999999876532      3457899999999999999999874

>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=99.89  E-value=3.7e-22  Score=195.53  Aligned_cols=187  Identities=10%  Similarity=0.151  Sum_probs=142.6

Q ss_pred             CCCCcccc-CcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHhc-CCeEEEEecCCCCChH--H--HHHcC
Q 021239           96 RRGPVIST-GSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKL-GGYCAYLDVENALDPS--L--AEAMG  169 (315)
Q Consensus        96 ~~~~~i~T-G~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~~-g~~v~~i~~E~~~~~~--~--~~~~g  169 (315)
                      ....+++| |++.||.++|  |+++|++++|+|+||+|||+|+++++.+++.+ |.+|+||++|++..+.  +  +...|
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            45778999 9999999996  89999999999999999999999999999987 8899999999987653  2  23345


Q ss_pred             CCC--------------------------CCeEEeCC---CCHHHHHHHHHHHHHcCCccEEeehhHhhhccccccCCCc
Q 021239          170 IDA--------------------------ENLLIAQP---DSAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPI  220 (315)
Q Consensus       170 ~~~--------------------------~~l~i~~~---~~~e~~~~~i~~l~~~~~~~lVVIDsl~~l~~~~~~~~~~  220 (315)
                      ++.                          .++++.+.   .+.+++...+++++++.++++|||||++.+... .  .  
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            543                          23566554   568899999999988889999999999987631 1  1  


Q ss_pred             cCCChHHHHHHHHHHHHHHHHHHhccCcEEEEEeccccccCCCC----CCCCCccccccccccccccceEEEEEeccc
Q 021239          221 NGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVRFSAKSGQ----GLGRMDEVTSGGNALKFYAALRLRMMRTRL  294 (315)
Q Consensus       221 ~~~~~~~q~r~i~~~l~~L~~~~~~~~i~VI~inq~~~~~~~~~----~~~~~~~~~~gG~~~~~~~~~rl~l~k~~~  294 (315)
                      ..    .....+.++++.|+.+++++||+||+++|+++ .....    .-.+......|+..+.+.+|++|.|.+.+.
T Consensus       372 ~~----~~~~~~~~~~~~Lk~lak~~~i~vi~~~q~~r-~~~~~~~~~~~~p~l~dlr~s~~ie~~aD~vi~l~r~~~  444 (503)
T 1q57_A          372 ES----DERKMIDNLMTKLKGFAKSTGVVLVVICHLKN-PDKGKAHEEGRPVSITDLRGSGALRQLSDTIIALERNQQ  444 (503)
T ss_dssp             CC----CHHHHHHHHHHHHHHHHHHHTCEEEEEEECCC-CSSSSCSTTCCCCCSSSCSSSSHHHHHCSEEEEEEECSS
T ss_pred             CC----CHHHHHHHHHHHHHHHHHHHCCeEEEEEcCCc-hhccCccccCCCCChhhhccchHhhecCcEEEEEEeCCc
Confidence            00    12234677788888888999999999999987 32110    000011223567789999999999998754

>2r6a_A DNAB helicase, replicative helicase; replication, DNAB; 2.90A {Geobacillus stearothermophilus} PDB: 2r6c_A 2r6d_A 2r6e_A 2vyf_A 2vye_A

Probab=99.88  E-value=2.2e-21  Score=187.85  Aligned_cols=189  Identities=16%  Similarity=0.188  Sum_probs=139.7

Q ss_pred             CCCCccccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHh-cCCeEEEEecCCCCChHH----HHHcCC
Q 021239           96 RRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQK-LGGYCAYLDVENALDPSL----AEAMGI  170 (315)
Q Consensus        96 ~~~~~i~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~-~g~~v~~i~~E~~~~~~~----~~~~g~  170 (315)
                      ....+++||++.||.+++  |+++|++++|+|+||+|||||+++++.+++. .|.+|+||++|++..+..    +...|+
T Consensus       181 ~~~~~i~tG~~~LD~~~g--Gl~~G~liiI~G~pG~GKTtl~l~ia~~~~~~~g~~Vl~~s~E~s~~~l~~r~~~~~~~~  258 (454)
T 2r6a_A          181 GEITGIPTGFTELDRMTS--GFQRSDLIIVAARPSVGKTAFALNIAQNVATKTNENVAIFSLEMSAQQLVMRMLCAEGNI  258 (454)
T ss_dssp             CCCCSBCCSCHHHHHHHS--SBCTTCEEEEECCTTSCHHHHHHHHHHHHHHHSSCCEEEEESSSCHHHHHHHHHHHHHTC
T ss_pred             CCCCCCCCCcHHHHhhcC--CCCCCCEEEEECCCCCCHHHHHHHHHHHHHHhCCCcEEEEECCCCHHHHHHHHHHHHcCC
Confidence            346889999999999996  9999999999999999999999999999987 477999999999876532    223454


Q ss_pred             CCC-------------------------CeEEeCC--CCHHHHHHHHHHHHHcCCccEEeehhHhhhccccccCCCccCC
Q 021239          171 DAE-------------------------NLLIAQP--DSAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGM  223 (315)
Q Consensus       171 ~~~-------------------------~l~i~~~--~~~e~~~~~i~~l~~~~~~~lVVIDsl~~l~~~~~~~~~~~~~  223 (315)
                      +.+                         ++++.+.  .+..++...+++++...++++||||+++.+... .... .   
T Consensus       259 ~~~~l~~g~l~~~~~~~~~~a~~~l~~~~l~i~d~~~~s~~~i~~~~~~l~~~~~~~livID~l~~~~~~-~~~~-~---  333 (454)
T 2r6a_A          259 NAQNLRTGKLTPEDWGKLTMAMGSLSNAGIYIDDTPSIRVSDIRAKCRRLKQESGLGMIVIDYLQLIQGS-GRSK-E---  333 (454)
T ss_dssp             CHHHHHTSCCCHHHHHHHHHHHHHHHSSCEEEECCTTCCHHHHHHHHHHHHTTTCCCEEEEECGGGSCCS-CC-------
T ss_pred             CHHHHhcCCCCHHHHHHHHHHHHHHhcCCEEEECCCCCCHHHHHHHHHHHHHHcCCCEEEEccHHHhccC-CCCC-C---
Confidence            422                         3455554  378888888998887789999999999998732 1100 0   


Q ss_pred             ChHHHHHHHHHHHHHHHHHHhccCcEEEEEeccccccCCCCCCCCCccccccccccccccceEEEEEeccc
Q 021239          224 YSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVRFSAKSGQGLGRMDEVTSGGNALKFYAALRLRMMRTRL  294 (315)
Q Consensus       224 ~~~~q~r~i~~~l~~L~~~~~~~~i~VI~inq~~~~~~~~~~~~~~~~~~~gG~~~~~~~~~rl~l~k~~~  294 (315)
                         .....+..+++.|+.+++++|++||+++|+++.........+......++..+.+.+|.++.+.+.+.
T Consensus       334 ---~~~~~i~~i~~~Lk~lAke~~i~vi~~sql~r~~e~~~~~~p~lsdlr~Sg~ie~~aD~vi~l~r~~~  401 (454)
T 2r6a_A          334 ---NRQQEVSEISRSLKALARELEVPVIALSQLSRSVEQRQDKRPMMSDIRESGSIEQDADIVAFLYRDDY  401 (454)
T ss_dssp             ----CHHHHHHHHHHHHHHHHHHTCCEEEEECCCTTSTTC---CCCTHHHHTTCSHHHHCSEEEEEEETTC
T ss_pred             ---CHHHHHHHHHHHHHHHHHHhCCeEEEEecCCcccccCCCCCCcHHHhhccchhHhhCCEEEEEecccc
Confidence               11234566777777778999999999999988763311000011112355678999999999999864

>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=99.86  E-value=6.1e-21  Score=166.90  Aligned_cols=178  Identities=27%  Similarity=0.388  Sum_probs=125.2

Q ss_pred             CCCccccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHh------cCCeEEEEecCCCCCh----HHHH
Q 021239           97 RGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQK------LGGYCAYLDVENALDP----SLAE  166 (315)
Q Consensus        97 ~~~~i~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~------~g~~v~~i~~E~~~~~----~~~~  166 (315)
                      +.+.++||++.||++++ ||+++|+++.|.||||+|||||+..++.....      .+++++|++.+.....    .+.+
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            56789999999999999 99999999999999999999999999987664      3678999999987654    3456


Q ss_pred             HcCCCCC----CeEEeCCCCHHH---HHHHHHHHHH-----cCCccEEeehhHhhhccccccCCCccCCChHHHHHHHHH
Q 021239          167 AMGIDAE----NLLIAQPDSAEN---LLSVVDTLTK-----SGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQ  234 (315)
Q Consensus       167 ~~g~~~~----~l~i~~~~~~e~---~~~~i~~l~~-----~~~~~lVVIDsl~~l~~~~~~~~~~~~~~~~~q~r~i~~  234 (315)
                      .+++.++    ++.+.......+   ..+.+..++.     ..+++++++|+++..+. .+..+..   ....+.+.+.+
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            6677653    676666554332   2344444555     67899999999998763 2322210   01122222445


Q ss_pred             HHHHHHHHHhccCcEEEEEeccccccCCCCCCCCCccccccccccccccceEEEEEeccc
Q 021239          235 ALRKIHYSLCQSHTLIIFLNQVRFSAKSGQGLGRMDEVTSGGNALKFYAALRLRMMRTRL  294 (315)
Q Consensus       235 ~l~~L~~~~~~~~i~VI~inq~~~~~~~~~~~~~~~~~~~gG~~~~~~~~~rl~l~k~~~  294 (315)
                      .+..|.+++++.|++||+++|..+.               +|..|.+.++.++.+.+.+.
T Consensus       158 ~~~~l~~~~~~~g~tvi~vtH~~~~---------------~g~~~~~~~d~~l~l~~~~~  202 (231)
T 4a74_A          158 HLADLHRLANLYDIAVFVTNQVQAN---------------GGHILAHSATLRVYLRKGKG  202 (231)
T ss_dssp             HHHHHHHHHHHHTCEEEEEEECC------------------------CCSEEEEEEECTT
T ss_pred             HHHHHHHHHHHCCCeEEEEeecccC---------------cchhhHhhceEEEEEEecCC
Confidence            6667777778899999999998643               67889999999999998543

>2w0m_A SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus solfataricus P2}

Probab=99.81  E-value=2.8e-19  Score=156.14  Aligned_cols=169  Identities=26%  Similarity=0.346  Sum_probs=120.6

Q ss_pred             CccccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCCh--HHHHHcCCCCCCe-
Q 021239           99 PVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP--SLAEAMGIDAENL-  175 (315)
Q Consensus        99 ~~i~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~--~~~~~~g~~~~~l-  175 (315)
                      +.++||++.||.+++ ||+++|++++|+||||+|||||+.+++......+++|+|++.+.....  .++..+|++.+++ 
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            468999999999998 899999999999999999999999999988888899999999886544  3344567665432 


Q ss_pred             ----EEe-------------CCCCHHHHHHHHHHHHHcCCcc--EEeehhHhhhccccccCCCccCCChHHHHHHHHHHH
Q 021239          176 ----LIA-------------QPDSAENLLSVVDTLTKSGSID--VIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQAL  236 (315)
Q Consensus       176 ----~i~-------------~~~~~e~~~~~i~~l~~~~~~~--lVVIDsl~~l~~~~~~~~~~~~~~~~~q~r~i~~~l  236 (315)
                          .+.             ...+.+++...+...+...+++  ++|||+++.+... +    +      ...+   +.+
T Consensus        82 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~llilDe~~~~~~~-d----~------~~~~---~~~  147 (235)
T 2w0m_A           82 EKKLIIIDALMKEKEDQWSLVNLTPEELVNKVIEAKQKLGYGKARLVIDSVSALFLD-K----P------AMAR---KIS  147 (235)
T ss_dssp             TTTEEEEECCC----CTTBCSSCCHHHHHHHHHHHHHHHCSSCEEEEEETGGGGSSS-C----G------GGHH---HHH
T ss_pred             hCCEEEEeccccccCceeeecCCCHHHHHHHHHHHHHhhCCCceEEEEECchHhhcC-C----H------HHHH---HHH
Confidence                221             1225677777777776667899  9999999988631 1    1      1122   334


Q ss_pred             HHHHHHHhccCcEEEEEeccccccCCCCCCCCCccccccccccccccceEEEEEecc
Q 021239          237 RKIHYSLCQSHTLIIFLNQVRFSAKSGQGLGRMDEVTSGGNALKFYAALRLRMMRTR  293 (315)
Q Consensus       237 ~~L~~~~~~~~i~VI~inq~~~~~~~~~~~~~~~~~~~gG~~~~~~~~~rl~l~k~~  293 (315)
                      ..|..++++.|++||+++|..+.. .+         ..+ ..+.+.+|.++.+.+..
T Consensus       148 ~~l~~~~~~~~~~vi~~~h~~~~~-~~---------~~~-~~~~~~~d~vi~l~~~~  193 (235)
T 2w0m_A          148 YYLKRVLNKWNFTIYATSQYAITT-SQ---------AFG-FGVEHVADGIIRFRRMI  193 (235)
T ss_dssp             HHHHHHHHHTTEEEEEEEC----------------------CHHHHCSEEEEEEEEE
T ss_pred             HHHHHHHHhCCCeEEEEeccCccc-cc---------ccc-cchheeeeEEEEEEEEe
Confidence            445555588999999999997421 10         011 45778888888888764

>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=99.75  E-value=2.9e-18  Score=155.29  Aligned_cols=178  Identities=19%  Similarity=0.225  Sum_probs=114.2

Q ss_pred             CCccccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHhc----------CCeEEEEecCCCCCh--HHH
Q 021239           98 GPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKL----------GGYCAYLDVENALDP--SLA  165 (315)
Q Consensus        98 ~~~i~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~~----------g~~v~~i~~E~~~~~--~~~  165 (315)
                      .+.++||+++||.+++  |+++|++++|+|+||+|||||+++++..+...          +++|+|++.|+....  .++
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            4569999999999996  89999999999999999999999999877642          478999999998754  355


Q ss_pred             HHcCCCC---------CCeEEeCCCC------HHHHHHHHHHHHHcCCccEEeehhHhhhccccccCCCccCCChHHHHH
Q 021239          166 EAMGIDA---------ENLLIAQPDS------AENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSR  230 (315)
Q Consensus       166 ~~~g~~~---------~~l~i~~~~~------~e~~~~~i~~l~~~~~~~lVVIDsl~~l~~~~~~~~~~~~~~~~~q~r  230 (315)
                      ..++.+.         +++.+.+...      .....+.+..++.  ++++||||+++.+....+  +.         ..
T Consensus        88 ~~~g~~~~~~~~~~~~~~l~l~~~~~~~~~~ls~g~~~~i~~l~~--~~~livlDe~~~~~~~d~--~~---------~~  154 (279)
T 1nlf_A           88 HALGAHLSAEERQAVADGLLIQPLIGSLPNIMAPEWFDGLKRAAE--GRRLMVLDTLRRFHIEEE--NA---------SG  154 (279)
T ss_dssp             HHHHTTSCHHHHHHHHHHEEECCCTTSCCCTTSHHHHHHHHHHHT--TCSEEEEECGGGGCCSCT--TC---------HH
T ss_pred             HHHHhhcChhhhhhccCceEEeecCCCCcccCCHHHHHHHHHhcC--CCCEEEECCHHHhcCCCc--Cc---------hH
Confidence            6666654         2444443211      1223555555554  689999999999874211  00         12


Q ss_pred             HHHHHHHHHHHHHhccCcEEEEEeccccccCCCCCCCCCc--cccccccccccccceEEEEEecc
Q 021239          231 IMTQALRKIHYSLCQSHTLIIFLNQVRFSAKSGQGLGRMD--EVTSGGNALKFYAALRLRMMRTR  293 (315)
Q Consensus       231 ~i~~~l~~L~~~~~~~~i~VI~inq~~~~~~~~~~~~~~~--~~~~gG~~~~~~~~~rl~l~k~~  293 (315)
                      .+.++++.|..++++.|++||+++|..+...   .++..+  ....|+.++...+.....+.+..
T Consensus       155 ~~~~~~~~L~~l~~~~g~tvi~i~H~~~~~~---~~g~~~~~~~~~g~~~l~d~v~~~~~~~~~~  216 (279)
T 1nlf_A          155 PMAQVIGRMEAIAADTGCSIVFLHHASKGAA---MMGAGDQQQASRGSSVLVDNIRWQSYLSSMT  216 (279)
T ss_dssp             HHHHHHHHHHHHHHHHCCEEEEEEEC-----------------------CTGGGCSCEEEEEECC
T ss_pred             HHHHHHHHHHHHHHHcCCEEEEEecCCCccc---ccCCchhhhhccchhhhccchhhhhhccCCC
Confidence            2455666777777889999999999986542   122111  22466677765555444455543

>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=99.72  E-value=1e-16  Score=146.15  Aligned_cols=188  Identities=11%  Similarity=0.180  Sum_probs=119.8

Q ss_pred             CCCCcccc-CcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHhc-CCeEEEEecCCCCChHHHH--H--cC
Q 021239           96 RRGPVIST-GSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKL-GGYCAYLDVENALDPSLAE--A--MG  169 (315)
Q Consensus        96 ~~~~~i~T-G~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~~-g~~v~~i~~E~~~~~~~~~--~--~g  169 (315)
                      ....+++| |++.||.+++  |+++|+++.|+|+||+|||||+.+++...... |.+|+|++.|++....+.+  .  .+
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 6699999999864331111  0  12


Q ss_pred             CCC--------------------------CCeEEeCC---CCHHHHHHHHHHHHHcCCccEEeehhHhhhccccccCCCc
Q 021239          170 IDA--------------------------ENLLIAQP---DSAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPI  220 (315)
Q Consensus       170 ~~~--------------------------~~l~i~~~---~~~e~~~~~i~~l~~~~~~~lVVIDsl~~l~~~~~~~~~~  220 (315)
                      .+.                          .++.+.+.   .+..++...+...+...++++||||+++.+.....   ..
T Consensus        90 ~~~~~~~~l~~~~~~~~~~~~~~~~~l~~~~l~i~~~~~~~~~~~l~~~~~a~~~~~~p~llilDept~~~~~~~---~~  166 (296)
T 1cr0_A           90 VRLRQSDSLKREIIENGKFDQWFDELFGNDTFHLYDSFAEAETDRLLAKLAYMRSGLGCDVIILDHISIVVSASG---ES  166 (296)
T ss_dssp             CCGGGCHHHHHHHHHHTHHHHHHHHHHSSSCEEEECCCCSCCHHHHHHHHHHHHHTTCCSEEEEEEEC------------
T ss_pred             CChhhccccccCCCCHHHHHHHHHHHhccCCEEEECCCCCCCHHHHHHHHHHHHHhcCCCEEEEcCccccCCCCC---CC
Confidence            221                          13444432   46778877777655677899999999998763100   00


Q ss_pred             cCCChHHHHHHHHHHHHHHHHHHhccCcEEEEEeccccccCCC---CCCCCCccccccccccccccceEEEEEeccc
Q 021239          221 NGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVRFSAKSG---QGLGRMDEVTSGGNALKFYAALRLRMMRTRL  294 (315)
Q Consensus       221 ~~~~~~~q~r~i~~~l~~L~~~~~~~~i~VI~inq~~~~~~~~---~~~~~~~~~~~gG~~~~~~~~~rl~l~k~~~  294 (315)
                          . . ...+..+++.|+.+++++|++||+++|..+.....   ....+......|+..+.+.++.++.+.+.+.
T Consensus       167 ----d-~-~~~~~~i~~~L~~la~~~~~~vi~vsh~~r~~~~~~~~~~~~p~l~dl~~s~~i~~~aD~vi~L~~~~~  237 (296)
T 1cr0_A          167 ----D-E-RKMIDNLMTKLKGFAKSTGVVLVVICHLKNPDKGKAHEEGRPVSITDLRGSGALRQLSDTIIALERNQQ  237 (296)
T ss_dssp             --------CHHHHHHHHHHHHHHHHHCCEEEEEEECC-----------------CCC---CHHHHCSEEEEEEEC--
T ss_pred             ----C-H-HHHHHHHHHHHHHHHHHhCCeEEEEEecCccccccccccCCCCCHHHhcccHHhHhhCcEEEEEecCcc
Confidence                0 0 01233445555666688999999999997411000   0000011223456688889999999988764

>3bs4_A Uncharacterized protein PH0321; structural genomics, unknown function, PSI-2, protein struct initiative; 1.60A {Pyrococcus horikoshii}

Probab=99.72  E-value=4.6e-17  Score=145.76  Aligned_cols=73  Identities=14%  Similarity=0.141  Sum_probs=68.4

Q ss_pred             ccccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCCh--HHHHHcCCCCC
Q 021239          100 VISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP--SLAEAMGIDAE  173 (315)
Q Consensus       100 ~i~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~--~~~~~~g~~~~  173 (315)
                      .++||+++||++|+ ||+++|++++|.|.||+|||+|++|++.+.+++|++|+|+++|+++..  ..++.+|++++
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            48999999999999 999999999999999999999999999999999999999999999987  56788999864

>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=99.70  E-value=4.1e-16  Score=153.45  Aligned_cols=173  Identities=20%  Similarity=0.183  Sum_probs=125.7

Q ss_pred             CCCccccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCCh--HHHHHcCCCCC-
Q 021239           97 RGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP--SLAEAMGIDAE-  173 (315)
Q Consensus        97 ~~~~i~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~--~~~~~~g~~~~-  173 (315)
                      ..+.++||+++||.+|+ ||+++|+++.|.|+||+|||||+.+++......|++++|++++++..+  .++.++|++.+ 
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            45789999999999999 999999999999999999999999999988878889999999987554  23445666522 


Q ss_pred             -----CeEEeCC----CCHHHHHHHHHHHHHcCCccEEeehhHhhhccccccCCCccCCChHHHHHHHHHHHHHHHHHHh
Q 021239          174 -----NLLIAQP----DSAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLC  244 (315)
Q Consensus       174 -----~l~i~~~----~~~e~~~~~i~~l~~~~~~~lVVIDsl~~l~~~~~~~~~~~~~~~~~q~r~i~~~l~~L~~~~~  244 (315)
                           .+.+.+.    .+..+....+...+...+++++|+|+++.+...  ..        +.+   ..+.+..+.+.++
T Consensus       338 ~~~~g~~~~~~~~p~~LS~g~~q~~~~a~~l~~~p~llilDp~~~Ld~~--~~--------~~~---~~~~i~~ll~~l~  404 (525)
T 1tf7_A          338 MERQNLLKIVCAYPESAGLEDHLQIIKSEINDFKPARIAIDSLSALARG--VS--------NNA---FRQFVIGVTGYAK  404 (525)
T ss_dssp             HHHTTSEEECCCCGGGSCHHHHHHHHHHHHHTTCCSEEEEECHHHHTSS--SC--------HHH---HHHHHHHHHHHHH
T ss_pred             HHhCCCEEEEEeccccCCHHHHHHHHHHHHHhhCCCEEEEcChHHHHhh--CC--------hHH---HHHHHHHHHHHHH
Confidence                 2333332    255666666666666678999999999998742  11        122   2234445555557


Q ss_pred             ccCcEEEEEeccccccCCCCCCCCCcccccc-ccccccccceEEEEEecc
Q 021239          245 QSHTLIIFLNQVRFSAKSGQGLGRMDEVTSG-GNALKFYAALRLRMMRTR  293 (315)
Q Consensus       245 ~~~i~VI~inq~~~~~~~~~~~~~~~~~~~g-G~~~~~~~~~rl~l~k~~  293 (315)
                      +.|++||+++|.......          .++ +..+.+.+|.++.+.+.+
T Consensus       405 ~~g~tvilvsh~~~~~~~----------~~~~~~~l~~~~D~vi~L~~ge  444 (525)
T 1tf7_A          405 QEEITGLFTNTSDQFMGA----------HSITDSHISTITDTIILLQYVE  444 (525)
T ss_dssp             HTTCEEEEEEECSSSSCC----------CSSCSSCCTTTCSEEEEEEEEE
T ss_pred             hCCCEEEEEECcccccCc----------ccccCcccceeeeEEEEEEEEE
Confidence            789999999998754411          122 256778888888877654

>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=99.57  E-value=1e-15  Score=140.39  Aligned_cols=130  Identities=20%  Similarity=0.134  Sum_probs=94.4

Q ss_pred             CccccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEec--CCCCChHHHHHcCCCCCCeE
Q 021239           99 PVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDV--ENALDPSLAEAMGIDAENLL  176 (315)
Q Consensus        99 ~~i~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~--E~~~~~~~~~~~g~~~~~l~  176 (315)
                      ..++||+++||+++  ||+++|.+++|+||||+|||+||++++.+   .|++|+|+++  ++...          .    
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  59999999999999999999999999887   5778999998  33311          1    


Q ss_pred             EeCCCCHHHHHHHHHHHHHcCCccEEeehhHhhhccccccCCCccCCChHHHHHHHHHHHHHHHHHHhccCcEEEEEecc
Q 021239          177 IAQPDSAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQV  256 (315)
Q Consensus       177 i~~~~~~e~~~~~i~~l~~~~~~~lVVIDsl~~l~~~~~~~~~~~~~~~~~q~r~i~~~l~~L~~~~~~~~i~VI~inq~  256 (315)
                       .+ ...++.++.+.+.+...+  +||||+++.+.....-.+.++     .+.+.+.+.+..|..++++.++++|++++.
T Consensus       165 -~~-~~le~~l~~i~~~l~~~~--LLVIDsI~aL~~~~~~~s~~G-----~v~~~lrqlL~~L~~~~k~~gvtVIlttnp  235 (331)
T 2vhj_A          165 -YN-TDFNVFVDDIARAMLQHR--VIVIDSLKNVIGAAGGNTTSG-----GISRGAFDLLSDIGAMAASRGCVVIASLNP  235 (331)
T ss_dssp             -CB-CCHHHHHHHHHHHHHHCS--EEEEECCTTTC----------------CCHHHHHHHHHHHHHHHHHTCEEEEECCC
T ss_pred             -hh-cCHHHHHHHHHHHHhhCC--EEEEecccccccccccccccc-----hHHHHHHHHHHHHHHHHhhCCCEEEEEeCC
Confidence             01 456777776666666555  999999999864222111111     123346678888888889999999987663

>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=99.47  E-value=5.5e-13  Score=131.10  Aligned_cols=151  Identities=17%  Similarity=0.217  Sum_probs=104.5

Q ss_pred             CCCccccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHH-HHHHhcCCeEEEEecCCCCCh--HHHHHcCCCCC
Q 021239           97 RGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVI-KEAQKLGGYCAYLDVENALDP--SLAEAMGIDAE  173 (315)
Q Consensus        97 ~~~~i~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la-~~~~~~g~~v~~i~~E~~~~~--~~~~~~g~~~~  173 (315)
                      ...+++||++.||.+.. ||+++|+++.|.||||+|||||+.+++ ..+...+..++|++.++....  .+++.+|+.++
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            46789999999999998 899999999999999999999999975 344444778999998874332  34566787754


Q ss_pred             C------eEEeCCC------------CHHHHHHHHHHHHHcCCccEEeehhHhhhccccccCCCccCCChHHHHHHHHHH
Q 021239          174 N------LLIAQPD------------SAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQA  235 (315)
Q Consensus       174 ~------l~i~~~~------------~~e~~~~~i~~l~~~~~~~lVVIDsl~~l~~~~~~~~~~~~~~~~~q~r~i~~~  235 (315)
                      +      +......            ..+++...+...+...++++|+||++.++.+...        .+....+.+.+.
T Consensus        96 ~~~~~~~l~~~~~~~~~~~~~~l~~~~l~~~~~~~~~~LS~g~~~~lilDe~t~~~~~~~--------lD~~~~~~l~~l  167 (525)
T 1tf7_A           96 KLVDEGKLFILDASPDPEGQEVVGGFDLSALIERINYAIQKYRARRVSIDSVTSVFQQYD--------ASSVVRRELFRL  167 (525)
T ss_dssp             HHHHTTSEEEEECCCCSSCCSCCSSHHHHHHHHHHHHHHHHHTCSEEEEECSTTTSTTTC--------CHHHHHHHHHHH
T ss_pred             HhhccCcEEEEecCcccchhhhhcccCHHHHHHHHHHHHHHcCCCEEEECCHHHHHHhcC--------CHHHHHHHHHHH
Confidence            3      3332211            1334444444445557899999999998874211        111222334444


Q ss_pred             HHHHHHHHhccCcEEEEEecccccc
Q 021239          236 LRKIHYSLCQSHTLIIFLNQVRFSA  260 (315)
Q Consensus       236 l~~L~~~~~~~~i~VI~inq~~~~~  260 (315)
                      ++.+    ++.|+|||+++|.....
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            4444    55799999999987654

>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=99.07  E-value=5.8e-10  Score=97.56  Aligned_cols=118  Identities=14%  Similarity=0.099  Sum_probs=84.0

Q ss_pred             CCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCC--hHHHHHcCCCCCCeEEeCCCCHHHHHHHHHHHHH
Q 021239          118 PKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALD--PSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTK  195 (315)
Q Consensus       118 ~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~--~~~~~~~g~~~~~l~i~~~~~~e~~~~~i~~l~~  195 (315)
                      .+|.+++++|++|+||||++++++.++..+|.+|+++.++....  ...+.++|+....+.+   ...+++.+.+.+...
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            57899999999999999999999999999999999997554321  1234556766655544   234566666665555


Q ss_pred             cCCccEEeehhHhhhccccccCCCccCCChHHHHHHHHHHHHHHHHHHhccCcEEEEEecccccc
Q 021239          196 SGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVRFSA  260 (315)
Q Consensus       196 ~~~~~lVVIDsl~~l~~~~~~~~~~~~~~~~~q~r~i~~~l~~L~~~~~~~~i~VI~inq~~~~~  260 (315)
                      ...+++|+||+++.+..              .    +.+.++.|+   . .+++||++.+..+-.
T Consensus        87 ~~~~dvViIDEaQ~l~~--------------~----~ve~l~~L~---~-~gi~Vil~Gl~~df~  129 (223)
T 2b8t_A           87 NDETKVIGIDEVQFFDD--------------R----ICEVANILA---E-NGFVVIISGLDKNFK  129 (223)
T ss_dssp             CTTCCEEEECSGGGSCT--------------H----HHHHHHHHH---H-TTCEEEEECCSBCTT
T ss_pred             CCCCCEEEEecCccCcH--------------H----HHHHHHHHH---h-CCCeEEEEecccccc
Confidence            56799999999997541              1    223444443   3 499999999976543

>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=98.65  E-value=1.1e-07  Score=79.44  Aligned_cols=42  Identities=26%  Similarity=0.348  Sum_probs=35.1

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHH-hcCCeEEEEecC
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQ-KLGGYCAYLDVE  157 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~-~~g~~v~~i~~E  157 (315)
                      .+++|..+.|+||||+|||||+..++.... ..|..++|++..
T Consensus        34 ~~~~g~~~~l~G~~G~GKTtL~~~i~~~~~~~~g~~~~~~~~~   76 (180)
T 3ec2_A           34 NPEEGKGLTFVGSPGVGKTHLAVATLKAIYEKKGIRGYFFDTK   76 (180)
T ss_dssp             CGGGCCEEEECCSSSSSHHHHHHHHHHHHHHHSCCCCCEEEHH
T ss_pred             cccCCCEEEEECCCCCCHHHHHHHHHHHHHHHcCCeEEEEEHH
Confidence            345689999999999999999999998887 567688887743

>2kjq_A DNAA-related protein; solution structure, NESG, structural genomics, PSI-2, protei structure initiative; NMR {Neisseria meningitidis serogroup B}

Probab=98.64  E-value=1.1e-07  Score=77.67  Aligned_cols=40  Identities=28%  Similarity=0.557  Sum_probs=35.7

Q ss_pred             CCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCC
Q 021239          119 KGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVEN  158 (315)
Q Consensus       119 ~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~  158 (315)
                      +|..+.|+||+|+|||||+..++..+...|.+++|++...
T Consensus        35 ~g~~~~l~G~~G~GKTtL~~~i~~~~~~~g~~~~~~~~~~   74 (149)
T 2kjq_A           35 HGQFIYVWGEEGAGKSHLLQAWVAQALEAGKNAAYIDAAS   74 (149)
T ss_dssp             CCSEEEEESSSTTTTCHHHHHHHHHHHTTTCCEEEEETTT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHHHhcCCcEEEEcHHH
Confidence            8999999999999999999999988877777799998654

>4b4t_J 26S protease regulatory subunit 8 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.57  E-value=3e-07  Score=86.82  Aligned_cols=124  Identities=15%  Similarity=0.154  Sum_probs=75.9

Q ss_pred             CCCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCChHHHHHcCCCCCCeEEeCCCCHHHHHHHHHHHH
Q 021239          115 GGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLT  194 (315)
Q Consensus       115 GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~~~~~~~g~~~~~l~i~~~~~~e~~~~~i~~l~  194 (315)
                      -|+++..-++++||||+|||.+|..+|.++   +.+.+.++..+-..                ......+..+..+-...
T Consensus       177 ~gi~~prGvLL~GPPGTGKTllAkAiA~e~---~~~f~~v~~s~l~s----------------k~vGese~~vr~lF~~A  237 (405)
T 4b4t_J          177 LGIAQPKGVILYGPPGTGKTLLARAVAHHT---DCKFIRVSGAELVQ----------------KYIGEGSRMVRELFVMA  237 (405)
T ss_dssp             HTCCCCCCEEEESCSSSSHHHHHHHHHHHH---TCEEEEEEGGGGSC----------------SSTTHHHHHHHHHHHHH
T ss_pred             CCCCCCCceEEeCCCCCCHHHHHHHHHHhh---CCCceEEEhHHhhc----------------cccchHHHHHHHHHHHH
Confidence            367777779999999999999999998877   45666666432111                11122344444444445


Q ss_pred             HcCCccEEeehhHhhhccccccCCCccCCChHHHHHHHHHHHHHHHHHHhccCcEEEEEecccccc
Q 021239          195 KSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVRFSA  260 (315)
Q Consensus       195 ~~~~~~lVVIDsl~~l~~~~~~~~~~~~~~~~~q~r~i~~~l~~L~~~~~~~~i~VI~inq~~~~~  260 (315)
                      +...|.+|+||.+.++.+. ...+..+.  .....+.+.+.|..+-.+-...++.||.++.--..+
T Consensus       238 r~~aP~IIFiDEiDai~~~-R~~~~~~~--~~~~~~~l~~lL~~lDg~~~~~~V~vIaATNrpd~L  300 (405)
T 4b4t_J          238 REHAPSIIFMDEIDSIGST-RVEGSGGG--DSEVQRTMLELLNQLDGFETSKNIKIIMATNRLDIL  300 (405)
T ss_dssp             HHTCSEEEEEESSSCCTTS-CSCSSSGG--GGHHHHHHHHHHHHHHTTTCCCCEEEEEEESCSSSS
T ss_pred             HHhCCceEeeecchhhccC-CCCCCCCC--cHHHHHHHHHHHHhhhccCCCCCeEEEeccCChhhC
Confidence            5678999999999999843 22221111  112334466666666544455677777655544443

>4b4t_K 26S protease regulatory subunit 6B homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.55  E-value=5.8e-07  Score=85.73  Aligned_cols=123  Identities=16%  Similarity=0.205  Sum_probs=76.5

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCChHHHHHcCCCCCCeEEeCCCCHHHHHHHHHHHHH
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTK  195 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~~~~~~~g~~~~~l~i~~~~~~e~~~~~i~~l~~  195 (315)
                      |+++..-++++||||+|||++|..+|.++   +.+.+.++..+-...                .....+..+..+-...+
T Consensus       202 g~~~prGiLL~GPPGtGKT~lakAiA~~~---~~~~~~v~~~~l~~~----------------~~Ge~e~~ir~lF~~A~  262 (428)
T 4b4t_K          202 GIDPPRGVLLYGPPGTGKTMLVKAVANST---KAAFIRVNGSEFVHK----------------YLGEGPRMVRDVFRLAR  262 (428)
T ss_dssp             CCCCCCEEEEESCTTTTHHHHHHHHHHHH---TCEEEEEEGGGTCCS----------------SCSHHHHHHHHHHHHHH
T ss_pred             CCCCCceEEEECCCCCCHHHHHHHHHHHh---CCCeEEEecchhhcc----------------ccchhHHHHHHHHHHHH
Confidence            67777889999999999999999998877   556666664332211                11122333333333445


Q ss_pred             cCCccEEeehhHhhhccccccCCCccCCChHHHHHHHHHHHHHHHHHHhccCcEEEEEecccccc
Q 021239          196 SGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVRFSA  260 (315)
Q Consensus       196 ~~~~~lVVIDsl~~l~~~~~~~~~~~~~~~~~q~r~i~~~l~~L~~~~~~~~i~VI~inq~~~~~  260 (315)
                      ...|.+++||.+.++.+. ......+.  .....+.+.++|..+..+....++.||.++.--..+
T Consensus       263 ~~aP~IifiDEiD~i~~~-R~~~~~~~--~~~~~r~l~~lL~~ldg~~~~~~v~vI~aTN~~~~L  324 (428)
T 4b4t_K          263 ENAPSIIFIDEVDSIATK-RFDAQTGS--DREVQRILIELLTQMDGFDQSTNVKVIMATNRADTL  324 (428)
T ss_dssp             HTCSEEEEEECTHHHHCS-CSSSCSCC--CCHHHHHHHHHHHHHHHSCSSCSEEEEEEESCSSSC
T ss_pred             HcCCCeeechhhhhhhcc-ccCCCCCC--ChHHHHHHHHHHHHhhCCCCCCCEEEEEecCChhhc
Confidence            568999999999999843 22111111  113345567777777655556677777665544443

>4b4t_I 26S protease regulatory subunit 4 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.52  E-value=7e-07  Score=84.76  Aligned_cols=124  Identities=15%  Similarity=0.107  Sum_probs=76.0

Q ss_pred             CCCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCChHHHHHcCCCCCCeEEeCCCCHHHHHHHHHHHH
Q 021239          115 GGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLT  194 (315)
Q Consensus       115 GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~~~~~~~g~~~~~l~i~~~~~~e~~~~~i~~l~  194 (315)
                      .|+++..-++|+||||+|||.+|..+|.++   +.+.+.++..+-..                ......+..+..+-...
T Consensus       211 ~Gi~~prGvLLyGPPGTGKTlLAkAiA~e~---~~~fi~v~~s~l~s----------------k~vGesek~ir~lF~~A  271 (437)
T 4b4t_I          211 MGIKPPKGVILYGAPGTGKTLLAKAVANQT---SATFLRIVGSELIQ----------------KYLGDGPRLCRQIFKVA  271 (437)
T ss_dssp             HTCCCCSEEEEESSTTTTHHHHHHHHHHHH---TCEEEEEESGGGCC----------------SSSSHHHHHHHHHHHHH
T ss_pred             CCCCCCCCCceECCCCchHHHHHHHHHHHh---CCCEEEEEHHHhhh----------------ccCchHHHHHHHHHHHH
Confidence            477888889999999999999999998887   44565565322111                11223344554444555


Q ss_pred             HcCCccEEeehhHhhhccccccCCCccCCChHHHHHHHHHHHHHHHHHHhccCcEEEEEecccccc
Q 021239          195 KSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVRFSA  260 (315)
Q Consensus       195 ~~~~~~lVVIDsl~~l~~~~~~~~~~~~~~~~~q~r~i~~~l~~L~~~~~~~~i~VI~inq~~~~~  260 (315)
                      +...|.+|+||.+.++.+.....+..++.   ...+.+.+.|..+-......++.||.++.--..+
T Consensus       272 r~~aP~IIfiDEiDai~~~R~~~~~~~~~---~~~~~l~~LL~~lDg~~~~~~ViVIaATNrpd~L  334 (437)
T 4b4t_I          272 GENAPSIVFIDEIDAIGTKRYDSNSGGER---EIQRTMLELLNQLDGFDDRGDVKVIMATNKIETL  334 (437)
T ss_dssp             HHTCSEEEEEEEESSSSCCCSCSSCSSCC---HHHHHHHHHHHHHHHCCCSSSEEEEEEESCSTTC
T ss_pred             HhcCCcEEEEehhhhhcccCCCCCCCccH---HHHHHHHHHHHHhhCcCCCCCEEEEEeCCChhhc
Confidence            66789999999999998532222111111   2234455666655443344566776655544454

>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=98.52  E-value=1.5e-07  Score=79.36  Aligned_cols=82  Identities=16%  Similarity=0.240  Sum_probs=48.7

Q ss_pred             EEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCChHHHHHcC----CCCCCeE-EeCCCCHHHHHHHHHHHHHc
Q 021239          122 IVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMG----IDAENLL-IAQPDSAENLLSVVDTLTKS  196 (315)
Q Consensus       122 i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~~~~~~~g----~~~~~l~-i~~~~~~e~~~~~i~~l~~~  196 (315)
                      +++|+|++|||||+||.+++..    +.+++|++++..++.++.+++.    -.+.... +..+.+..+.   +...  .
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----APQVLYIATSQILDDEMAARIQHHKDGRPAHWRTAECWRHLDTL---ITAD--L   71 (180)
T ss_dssp             CEEEEECTTSSHHHHHHHHHCS----CSSEEEEECCCC------CHHHHHHHTSCTTEEEECCSSCGGGT---SCTT--S
T ss_pred             CEEEECCCCCcHHHHHHHHHhc----CCCeEEEecCCCCCHHHHHHHHHHHhcCCCCcEEEEcHhhHHHH---HHhh--c
Confidence            4789999999999999998754    6789999998876654332221    1112222 2223333322   1111  1


Q ss_pred             CCccEEeehhHhhhcc
Q 021239          197 GSIDVIVVDSVAALIP  212 (315)
Q Consensus       197 ~~~~lVVIDsl~~l~~  212 (315)
                      ...+.|+||+++.+..
T Consensus        72 ~~~~~VLvDclt~wl~   87 (180)
T 1c9k_A           72 APDDAILLECITTMVT   87 (180)
T ss_dssp             CTTCEEEEECHHHHHH
T ss_pred             ccCCeEEEcCHHHHHH
Confidence            2237999999999884

>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=98.51  E-value=9.7e-08  Score=89.71  Aligned_cols=35  Identities=23%  Similarity=0.283  Sum_probs=28.0

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeE
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYC  151 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v  151 (315)
                      +++|+++.|.||+|||||||+..++.-.....+.+
T Consensus        26 i~~Ge~~~llGpsGsGKSTLLr~iaGl~~p~~G~I   60 (381)
T 3rlf_A           26 IHEGEFVVFVGPSGCGKSTLLRMIAGLETITSGDL   60 (381)
T ss_dssp             ECTTCEEEEECCTTSSHHHHHHHHHTSSCCSEEEE
T ss_pred             ECCCCEEEEEcCCCchHHHHHHHHHcCCCCCCeEE
Confidence            67999999999999999999988876554433343

>2orw_A Thymidine kinase; TMTK, TP4A, transferase; HET: 4TA; 1.50A {Thermotoga maritima} PDB: 2qpo_A 2qq0_A* 2qqe_A*

Probab=98.51  E-value=1.2e-07  Score=80.19  Aligned_cols=110  Identities=15%  Similarity=0.159  Sum_probs=66.6

Q ss_pred             CCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCC---hHHHHHcCCCCCCeEEeCCCCHHHHHHHHHHHHH
Q 021239          119 KGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALD---PSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTK  195 (315)
Q Consensus       119 ~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~---~~~~~~~g~~~~~l~i~~~~~~e~~~~~i~~l~~  195 (315)
                      +|.+++++|++|+||||++++++..+...|.+++++.......   .....+.|.....+.+   .+.+++.+.+.    
T Consensus         2 ~g~i~vi~G~~gsGKTT~ll~~~~~~~~~g~~v~~~~~~~d~r~~~~~i~s~~g~~~~~~~~---~~~~~~~~~~~----   74 (184)
T 2orw_A            2 SGKLTVITGPMYSGKTTELLSFVEIYKLGKKKVAVFKPKIDSRYHSTMIVSHSGNGVEAHVI---ERPEEMRKYIE----   74 (184)
T ss_dssp             CCCEEEEEESTTSSHHHHHHHHHHHHHHTTCEEEEEEEC-----CCCEECC----CEECEEE---SSGGGGGGGCC----
T ss_pred             ccEEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEeeccccccCcccEEecCCCceeeEEE---CCHHHHHHHhc----
Confidence            4789999999999999999999999988899999886543211   0111122332222222   12222222221    


Q ss_pred             cCCccEEeehhHhhhccccccCCCccCCChHHHHHHHHHHHHHHHHHHhccCcEEEEEecccc
Q 021239          196 SGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVRF  258 (315)
Q Consensus       196 ~~~~~lVVIDsl~~l~~~~~~~~~~~~~~~~~q~r~i~~~l~~L~~~~~~~~i~VI~inq~~~  258 (315)
                       .+.++|+||.++.+.+              .    ....++.+.   .+ ++.|+++....+
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             3589999999997632              0    223444443   44 899998877543

>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=98.50  E-value=1.2e-06  Score=79.67  Aligned_cols=106  Identities=18%  Similarity=0.196  Sum_probs=72.8

Q ss_pred             ccccCcHHHHHhhcCCCCCC-------CcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCCh------HHHH
Q 021239          100 VISTGSLKLDLALGIGGLPK-------GRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP------SLAE  166 (315)
Q Consensus       100 ~i~TG~~~LD~~l~~GGl~~-------G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~------~~~~  166 (315)
                      .+..+..+|+..++ ++..+       |.++.+.|++|+||||++..++......|++|++++.+.....      .+++
T Consensus        72 ~~~~~~~~l~~~~~-~~~~~~i~~~~~~~vi~i~G~~G~GKTT~~~~la~~~~~~g~~v~l~~~D~~r~~a~~ql~~~~~  150 (297)
T 1j8m_F           72 FIKIVYDELSNLFG-GDKEPKVIPDKIPYVIMLVGVQGTGKTTTAGKLAYFYKKKGFKVGLVGADVYRPAALEQLQQLGQ  150 (297)
T ss_dssp             HHHHHHHHHHHHTT-CSCCCCCSCSSSSEEEEEECSSCSSTTHHHHHHHHHHHHTTCCEEEEECCCSSSHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhc-cccccccccCCCCeEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEecCCCCHHHHHHHHHHhc
Confidence            35667888888887 55333       8899999999999999999999999989999999999866543      1344


Q ss_pred             HcCCCCCCeEEeCCCCHHHHHH-HHHHHHHcCCccEEeehhHhh
Q 021239          167 AMGIDAENLLIAQPDSAENLLS-VVDTLTKSGSIDVIVVDSVAA  209 (315)
Q Consensus       167 ~~g~~~~~l~i~~~~~~e~~~~-~i~~l~~~~~~~lVVIDsl~~  209 (315)
                      ..|++.-.  .....+..++.. .+.. .+..++++|+||+...
T Consensus       151 ~~~v~v~~--~~~~~~p~~~~~~~l~~-~~~~~~D~ViIDTpg~  191 (297)
T 1j8m_F          151 QIGVPVYG--EPGEKDVVGIAKRGVEK-FLSEKMEIIIVDTAGR  191 (297)
T ss_dssp             HHTCCEEC--CTTCCCHHHHHHHHHHH-HHHTTCSEEEEECCCS
T ss_pred             cCCeEEEe--cCCCCCHHHHHHHHHHH-HHhCCCCEEEEeCCCC
Confidence            55554210  001123444443 3333 3335789999998543

>4b4t_M 26S protease regulatory subunit 6A; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.49  E-value=4e-07  Score=86.89  Aligned_cols=124  Identities=16%  Similarity=0.159  Sum_probs=73.6

Q ss_pred             CCCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCChHHHHHcCCCCCCeEEeCCCCHHHHHHHHHHHH
Q 021239          115 GGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLT  194 (315)
Q Consensus       115 GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~~~~~~~g~~~~~l~i~~~~~~e~~~~~i~~l~  194 (315)
                      -|+++..-++|+||||+|||++|..+|.++   +.+.+.++...-..                ......+..+..+-...
T Consensus       210 ~g~~~prGvLLyGPPGTGKTllAkAiA~e~---~~~f~~v~~s~l~~----------------~~vGese~~ir~lF~~A  270 (434)
T 4b4t_M          210 MGIRAPKGALMYGPPGTGKTLLARACAAQT---NATFLKLAAPQLVQ----------------MYIGEGAKLVRDAFALA  270 (434)
T ss_dssp             HCCCCCCEEEEESCTTSSHHHHHHHHHHHH---TCEEEEEEGGGGCS----------------SCSSHHHHHHHHHHHHH
T ss_pred             CCCCCCCeeEEECcCCCCHHHHHHHHHHHh---CCCEEEEehhhhhh----------------cccchHHHHHHHHHHHH
Confidence            478888889999999999999999998877   45666666422111                11122344444444444


Q ss_pred             HcCCccEEeehhHhhhccccccCCCccCCChHHHHHHHHHHHHHHHHHHhccCcEEEEEecccccc
Q 021239          195 KSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVRFSA  260 (315)
Q Consensus       195 ~~~~~~lVVIDsl~~l~~~~~~~~~~~~~~~~~q~r~i~~~l~~L~~~~~~~~i~VI~inq~~~~~  260 (315)
                      +...|.+|+||.+.++.+. ...+..+.  .....+.+...|..+..+....++.||.++.--..+
T Consensus       271 ~~~aP~IifiDEiDal~~~-R~~~~~~~--~~~~~~~~~~lL~~ldg~~~~~~ViVIaaTNrp~~L  333 (434)
T 4b4t_M          271 KEKAPTIIFIDELDAIGTK-RFDSEKSG--DREVQRTMLELLNQLDGFSSDDRVKVLAATNRVDVL  333 (434)
T ss_dssp             HHHCSEEEEEECTHHHHCC-CSSGGGGT--THHHHHHHHHHHHHHTTSCSSCSSEEEEECSSCCCC
T ss_pred             HhcCCeEEeecchhhhhhc-cCCCCCCC--chHHHHHHHHHHHHhhccCCCCCEEEEEeCCCchhc
Confidence            5568999999999999843 22221111  112233345555555433334567777555444444

>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=98.49  E-value=3.2e-07  Score=82.24  Aligned_cols=37  Identities=27%  Similarity=0.425  Sum_probs=29.7

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEE
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAY  153 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~  153 (315)
                      +++|+++.|.||+|+|||||+..++.......+.+.|
T Consensus        34 i~~Ge~~~liG~nGsGKSTLl~~l~Gl~~p~~G~I~~   70 (266)
T 4g1u_C           34 IASGEMVAIIGPNGAGKSTLLRLLTGYLSPSHGECHL   70 (266)
T ss_dssp             EETTCEEEEECCTTSCHHHHHHHHTSSSCCSSCEEEE
T ss_pred             EcCCCEEEEECCCCCcHHHHHHHHhcCCCCCCcEEEE
Confidence            6799999999999999999998887655444555544

>4b4t_L 26S protease subunit RPT4; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.48  E-value=7.8e-07  Score=85.00  Aligned_cols=124  Identities=18%  Similarity=0.136  Sum_probs=74.4

Q ss_pred             CCCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCChHHHHHcCCCCCCeEEeCCCCHHHHHHHHHHHH
Q 021239          115 GGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLT  194 (315)
Q Consensus       115 GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~~~~~~~g~~~~~l~i~~~~~~e~~~~~i~~l~  194 (315)
                      .|+++..-++|+||||+|||++|..+|.++   +.+.++++...-...                .....+..+..+-...
T Consensus       210 ~g~~~prGvLL~GPPGtGKTllAkAiA~e~---~~~~~~v~~s~l~sk----------------~~Gese~~ir~~F~~A  270 (437)
T 4b4t_L          210 VGIKPPKGVLLYGPPGTGKTLLAKAVAATI---GANFIFSPASGIVDK----------------YIGESARIIREMFAYA  270 (437)
T ss_dssp             HCCCCCCEEEEESCTTSSHHHHHHHHHHHH---TCEEEEEEGGGTCCS----------------SSSHHHHHHHHHHHHH
T ss_pred             CCCCCCCeEEEECCCCCcHHHHHHHHHHHh---CCCEEEEehhhhccc----------------cchHHHHHHHHHHHHH
Confidence            478888889999999999999999998877   556666664332211                1122344444444555


Q ss_pred             HcCCccEEeehhHhhhccccccCCCccCCChHHHHHHHHHHHHHHHHHHhccCcEEEEEecccccc
Q 021239          195 KSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVRFSA  260 (315)
Q Consensus       195 ~~~~~~lVVIDsl~~l~~~~~~~~~~~~~~~~~q~r~i~~~l~~L~~~~~~~~i~VI~inq~~~~~  260 (315)
                      +...|.+|+||.+.++.+.....+..   ......+.+..+|..+-..-...++.||.++.--..+
T Consensus       271 ~~~~P~IifiDEiDai~~~R~~~~~~---~~~~~~~~l~~lL~~lDg~~~~~~vivI~ATNrp~~L  333 (437)
T 4b4t_L          271 KEHEPCIIFMDEVDAIGGRRFSEGTS---ADREIQRTLMELLTQMDGFDNLGQTKIIMATNRPDTL  333 (437)
T ss_dssp             HHSCSEEEEEECCCSSSCCCSSSCCS---STTHHHHHHHHHHHHHHSSSCTTSSEEEEEESSTTSS
T ss_pred             HhcCCceeeeecccccccccccCCCC---cchHHHHHHHHHHHHhhcccCCCCeEEEEecCCchhh
Confidence            66789999999999988432211111   1112233455556555433333456666554433344

>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=98.46  E-value=2.6e-07  Score=81.27  Aligned_cols=35  Identities=26%  Similarity=0.316  Sum_probs=27.8

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeE
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYC  151 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v  151 (315)
                      +++|+++.|.||+|+|||||+..++.......+.+
T Consensus        28 i~~Ge~~~iiG~nGsGKSTLl~~l~Gl~~p~~G~I   62 (235)
T 3tif_A           28 IKEGEFVSIMGPSGSGKSTMLNIIGCLDKPTEGEV   62 (235)
T ss_dssp             ECTTCEEEEECSTTSSHHHHHHHHTTSSCCSEEEE
T ss_pred             EcCCCEEEEECCCCCcHHHHHHHHhcCCCCCceEE
Confidence            67999999999999999999987765544433444

>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=98.45  E-value=3.2e-07  Score=82.58  Aligned_cols=39  Identities=23%  Similarity=0.342  Sum_probs=29.7

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEec
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDV  156 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~  156 (315)
                      +++|+++.|.||+|+|||||+..++.......+.+ +++.
T Consensus        31 i~~Ge~~~iiGpnGsGKSTLl~~l~Gl~~p~~G~I-~~~G   69 (275)
T 3gfo_A           31 IKRGEVTAILGGNGVGKSTLFQNFNGILKPSSGRI-LFDN   69 (275)
T ss_dssp             EETTSEEEEECCTTSSHHHHHHHHTTSSCCSEEEE-EETT
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHHcCCCCCCeEE-EECC
Confidence            67999999999999999999988776554444444 4443

>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=98.45  E-value=2.8e-07  Score=86.12  Aligned_cols=128  Identities=16%  Similarity=0.218  Sum_probs=72.7

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCC--Ch-H---HHHHcCCCCCCeEEeCCCCHHHHH--
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENAL--DP-S---LAEAMGIDAENLLIAQPDSAENLL--  187 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~--~~-~---~~~~~g~~~~~l~i~~~~~~e~~~--  187 (315)
                      -+++|+++.|.||+|+|||||+..++.-.....+.+. ++...-.  .. .   ..+.+|+-+++..+....+..+.+  
T Consensus        50 ~i~~Gei~~IiGpnGaGKSTLlr~i~GL~~p~~G~I~-i~G~~i~~~~~~~~~~~r~~Ig~v~Q~~~l~~~~TV~env~~  128 (366)
T 3tui_C           50 HVPAGQIYGVIGASGAGKSTLIRCVNLLERPTEGSVL-VDGQELTTLSESELTKARRQIGMIFQHFNLLSSRTVFGNVAL  128 (366)
T ss_dssp             EECTTCEEEEECCTTSSHHHHHHHHHTSSCCSEEEEE-ETTEECSSCCHHHHHHHHTTEEEECSSCCCCTTSCHHHHHHH
T ss_pred             EEcCCCEEEEEcCCCchHHHHHHHHhcCCCCCceEEE-ECCEECCcCCHHHHHHHhCcEEEEeCCCccCCCCCHHHHHHH
Confidence            3679999999999999999999877655444444444 4432211  11 1   123456655543333222222111  


Q ss_pred             -------------HHHHHHH-----------------------------HcCCccEEeehhHhhhccccccCCCccCCCh
Q 021239          188 -------------SVVDTLT-----------------------------KSGSIDVIVVDSVAALIPKCEIGVPINGMYS  225 (315)
Q Consensus       188 -------------~~i~~l~-----------------------------~~~~~~lVVIDsl~~l~~~~~~~~~~~~~~~  225 (315)
                                   +.+.+++                             -..+|++++.|..++-..             
T Consensus       129 ~~~~~~~~~~~~~~~v~~lL~~vgL~~~~~~~~~~LSGGqkQRVaIArAL~~~P~lLLlDEPTs~LD-------------  195 (366)
T 3tui_C          129 PLELDNTPKDEVKRRVTELLSLVGLGDKHDSYPSNLSGGQKQRVAIARALASNPKVLLCDQATSALD-------------  195 (366)
T ss_dssp             HHHHSCCCHHHHHHHHHHHHHHHTCGGGTTCCTTTSCHHHHHHHHHHHHTTTCCSEEEEESTTTTSC-------------
T ss_pred             HHHhcCCCHHHHHHHHHHHHHHcCCchHhcCChhhCCHHHHHHHHHHHHHhcCCCEEEEECCCccCC-------------
Confidence                         1111111                             024678888887665541             


Q ss_pred             HHHHHHHHHHHHHHHHHHhccCcEEEEEecccccc
Q 021239          226 DAQSRIMTQALRKIHYSLCQSHTLIIFLNQVRFSA  260 (315)
Q Consensus       226 ~~q~r~i~~~l~~L~~~~~~~~i~VI~inq~~~~~  260 (315)
                      ....+.+.+.++++.   ++.|+|||+++|-...+
T Consensus       196 ~~~~~~i~~lL~~l~---~~~g~Tii~vTHdl~~~  227 (366)
T 3tui_C          196 PATTRSILELLKDIN---RRLGLTILLITHEMDVV  227 (366)
T ss_dssp             HHHHHHHHHHHHHHH---HHSCCEEEEEESCHHHH
T ss_pred             HHHHHHHHHHHHHHH---HhCCCEEEEEecCHHHH
Confidence            122334555555554   77899999999975543

>2pcj_A ABC transporter, lipoprotein-releasing system ATP-binding protein; structural genomics; 1.70A {Aquifex aeolicus} PDB: 2pcl_A

Probab=98.44  E-value=3.2e-07  Score=80.03  Aligned_cols=37  Identities=30%  Similarity=0.308  Sum_probs=28.4

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEE
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAY  153 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~  153 (315)
                      +++|+++.|.||+|+|||||+..++.......+.+.|
T Consensus        27 i~~Ge~~~iiG~nGsGKSTLl~~l~Gl~~p~~G~i~~   63 (224)
T 2pcj_A           27 VKKGEFVSIIGASGSGKSTLLYILGLLDAPTEGKVFL   63 (224)
T ss_dssp             EETTCEEEEEECTTSCHHHHHHHHTTSSCCSEEEEEE
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhcCCCCCceEEEE
Confidence            6799999999999999999998776554333444433

>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=98.42  E-value=2e-07  Score=86.90  Aligned_cols=36  Identities=33%  Similarity=0.312  Sum_probs=28.4

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeE
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYC  151 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v  151 (315)
                      -+++|+++.|.||+|||||||+..++.......+.+
T Consensus        26 ~i~~Ge~~~llGpsGsGKSTLLr~iaGl~~p~~G~I   61 (359)
T 3fvq_A           26 SLDPGEILFIIGASGCGKTTLLRCLAGFEQPDSGEI   61 (359)
T ss_dssp             EECTTCEEEEEESTTSSHHHHHHHHHTSSCCSEEEE
T ss_pred             EEcCCCEEEEECCCCchHHHHHHHHhcCCCCCCcEE
Confidence            367999999999999999999988776554433443

>2it1_A 362AA long hypothetical maltose/maltodextrin transport ATP-binding protein; structural genomics, NPPSFA; 1.94A {Pyrococcus horikoshii}

Probab=98.40  E-value=3.7e-07  Score=85.31  Aligned_cols=35  Identities=23%  Similarity=0.379  Sum_probs=27.8

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeE
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYC  151 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v  151 (315)
                      +++|+++.|.||+|||||||+..++.-.....+.+
T Consensus        26 i~~Ge~~~llGpnGsGKSTLLr~iaGl~~p~~G~I   60 (362)
T 2it1_A           26 IKDGEFMALLGPSGSGKSTLLYTIAGIYKPTSGKI   60 (362)
T ss_dssp             ECTTCEEEEECCTTSSHHHHHHHHHTSSCCSEEEE
T ss_pred             ECCCCEEEEECCCCchHHHHHHHHhcCCCCCceEE
Confidence            67999999999999999999988776544333444

>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding, nucleotide-binding, HY; HET: ADP; 3.11A {Methanocaldococcus jannaschii}

Probab=98.39  E-value=2.1e-06  Score=76.75  Aligned_cols=123  Identities=19%  Similarity=0.180  Sum_probs=69.0

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCChHHHHHcCCCCCCeEEeCCCCHHHHHHHHHHHHH
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTK  195 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~~~~~~~g~~~~~l~i~~~~~~e~~~~~i~~l~~  195 (315)
                      |+.++..++|+||||+|||+++..++...   +.++++++...-...                .....+.....+.....
T Consensus        47 ~~~~~~~~ll~G~~GtGKT~la~~la~~~---~~~~~~v~~~~~~~~----------------~~~~~~~~~~~~~~~~~  107 (285)
T 3h4m_A           47 GIEPPKGILLYGPPGTGKTLLAKAVATET---NATFIRVVGSELVKK----------------FIGEGASLVKDIFKLAK  107 (285)
T ss_dssp             CCCCCSEEEEESSSSSSHHHHHHHHHHHT---TCEEEEEEGGGGCCC----------------STTHHHHHHHHHHHHHH
T ss_pred             CCCCCCeEEEECCCCCcHHHHHHHHHHHh---CCCEEEEehHHHHHh----------------ccchHHHHHHHHHHHHH
Confidence            56677789999999999999999887664   567777765332211                01112233333333344


Q ss_pred             cCCccEEeehhHhhhccccccCCCccCCChHHHHHHHHHHHHHHHHHHhccCcEEEEEecccccc
Q 021239          196 SGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVRFSA  260 (315)
Q Consensus       196 ~~~~~lVVIDsl~~l~~~~~~~~~~~~~~~~~q~r~i~~~l~~L~~~~~~~~i~VI~inq~~~~~  260 (315)
                      ...+.+++||.+..+.+... ....+.  .....+.+...+..+.......++.||.+++....+
T Consensus       108 ~~~~~vl~iDEid~l~~~~~-~~~~~~--~~~~~~~l~~ll~~~~~~~~~~~~~vI~ttn~~~~l  169 (285)
T 3h4m_A          108 EKAPSIIFIDEIDAIAAKRT-DALTGG--DREVQRTLMQLLAEMDGFDARGDVKIIGATNRPDIL  169 (285)
T ss_dssp             HTCSEEEEEETTHHHHBCCS-SSCCGG--GGHHHHHHHHHHHHHHTTCSSSSEEEEEECSCGGGB
T ss_pred             HcCCeEEEEECHHHhcccCc-cccCCc--cHHHHHHHHHHHHHhhCCCCCCCEEEEEeCCCchhc
Confidence            56789999999999874321 111000  112222333444333222223467777777654443

>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=98.39  E-value=4.7e-07  Score=80.97  Aligned_cols=38  Identities=21%  Similarity=0.209  Sum_probs=29.2

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEE
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAY  153 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~  153 (315)
                      -+++|+++.|.||+|+|||||+..++.......+.+.|
T Consensus        46 ~i~~Gei~~liG~NGsGKSTLlk~l~Gl~~p~~G~I~~   83 (263)
T 2olj_A           46 HIREGEVVVVIGPSGSGKSTFLRCLNLLEDFDEGEIII   83 (263)
T ss_dssp             EECTTCEEEEECCTTSSHHHHHHHHTTSSCCSEEEEEE
T ss_pred             EEcCCCEEEEEcCCCCcHHHHHHHHHcCCCCCCcEEEE
Confidence            36799999999999999999998877554433444443

>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=98.38  E-value=3.2e-07  Score=85.65  Aligned_cols=35  Identities=26%  Similarity=0.337  Sum_probs=27.7

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeE
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYC  151 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v  151 (315)
                      +++|+++.|.||+|||||||+..++.-.....+.+
T Consensus        26 i~~Ge~~~llGpnGsGKSTLLr~iaGl~~p~~G~I   60 (359)
T 2yyz_A           26 VKDGEFVALLGPSGCGKTTTLLMLAGIYKPTSGEI   60 (359)
T ss_dssp             ECTTCEEEEECSTTSSHHHHHHHHHTSSCCSEEEE
T ss_pred             EcCCCEEEEEcCCCchHHHHHHHHHCCCCCCccEE
Confidence            67999999999999999999988776544333344

>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=98.37  E-value=4.7e-07  Score=80.64  Aligned_cols=37  Identities=22%  Similarity=0.314  Sum_probs=28.7

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEE
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCA  152 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~  152 (315)
                      -+++|+++.|.||+|+|||||+..++.......+.+.
T Consensus        37 ~i~~Gei~~l~G~NGsGKSTLlk~l~Gl~~p~~G~I~   73 (256)
T 1vpl_A           37 EIEEGEIFGLIGPNGAGKTTTLRIISTLIKPSSGIVT   73 (256)
T ss_dssp             EECTTCEEEEECCTTSSHHHHHHHHTTSSCCSEEEEE
T ss_pred             EEcCCcEEEEECCCCCCHHHHHHHHhcCCCCCceEEE
Confidence            3679999999999999999999887765443334443

>1oft_A SULA, hypothetical protein PA3008; bacterial cell division inhibitor, FTSZ, SULA protein; 2.9A {Pseudomonas aeruginosa} SCOP: c.37.1.22

Probab=98.37  E-value=3.4e-06  Score=69.28  Aligned_cols=134  Identities=11%  Similarity=0.069  Sum_probs=88.1

Q ss_pred             CCccccCcHHHHHhhcCCCCCCCcEEEEEe-cCCCChhHHHHHHHHHHHh--cCCeEEEEecCCCCChHHHHHcCCCCCC
Q 021239           98 GPVISTGSLKLDLALGIGGLPKGRIVEIYG-REASGKTTLALHVIKEAQK--LGGYCAYLDVENALDPSLAEAMGIDAEN  174 (315)
Q Consensus        98 ~~~i~TG~~~LD~~l~~GGl~~G~i~~i~G-~~GsGKTtlal~la~~~~~--~g~~v~~i~~E~~~~~~~~~~~g~~~~~  174 (315)
                      ...+|.|.+.+|..+.+||++.|.+++|.. .+|.|-..|+.-++.....  .++.++||..............|+++++
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            456799999999988548999999999985 5777777677666666654  6789999998888888888899999999


Q ss_pred             eEEeCCCCHHHHHHHHHHHHHcCCccEEeehhHhhhccccccCCCccCCChHHHHHHHHHHHHHHHHHHhccCcEEEEE
Q 021239          175 LLIAQPDSAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFL  253 (315)
Q Consensus       175 l~i~~~~~~e~~~~~i~~l~~~~~~~lVVIDsl~~l~~~~~~~~~~~~~~~~~q~r~i~~~l~~L~~~~~~~~i~VI~i  253 (315)
                      +.+.++.+..+.++.+++.++.+.+..||.. +..+      +               ...+|+|..-++.-++..+++
T Consensus       102 ll~v~~~~~~daLwa~EqALrsG~~~aVl~W-l~~l------~---------------~~~~RRLqlAAe~g~~~~fll  158 (161)
T 1oft_A          102 ILLLQAKDNAAALALSCEALRLGRSHTVVSW-LEPL------S---------------RAARKQLSRAAQLGQAQSLNI  158 (161)
T ss_dssp             EEEECCSSTTHHHHHHHHHHHTTCEEEEEEC-CSSC------C---------------HHHHHHHHHHHHHTTCEEEEE
T ss_pred             EEEEECCChHHHHHHHHHHHhcCCccEEEEC-CCcC------C---------------hHHHHHHHHHHHhCCCeEEEe
Confidence            9999999889999999999999999888875 1111      0               123667766666667776654

>4b4t_H 26S protease regulatory subunit 7 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.37  E-value=1.8e-06  Score=82.67  Aligned_cols=123  Identities=11%  Similarity=0.111  Sum_probs=72.7

Q ss_pred             CCCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCChHHHHHcCCCCCCeEEeCCCCHHHHHHHHHHHH
Q 021239          115 GGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLT  194 (315)
Q Consensus       115 GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~~~~~~~g~~~~~l~i~~~~~~e~~~~~i~~l~  194 (315)
                      -|+++..-++|+||||+|||++|..+|.++   +.+.+.++..+-..                ......+..+..+-...
T Consensus       238 ~Gi~pprGILLyGPPGTGKTlLAkAiA~e~---~~~fi~vs~s~L~s----------------k~vGesek~ir~lF~~A  298 (467)
T 4b4t_H          238 LGIDPPKGILLYGPPGTGKTLCARAVANRT---DATFIRVIGSELVQ----------------KYVGEGARMVRELFEMA  298 (467)
T ss_dssp             HTCCCCSEEEECSCTTSSHHHHHHHHHHHH---TCEEEEEEGGGGCC----------------CSSSHHHHHHHHHHHHH
T ss_pred             CCCCCCCceEeeCCCCCcHHHHHHHHHhcc---CCCeEEEEhHHhhc----------------ccCCHHHHHHHHHHHHH
Confidence            378888889999999999999999998877   45666665422111                11122344444444445


Q ss_pred             HcCCccEEeehhHhhhccccccCCCccCCChHHHHHHHHHHHHHHHHHHhccCcEEEEEeccccc
Q 021239          195 KSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVRFS  259 (315)
Q Consensus       195 ~~~~~~lVVIDsl~~l~~~~~~~~~~~~~~~~~q~r~i~~~l~~L~~~~~~~~i~VI~inq~~~~  259 (315)
                      +...+.+|+||.+..+... ...+..+  ......+.+.+.|..+.......++.||.++.--..
T Consensus       299 r~~aP~IIfiDEiDai~~~-R~~~~~~--~~~~~~~~l~~lL~~lDg~~~~~~ViVIaATNrpd~  360 (467)
T 4b4t_H          299 RTKKACIIFFDEIDAVGGA-RFDDGAG--GDNEVQRTMLELITQLDGFDPRGNIKVMFATNRPNT  360 (467)
T ss_dssp             HHTCSEEEEEECCTTTSBC-CSSSSCG--GGGHHHHHHHHHHHHHHSSCCTTTEEEEEECSCTTS
T ss_pred             HhcCCceEeeccccccccc-ccCcCCC--ccHHHHHHHHHHHHHhhccCCCCcEEEEeCCCCccc
Confidence            5678999999999998842 2221111  111223345555555543333446666655443333

>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=98.36  E-value=3.7e-07  Score=85.59  Aligned_cols=35  Identities=20%  Similarity=0.285  Sum_probs=27.7

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeE
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYC  151 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v  151 (315)
                      +++|+++.|.||+|||||||+..++.-.....+.+
T Consensus        34 i~~Ge~~~llGpnGsGKSTLLr~iaGl~~p~~G~I   68 (372)
T 1v43_A           34 IKDGEFLVLLGPSGCGKTTTLRMIAGLEEPTEGRI   68 (372)
T ss_dssp             ECTTCEEEEECCTTSSHHHHHHHHHTSSCCSEEEE
T ss_pred             ECCCCEEEEECCCCChHHHHHHHHHcCCCCCceEE
Confidence            67999999999999999999988776544333444

>1z47_A CYSA, putative ABC-transporter ATP-binding protein; alpha/beta motif, beta sandwich, ligand binding protein; 1.90A {Alicyclobacillus acidocaldarius}

Probab=98.35  E-value=3.8e-07  Score=85.01  Aligned_cols=35  Identities=26%  Similarity=0.378  Sum_probs=27.6

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeE
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYC  151 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v  151 (315)
                      +++|+++.|.||+|||||||+..++.......+.+
T Consensus        38 i~~Ge~~~llGpnGsGKSTLLr~iaGl~~p~~G~I   72 (355)
T 1z47_A           38 IREGEMVGLLGPSGSGKTTILRLIAGLERPTKGDV   72 (355)
T ss_dssp             EETTCEEEEECSTTSSHHHHHHHHHTSSCCSEEEE
T ss_pred             ECCCCEEEEECCCCCcHHHHHHHHhCCCCCCccEE
Confidence            67999999999999999999988775544333343

>2onk_A Molybdate/tungstate ABC transporter, ATP-binding protein; membrane protein; 3.10A {Archaeoglobus fulgidus} SCOP: c.37.1.12

Probab=98.30  E-value=4e-07  Score=80.30  Aligned_cols=36  Identities=11%  Similarity=0.152  Sum_probs=27.8

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEE
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAY  153 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~  153 (315)
                      +++ +++.|.||+|+|||||+..++.......+.+.|
T Consensus        22 i~~-e~~~liG~nGsGKSTLl~~l~Gl~~p~~G~i~~   57 (240)
T 2onk_A           22 MGR-DYCVLLGPTGAGKSVFLELIAGIVKPDRGEVRL   57 (240)
T ss_dssp             ECS-SEEEEECCTTSSHHHHHHHHHTSSCCSEEEEEE
T ss_pred             ECC-EEEEEECCCCCCHHHHHHHHhCCCCCCceEEEE
Confidence            668 999999999999999998877655444444433

>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=98.29  E-value=1.1e-06  Score=78.21  Aligned_cols=38  Identities=26%  Similarity=0.317  Sum_probs=29.2

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEE
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAY  153 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~  153 (315)
                      -+++|+++.|.||+|+|||||+..++.......+.+.|
T Consensus        29 ~i~~Ge~~~liG~nGsGKSTLlk~l~Gl~~p~~G~i~~   66 (257)
T 1g6h_A           29 SVNKGDVTLIIGPNGSGKSTLINVITGFLKADEGRVYF   66 (257)
T ss_dssp             EEETTCEEEEECSTTSSHHHHHHHHTTSSCCSEEEEEE
T ss_pred             EEeCCCEEEEECCCCCCHHHHHHHHhCCCCCCCcEEEE
Confidence            36799999999999999999998877655433444433

>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=98.28  E-value=7e-07  Score=83.02  Aligned_cols=67  Identities=15%  Similarity=0.105  Sum_probs=41.6

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCC-ChHHHHHcCCCCCCeEEeCCCCHH
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENAL-DPSLAEAMGIDAENLLIAQPDSAE  184 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~-~~~~~~~~g~~~~~l~i~~~~~~e  184 (315)
                      +++|+++.|.||+|||||||+..++.-.....+.+ +++...-. .....+.+|+.+++..+....+..
T Consensus        23 i~~Ge~~~llGpnGsGKSTLLr~iaGl~~p~~G~I-~~~g~~i~~~~~~~r~ig~v~Q~~~l~~~ltv~   90 (348)
T 3d31_A           23 VESGEYFVILGPTGAGKTLFLELIAGFHVPDSGRI-LLDGKDVTDLSPEKHDIAFVYQNYSLFPHMNVK   90 (348)
T ss_dssp             ECTTCEEEEECCCTHHHHHHHHHHHTSSCCSEEEE-EETTEECTTSCHHHHTCEEECTTCCCCTTSCHH
T ss_pred             EcCCCEEEEECCCCccHHHHHHHHHcCCCCCCcEE-EECCEECCCCchhhCcEEEEecCcccCCCCCHH
Confidence            67999999999999999999988776554444444 44432211 122345566666654444333333

>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=98.27  E-value=4.2e-07  Score=85.29  Aligned_cols=35  Identities=20%  Similarity=0.258  Sum_probs=27.5

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeE
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYC  151 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v  151 (315)
                      +++|+++.|.||+|||||||+..++.-.....+.+
T Consensus        26 i~~Ge~~~llGpnGsGKSTLLr~iaGl~~p~~G~I   60 (372)
T 1g29_1           26 VKDGEFMILLGPSGCGKTTTLRMIAGLEEPSRGQI   60 (372)
T ss_dssp             EETTCEEEEECSTTSSHHHHHHHHHTSSCCSEEEE
T ss_pred             EcCCCEEEEECCCCcHHHHHHHHHHcCCCCCccEE
Confidence            67999999999999999999988775544333333

>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo sapiens}

Probab=98.26  E-value=6e-06  Score=75.78  Aligned_cols=80  Identities=20%  Similarity=0.253  Sum_probs=53.5

Q ss_pred             CCCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCChHHHHHcCCCCCCeEEeCCCCHHHHHHHHHHHH
Q 021239          115 GGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLT  194 (315)
Q Consensus       115 GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~~~~~~~g~~~~~l~i~~~~~~e~~~~~i~~l~  194 (315)
                      |+..+..-++|+||||+|||++|..++...  .+.++++++...-...                .....+..+..+-...
T Consensus        40 ~~~~~~~~iLL~GppGtGKT~la~ala~~~--~~~~~~~i~~~~l~~~----------------~~g~~~~~~~~lf~~a  101 (322)
T 1xwi_A           40 GKRTPWRGILLFGPPGTGKSYLAKAVATEA--NNSTFFSISSSDLVSK----------------WLGESEKLVKNLFQLA  101 (322)
T ss_dssp             TTCCCCSEEEEESSSSSCHHHHHHHHHHHT--TSCEEEEEECCSSCCS----------------SCCSCHHHHHHHHHHH
T ss_pred             CCCCCCceEEEECCCCccHHHHHHHHHHHc--CCCcEEEEEhHHHHhh----------------hhhHHHHHHHHHHHHH
Confidence            456677889999999999999999998775  2456666765432210                0111233333333344


Q ss_pred             HcCCccEEeehhHhhhcc
Q 021239          195 KSGSIDVIVVDSVAALIP  212 (315)
Q Consensus       195 ~~~~~~lVVIDsl~~l~~  212 (315)
                      ....+.+|+||.+..+.+
T Consensus       102 ~~~~~~vl~iDEid~l~~  119 (322)
T 1xwi_A          102 RENKPSIIFIDEIDSLCG  119 (322)
T ss_dssp             HHTSSEEEEEETTTGGGC
T ss_pred             HhcCCcEEEeecHHHhcc
Confidence            456789999999999874

>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=98.24  E-value=6.4e-06  Score=76.15  Aligned_cols=90  Identities=21%  Similarity=0.262  Sum_probs=59.8

Q ss_pred             CCCcEEEEEecCCCChhHHHHHHHHHHHhc---CCeEEEEecCCCCCh-HHHH----HcCCCCCCeEEeCCCCHHHHHHH
Q 021239          118 PKGRIVEIYGREASGKTTLALHVIKEAQKL---GGYCAYLDVENALDP-SLAE----AMGIDAENLLIAQPDSAENLLSV  189 (315)
Q Consensus       118 ~~G~i~~i~G~~GsGKTtlal~la~~~~~~---g~~v~~i~~E~~~~~-~~~~----~~g~~~~~l~i~~~~~~e~~~~~  189 (315)
                      ..+..++|+||+|+|||+++..++......   +..++|++....... ....    .++....    ....+..++...
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            356789999999999999999998877655   678889986433322 2222    2232211    112245566666


Q ss_pred             HHHHHHcC-CccEEeehhHhhhc
Q 021239          190 VDTLTKSG-SIDVIVVDSVAALI  211 (315)
Q Consensus       190 i~~l~~~~-~~~lVVIDsl~~l~  211 (315)
                      +...+... .+.+|+||.+..+.
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            66555444 38899999999886

>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=98.23  E-value=2.2e-05  Score=72.81  Aligned_cols=85  Identities=15%  Similarity=0.158  Sum_probs=58.8

Q ss_pred             EEEEEecCCCChhHHHHHHHHHHHhc-CCeEEEEecCCCCCh-----HHHHHcCCCCCCeEEeCCCCHHHHHHHHHHHHH
Q 021239          122 IVEIYGREASGKTTLALHVIKEAQKL-GGYCAYLDVENALDP-----SLAEAMGIDAENLLIAQPDSAENLLSVVDTLTK  195 (315)
Q Consensus       122 i~~i~G~~GsGKTtlal~la~~~~~~-g~~v~~i~~E~~~~~-----~~~~~~g~~~~~l~i~~~~~~e~~~~~i~~l~~  195 (315)
                      .++|+||||+|||+++..++...... +..++|++.......     .....+|.....    ...+..++...+...+.
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            89999999999999999998887665 578899986554432     234445543211    12245666666655554


Q ss_pred             c-CCccEEeehhHhhh
Q 021239          196 S-GSIDVIVVDSVAAL  210 (315)
Q Consensus       196 ~-~~~~lVVIDsl~~l  210 (315)
                      . .++.+|+||.+..+
T Consensus       122 ~~~~~~vlilDE~~~l  137 (389)
T 1fnn_A          122 ERDLYMFLVLDDAFNL  137 (389)
T ss_dssp             HTTCCEEEEEETGGGS
T ss_pred             hcCCeEEEEEECcccc
Confidence            3 45889999998876

>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=98.23  E-value=9.4e-06  Score=77.44  Aligned_cols=100  Identities=19%  Similarity=0.204  Sum_probs=63.8

Q ss_pred             HHHHHhhcCCCC-------CCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCCh------HHHHHcCCCC
Q 021239          106 LKLDLALGIGGL-------PKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP------SLAEAMGIDA  172 (315)
Q Consensus       106 ~~LD~~l~~GGl-------~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~------~~~~~~g~~~  172 (315)
                      .+|-.+|+ ++-       .++.++.++|++|+||||++..++......|.+|++++.+.....      .+++..|++.
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            45566666 432       247899999999999999999999999999999999998754332      1233344431


Q ss_pred             CCeEEeCCCCHHHHHHHHHHHHHcCCccEEeehhHh
Q 021239          173 ENLLIAQPDSAENLLSVVDTLTKSGSIDVIVVDSVA  208 (315)
Q Consensus       173 ~~l~i~~~~~~e~~~~~i~~l~~~~~~~lVVIDsl~  208 (315)
                      ..  .....+...+...........++++|+||...
T Consensus       156 ~~--~~~~~dp~~i~~~al~~a~~~~~DvvIIDTaG  189 (433)
T 3kl4_A          156 YG--EPNNQNPIEIAKKGVDIFVKNKMDIIIVDTAG  189 (433)
T ss_dssp             EC--CTTCSCHHHHHHHHHHHTTTTTCSEEEEEECC
T ss_pred             ee--ccccCCHHHHHHHHHHHHHhcCCCEEEEECCC
Confidence            11  11112233333222222333578999999664

>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=98.22  E-value=3.2e-06  Score=71.95  Aligned_cols=110  Identities=18%  Similarity=0.200  Sum_probs=69.1

Q ss_pred             CCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCC---hHHHHHcCCCCCCeEEeCCCCHHHHHHHHHHHH
Q 021239          118 PKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALD---PSLAEAMGIDAENLLIAQPDSAENLLSVVDTLT  194 (315)
Q Consensus       118 ~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~---~~~~~~~g~~~~~l~i~~~~~~e~~~~~i~~l~  194 (315)
                      .+|.+..++|+.|+||||.++.++.++..+|.+|+++.+.-...   .....++|+......+...   +++++.+.   
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            46889999999999999999999999999999999986322111   1122333433333333222   23333221   


Q ss_pred             HcCCccEEeehhHhhhccccccCCCccCCChHHHHHHHHHHHHHHHHHHhccCcEEEEEeccc
Q 021239          195 KSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVR  257 (315)
Q Consensus       195 ~~~~~~lVVIDsl~~l~~~~~~~~~~~~~~~~~q~r~i~~~l~~L~~~~~~~~i~VI~inq~~  257 (315)
                        ...++|+||..+.+.+              .    ....++.+.   .. +++||+.-...
T Consensus        80 --~~~dvViIDEaqfl~~--------------~----~v~~l~~l~---~~-~~~Vi~~Gl~~  118 (191)
T 1xx6_A           80 --EDTEVIAIDEVQFFDD--------------E----IVEIVNKIA---ES-GRRVICAGLDM  118 (191)
T ss_dssp             --TTCSEEEECSGGGSCT--------------H----HHHHHHHHH---HT-TCEEEEEECSB
T ss_pred             --ccCCEEEEECCCCCCH--------------H----HHHHHHHHH---hC-CCEEEEEeccc
Confidence              2589999999887532              1    223455543   44 99999985543

>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=98.22  E-value=1.3e-05  Score=73.14  Aligned_cols=88  Identities=15%  Similarity=0.190  Sum_probs=58.0

Q ss_pred             CCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCCh------HHHHHcCCCCCCeEEeCCCCHHHH-HHHH
Q 021239          118 PKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP------SLAEAMGIDAENLLIAQPDSAENL-LSVV  190 (315)
Q Consensus       118 ~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~------~~~~~~g~~~~~l~i~~~~~~e~~-~~~i  190 (315)
                      .+|.++.|.|++|+||||++..+|......|++|++++.+.....      .+++..|++.  +..........+ ...+
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            468899999999999999999999999888999999998754322      2344555431  000011122222 2233


Q ss_pred             HHHHHcCCccEEeehhHh
Q 021239          191 DTLTKSGSIDVIVVDSVA  208 (315)
Q Consensus       191 ~~l~~~~~~~lVVIDsl~  208 (315)
                      ... ...++++|+||...
T Consensus       180 ~~a-~~~~~dvvIiDtpg  196 (306)
T 1vma_A          180 AHA-LARNKDVVIIDTAG  196 (306)
T ss_dssp             HHH-HHTTCSEEEEEECC
T ss_pred             HHH-HhcCCCEEEEECCC
Confidence            332 23578999999765

>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=98.22  E-value=1.4e-06  Score=77.21  Aligned_cols=35  Identities=23%  Similarity=0.366  Sum_probs=28.3

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEE
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCA  152 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~  152 (315)
                      +++|+++.|.||+|+|||||+..++...... +.+.
T Consensus        23 i~~Ge~~~liG~NGsGKSTLlk~l~Gl~~p~-G~i~   57 (249)
T 2qi9_C           23 VRAGEILHLVGPNGAGKSTLLARMAGMTSGK-GSIQ   57 (249)
T ss_dssp             EETTCEEEEECCTTSSHHHHHHHHTTSSCCE-EEEE
T ss_pred             EcCCCEEEEECCCCCcHHHHHHHHhCCCCCC-eEEE
Confidence            6799999999999999999998877655444 4443

>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=98.20  E-value=2.7e-06  Score=73.46  Aligned_cols=112  Identities=13%  Similarity=0.159  Sum_probs=68.5

Q ss_pred             CCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCC---hHHHHHcCCCCCCeEEeCCCCHHHHHHHHHHHH
Q 021239          118 PKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALD---PSLAEAMGIDAENLLIAQPDSAENLLSVVDTLT  194 (315)
Q Consensus       118 ~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~---~~~~~~~g~~~~~l~i~~~~~~e~~~~~i~~l~  194 (315)
                      .+|.+.+++|+.|+||||.+++.+.++..+|.+|+++.+.-...   .....++|+....+.+..   .+++++.+.   
T Consensus        26 ~~G~l~vitG~MgsGKTT~lL~~a~r~~~~g~kVli~k~~~d~R~ge~~i~s~~g~~~~a~~~~~---~~~~~~~~~---   99 (214)
T 2j9r_A           26 QNGWIEVICGSMFSGKSEELIRRVRRTQFAKQHAIVFKPCIDNRYSEEDVVSHNGLKVKAVPVSA---SKDIFKHIT---   99 (214)
T ss_dssp             CSCEEEEEECSTTSCHHHHHHHHHHHHHHTTCCEEEEECC-----------------CCEEECSS---GGGGGGGCC---
T ss_pred             CCCEEEEEECCCCCcHHHHHHHHHHHHHHCCCEEEEEEeccCCcchHHHHHhhcCCeeEEeecCC---HHHHHHHHh---
Confidence            56899999999999999999999999999999999987543221   134555566544433322   122222211   


Q ss_pred             HcCCccEEeehhHhhhccccccCCCccCCChHHHHHHHHHHHHHHHHHHhccCcEEEEEeccccc
Q 021239          195 KSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVRFS  259 (315)
Q Consensus       195 ~~~~~~lVVIDsl~~l~~~~~~~~~~~~~~~~~q~r~i~~~l~~L~~~~~~~~i~VI~inq~~~~  259 (315)
                        ..+++|+||..+.+..              .    ..+.++.++   . .++.||+.-...+-
T Consensus       100 --~~~dvViIDEaQF~~~--------------~----~V~~l~~l~---~-~~~~Vi~~Gl~~DF  140 (214)
T 2j9r_A          100 --EEMDVIAIDEVQFFDG--------------D----IVEVVQVLA---N-RGYRVIVAGLDQDF  140 (214)
T ss_dssp             --SSCCEEEECCGGGSCT--------------T----HHHHHHHHH---H-TTCEEEEEECSBCT
T ss_pred             --cCCCEEEEECcccCCH--------------H----HHHHHHHHh---h-CCCEEEEEeccccc
Confidence              2589999999998642              0    124455553   3 49999988775443

>1b0u_A Histidine permease; ABC transporter, transport protein; HET: ATP; 1.50A {Salmonella typhimurium} SCOP: c.37.1.12

Probab=98.19  E-value=2.5e-06  Score=76.11  Aligned_cols=38  Identities=21%  Similarity=0.234  Sum_probs=29.2

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEE
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAY  153 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~  153 (315)
                      -+++|+++.|.||+|+|||||+..++.......+.+.|
T Consensus        28 ~i~~Ge~~~liG~nGsGKSTLlk~l~Gl~~p~~G~i~~   65 (262)
T 1b0u_A           28 QARAGDVISIIGSSGSGKSTFLRCINFLEKPSEGAIIV   65 (262)
T ss_dssp             EECTTCEEEEECCTTSSHHHHHHHHTTSSCCSEEEEEE
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhcCCCCCCcEEEE
Confidence            36799999999999999999998877654433444433

>2nq2_C Hypothetical ABC transporter ATP-binding protein HI1470; putative iron chelatin ABC transporter, nucleotide binding domain; 2.40A {Haemophilus influenzae}

Probab=98.18  E-value=1.1e-06  Score=77.98  Aligned_cols=29  Identities=31%  Similarity=0.499  Sum_probs=25.4

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHH
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQ  145 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~  145 (315)
                      +++|+++.|.||+|+|||||+..++....
T Consensus        28 i~~Ge~~~l~G~nGsGKSTLl~~l~Gl~~   56 (253)
T 2nq2_C           28 LNKGDILAVLGQNGCGKSTLLDLLLGIHR   56 (253)
T ss_dssp             EETTCEEEEECCSSSSHHHHHHHHTTSSC
T ss_pred             ECCCCEEEEECCCCCCHHHHHHHHhCCCC
Confidence            67999999999999999999988776543

>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=98.18  E-value=3.2e-07  Score=85.47  Aligned_cols=29  Identities=24%  Similarity=0.310  Sum_probs=25.3

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHH
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQ  145 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~  145 (315)
                      +++|+++.|.||+|||||||+..++.-..
T Consensus        28 i~~Ge~~~llGpnGsGKSTLLr~iaGl~~   56 (353)
T 1oxx_K           28 IENGERFGILGPSGAGKTTFMRIIAGLDV   56 (353)
T ss_dssp             ECTTCEEEEECSCHHHHHHHHHHHHTSSC
T ss_pred             ECCCCEEEEECCCCCcHHHHHHHHhCCCC
Confidence            67999999999999999999988776543

>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=98.15  E-value=3e-06  Score=74.63  Aligned_cols=36  Identities=28%  Similarity=0.436  Sum_probs=28.1

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEE
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCA  152 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~  152 (315)
                      +++|+++.|.||+|+|||||+..++.......+.+.
T Consensus        29 i~~Ge~~~l~G~nGsGKSTLl~~l~Gl~~p~~G~i~   64 (240)
T 1ji0_A           29 VPRGQIVTLIGANGAGKTTTLSAIAGLVRAQKGKII   64 (240)
T ss_dssp             EETTCEEEEECSTTSSHHHHHHHHTTSSCCSEEEEE
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhCCCCCCCceEE
Confidence            679999999999999999999887765433334443

>2v1u_A Cell division control protein 6 homolog; DNA replication, nucleotide-binding, replication, archaea; HET: ADP; 3.10A {Aeropyrum pernix}

Probab=98.14  E-value=1.6e-05  Score=73.53  Aligned_cols=90  Identities=22%  Similarity=0.257  Sum_probs=61.0

Q ss_pred             CCCcEEEEEecCCCChhHHHHHHHHHHHhc------CCeEEEEecCCCCCh-----HHHHHcCCCCCCeEEeCCCCHHHH
Q 021239          118 PKGRIVEIYGREASGKTTLALHVIKEAQKL------GGYCAYLDVENALDP-----SLAEAMGIDAENLLIAQPDSAENL  186 (315)
Q Consensus       118 ~~G~i~~i~G~~GsGKTtlal~la~~~~~~------g~~v~~i~~E~~~~~-----~~~~~~g~~~~~l~i~~~~~~e~~  186 (315)
                      ..+..++|+||||+|||+++..++......      +..++|++.......     .....++....    ....+..++
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            346689999999999999999998877654      667888887655443     24455554321    112235565


Q ss_pred             HHHHHHHHHc-CCccEEeehhHhhhc
Q 021239          187 LSVVDTLTKS-GSIDVIVVDSVAALI  211 (315)
Q Consensus       187 ~~~i~~l~~~-~~~~lVVIDsl~~l~  211 (315)
                      ...+...+.. .++.+|+||.+..+.
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            6655555543 347799999999886

>2ihy_A ABC transporter, ATP-binding protein; ATPase, ABC cassette, hydrolase; HET: MSE; 1.90A {Staphylococcus aureus}

Probab=98.13  E-value=1.1e-06  Score=79.19  Aligned_cols=36  Identities=28%  Similarity=0.315  Sum_probs=28.3

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEE
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCA  152 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~  152 (315)
                      +++|+++.|.||+|+|||||+..++.......+.+.
T Consensus        44 i~~Ge~~~liG~NGsGKSTLlk~l~Gl~~p~~G~I~   79 (279)
T 2ihy_A           44 IAKGDKWILYGLNGAGKTTLLNILNAYEPATSGTVN   79 (279)
T ss_dssp             EETTCEEEEECCTTSSHHHHHHHHTTSSCCSEEEEE
T ss_pred             EcCCCEEEEECCCCCcHHHHHHHHhCCCCCCCeEEE
Confidence            679999999999999999999887665443344443

>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=98.13  E-value=6.1e-06  Score=71.17  Aligned_cols=50  Identities=22%  Similarity=0.246  Sum_probs=40.6

Q ss_pred             HHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCC
Q 021239          106 LKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVEN  158 (315)
Q Consensus       106 ~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~  158 (315)
                      ..|..+.. ++  .+..++|+||||+|||+++..++......+.++.|++...
T Consensus        41 ~~l~~~~~-~~--~~~~~ll~G~~G~GKT~la~~l~~~~~~~~~~~~~~~~~~   90 (242)
T 3bos_A           41 GALKSAAS-GD--GVQAIYLWGPVKSGRTHLIHAACARANELERRSFYIPLGI   90 (242)
T ss_dssp             HHHHHHHH-TC--SCSEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEEGGG
T ss_pred             HHHHHHHh-CC--CCCeEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEEHHH
Confidence            44555555 32  6788999999999999999999999888888999998644

>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=98.12  E-value=2e-05  Score=71.87  Aligned_cols=40  Identities=30%  Similarity=0.300  Sum_probs=34.9

Q ss_pred             CCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecC
Q 021239          118 PKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVE  157 (315)
Q Consensus       118 ~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E  157 (315)
                      ..+..++|+||||+|||+++..++......+.+++|++.+
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            3567899999999999999999998887778899999864

>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=98.12  E-value=1.5e-05  Score=76.12  Aligned_cols=89  Identities=25%  Similarity=0.209  Sum_probs=59.0

Q ss_pred             CCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCCh------HHHHHcCCCCCCeEEeCCCCHHHHHHHHHH
Q 021239          119 KGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP------SLAEAMGIDAENLLIAQPDSAENLLSVVDT  192 (315)
Q Consensus       119 ~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~------~~~~~~g~~~~~l~i~~~~~~e~~~~~i~~  192 (315)
                      ++.++.++|++|+||||++..+|..+...|.+|++++.+.....      .+++..|++.-.  .....+..++....-.
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            36799999999999999999999999999999999998765543      233444433110  0111233333322222


Q ss_pred             HHHcCCccEEeehhHhh
Q 021239          193 LTKSGSIDVIVVDSVAA  209 (315)
Q Consensus       193 l~~~~~~~lVVIDsl~~  209 (315)
                      .....++++|+||....
T Consensus       177 ~a~~~~~DvVIIDTaGr  193 (443)
T 3dm5_A          177 YFKSKGVDIIIVDTAGR  193 (443)
T ss_dssp             HHHHTTCSEEEEECCCC
T ss_pred             HHHhCCCCEEEEECCCc
Confidence            33445799999997653

>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=98.11  E-value=2.1e-05  Score=68.65  Aligned_cols=109  Identities=16%  Similarity=0.117  Sum_probs=69.8

Q ss_pred             CCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCC--hHHHHHcCCCCCCeEEeCCCCHHHHHHHHHHHHHc
Q 021239          119 KGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALD--PSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTKS  196 (315)
Q Consensus       119 ~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~--~~~~~~~g~~~~~l~i~~~~~~e~~~~~i~~l~~~  196 (315)
                      .|.+..++|+.|+||||-+++.+.++..+|.+|+++-+.-...  .....++|+....+.+...   +++++.+      
T Consensus        18 ~g~l~v~~G~MgsGKTT~lL~~~~r~~~~g~kvli~kp~~D~Ryg~~i~sr~G~~~~a~~i~~~---~di~~~~------   88 (234)
T 2orv_A           18 RGQIQVILGPMFSGKSTELMRRVRRFQIAQYKCLVIKYAKDTRYSSSFCTHDRNTMEALPACLL---RDVAQEA------   88 (234)
T ss_dssp             CCEEEEEECCTTSCHHHHHHHHHHHHHTTTCCEEEEEETTCCCC-----------CEEEEESSG---GGGHHHH------
T ss_pred             ceEEEEEECCCCCcHHHHHHHHHHHHHHCCCeEEEEeecCCccchHHHHhhcCCeeEEEecCCH---HHHHHHh------
Confidence            5899999999999999999999999999999999987543322  2344555665544443322   3333332      


Q ss_pred             CCccEEeehhHhhhccccccCCCccCCChHHHHHHHHHHHHHHHHHHhccCcEEEEEeccccc
Q 021239          197 GSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVRFS  259 (315)
Q Consensus       197 ~~~~lVVIDsl~~l~~~~~~~~~~~~~~~~~q~r~i~~~l~~L~~~~~~~~i~VI~inq~~~~  259 (315)
                      .+.++|+||..+.+..                   +.+.++.+    .+.|+.||+.-.-.+-
T Consensus        89 ~~~dvViIDEaQF~~~-------------------v~el~~~l----~~~gi~VI~~GL~~DF  128 (234)
T 2orv_A           89 LGVAVIGIDEGQFFPD-------------------IVEFCEAM----ANAGKTVIVAALDGTF  128 (234)
T ss_dssp             TTCSEEEESSGGGCTT-------------------HHHHHHHH----HHTTCEEEEECCSBCT
T ss_pred             ccCCEEEEEchhhhhh-------------------HHHHHHHH----HhCCCEEEEEeccccc
Confidence            4689999999997641                   22333333    4579999988776543

>2ixe_A Antigen peptide transporter 1; ABC ATPase, hydrolase; HET: ATP; 2.0A {Rattus norvegicus} PDB: 2ixg_A* 2ixf_A* 1jj7_A*

Probab=98.08  E-value=4.5e-06  Score=74.85  Aligned_cols=37  Identities=30%  Similarity=0.397  Sum_probs=29.0

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEE
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCA  152 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~  152 (315)
                      -+++|+++.|.||+|+|||||+..++.......+.+.
T Consensus        41 ~i~~Ge~~~i~G~nGsGKSTLlk~l~Gl~~p~~G~I~   77 (271)
T 2ixe_A           41 TLYPGKVTALVGPNGSGKSTVAALLQNLYQPTGGKVL   77 (271)
T ss_dssp             EECTTCEEEEECSTTSSHHHHHHHHTTSSCCSEEEEE
T ss_pred             EECCCCEEEEECCCCCCHHHHHHHHhcCCCCCCCEEE
Confidence            3679999999999999999999887765544344443

>1jbk_A CLPB protein; beta barrel, chaperone; 1.80A {Escherichia coli} SCOP: c.37.1.20

Probab=98.07  E-value=3e-05  Score=63.88  Aligned_cols=77  Identities=17%  Similarity=0.249  Sum_probs=49.3

Q ss_pred             CCcEEEEEecCCCChhHHHHHHHHHHHh-------cCCeEEEEecCCCCChHHHHHcCCCCCCeEEeCCCCHH----HHH
Q 021239          119 KGRIVEIYGREASGKTTLALHVIKEAQK-------LGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAE----NLL  187 (315)
Q Consensus       119 ~G~i~~i~G~~GsGKTtlal~la~~~~~-------~g~~v~~i~~E~~~~~~~~~~~g~~~~~l~i~~~~~~e----~~~  187 (315)
                      .+..++|+|+||+|||+++..++.....       .+.++++++......       +          .....    .+.
T Consensus        42 ~~~~~ll~G~~G~GKT~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-------~----------~~~~~~~~~~~~  104 (195)
T 1jbk_A           42 TKNNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLALDMGALVA-------G----------AKYRGEFEERLK  104 (195)
T ss_dssp             SSCEEEEECCTTSCHHHHHHHHHHHHHHTCSCGGGTTCEEEEECHHHHHT-------T----------TCSHHHHHHHHH
T ss_pred             CCCceEEECCCCCCHHHHHHHHHHHHHhCCCchhhcCCcEEEeeHHHHhc-------c----------CCccccHHHHHH
Confidence            3567899999999999999999888765       356777776421100       0          01111    222


Q ss_pred             HHHHHHHHcCCccEEeehhHhhhcc
Q 021239          188 SVVDTLTKSGSIDVIVVDSVAALIP  212 (315)
Q Consensus       188 ~~i~~l~~~~~~~lVVIDsl~~l~~  212 (315)
                      ..+..+....++.+++||.+..+..
T Consensus       105 ~~~~~~~~~~~~~vl~iDe~~~l~~  129 (195)
T 1jbk_A          105 GVLNDLAKQEGNVILFIDELHTMVG  129 (195)
T ss_dssp             HHHHHHHHSTTTEEEEEETGGGGTT
T ss_pred             HHHHHHhhcCCCeEEEEeCHHHHhc
Confidence            2333333445678999999998863

>2r8r_A Sensor protein; KDPD, PFAM02702, MCSG, structural genomics, protein structure initiative, midwest center for structural genomics, kinase; 2.30A {Pseudomonas syringae PV}

Probab=98.07  E-value=1e-05  Score=70.49  Aligned_cols=84  Identities=19%  Similarity=0.160  Sum_probs=56.0

Q ss_pred             CCcE-EEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCChHHHHH-cCCCCC--CeEEe-----CCCCHHHHHHH
Q 021239          119 KGRI-VEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEA-MGIDAE--NLLIA-----QPDSAENLLSV  189 (315)
Q Consensus       119 ~G~i-~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~~~~~~-~g~~~~--~l~i~-----~~~~~e~~~~~  189 (315)
                      +|.+ +.+.|+||+||||++++++..++..|.+|++++.+.......... .+....  .....     .....+..+  
T Consensus         4 ~g~l~I~~~~kgGvGKTt~a~~la~~l~~~G~~V~v~d~D~q~~~~~~al~~gl~~~~~~~~~~~~~~~~e~~l~~~L--   81 (228)
T 2r8r_A            4 RGRLKVFLGAAPGVGKTYAMLQAAHAQLRQGVRVMAGVVETHGRAETEALLNGLPQQPLLRTEYRGMTLEEMDLDALL--   81 (228)
T ss_dssp             CCCEEEEEESSTTSSHHHHHHHHHHHHHHTTCCEEEEECCCTTCHHHHHHHTTSCBCCCEEEEETTEEEEECCHHHHH--
T ss_pred             CceEEEEEECCCCCcHHHHHHHHHHHHHHCCCCEEEEEeCCCCChhHHHHhcCccccCcceeecCCcccccccHHHHH--
Confidence            4565 788999999999999999999999999999999987655543222 233221  11111     112233222  


Q ss_pred             HHHHHHcCCccEEeehhHhhh
Q 021239          190 VDTLTKSGSIDVIVVDSVAAL  210 (315)
Q Consensus       190 i~~l~~~~~~~lVVIDsl~~l  210 (315)
                       .     ..++++|||.+...
T Consensus        82 -~-----~~pdlvIVDElG~~   96 (228)
T 2r8r_A           82 -K-----AAPSLVLVDELAHT   96 (228)
T ss_dssp             -H-----HCCSEEEESCTTCB
T ss_pred             -h-----cCCCEEEEeCCCCC
Confidence             1     26899999998854

>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=98.07  E-value=3.6e-06  Score=74.43  Aligned_cols=37  Identities=27%  Similarity=0.393  Sum_probs=28.9

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEE
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAY  153 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~  153 (315)
                      +++|+++.|.||+|+|||||+..++.......+.+.|
T Consensus        32 i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~p~~G~I~i   68 (247)
T 2ff7_A           32 IKQGEVIGIVGRSGSGKSTLTKLIQRFYIPENGQVLI   68 (247)
T ss_dssp             EETTCEEEEECSTTSSHHHHHHHHTTSSCCSEEEEEE
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhcCCCCCCcEEEE
Confidence            6799999999999999999998877655444444433

>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A {Escherichia coli} SCOP: c.37.1.20

Probab=98.06  E-value=3.5e-05  Score=67.86  Aligned_cols=72  Identities=19%  Similarity=0.184  Sum_probs=45.1

Q ss_pred             EEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCChHHHHHcCCCCCCeEEeCCCCHHHHHHHHHHHHHcCCccE
Q 021239          122 IVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTKSGSIDV  201 (315)
Q Consensus       122 i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~~~~~~~g~~~~~l~i~~~~~~e~~~~~i~~l~~~~~~~l  201 (315)
                      -++|+||||+|||+++..++...   +.++++++...-...             .+  ......+...+. ......+.+
T Consensus        47 ~vll~G~~GtGKT~la~~la~~~---~~~~~~i~~~~~~~~-------------~~--~~~~~~~~~~~~-~a~~~~~~i  107 (257)
T 1lv7_A           47 GVLMVGPPGTGKTLLAKAIAGEA---KVPFFTISGSDFVEM-------------FV--GVGASRVRDMFE-QAKKAAPCI  107 (257)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHH---TCCEEEECSCSSTTS-------------CC--CCCHHHHHHHHH-HHHTTCSEE
T ss_pred             eEEEECcCCCCHHHHHHHHHHHc---CCCEEEEeHHHHHHH-------------hh--hhhHHHHHHHHH-HHHHcCCee
Confidence            38999999999999999988765   446666764332110             00  111222222222 233456789


Q ss_pred             EeehhHhhhcc
Q 021239          202 IVVDSVAALIP  212 (315)
Q Consensus       202 VVIDsl~~l~~  212 (315)
                      ++||.+..+..
T Consensus       108 l~iDeid~l~~  118 (257)
T 1lv7_A          108 IFIDEIDAVGR  118 (257)
T ss_dssp             EEETTHHHHTC
T ss_pred             ehhhhhhhhcc
Confidence            99999988874

>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=98.03  E-value=9.9e-06  Score=82.83  Aligned_cols=121  Identities=21%  Similarity=0.274  Sum_probs=72.5

Q ss_pred             CCCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCChHHHHHcCCCCCCeEEeCCCCHHHHHHHHHHHH
Q 021239          115 GGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLT  194 (315)
Q Consensus       115 GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~~~~~~~g~~~~~l~i~~~~~~e~~~~~i~~l~  194 (315)
                      -|+.+..-++|+||||+|||+++..+|.++   +...++++..+-.        +        ......+..+..+-+..
T Consensus       233 ~g~~~p~GILL~GPPGTGKT~LAraiA~el---g~~~~~v~~~~l~--------s--------k~~gese~~lr~lF~~A  293 (806)
T 3cf2_A          233 IGVKPPRGILLYGPPGTGKTLIARAVANET---GAFFFLINGPEIM--------S--------KLAGESESNLRKAFEEA  293 (806)
T ss_dssp             CCCCCCCEEEEECCTTSCHHHHHHHHHTTT---TCEEEEEEHHHHH--------S--------SCTTHHHHHHHHHHHHH
T ss_pred             cCCCCCCeEEEECCCCCCHHHHHHHHHHHh---CCeEEEEEhHHhh--------c--------ccchHHHHHHHHHHHHH
Confidence            477777889999999999999999887654   5566666632100        0        00112233333333344


Q ss_pred             HcCCccEEeehhHhhhccccccCCCccCCChHHHHHHHHHHHHHHHHHHhccCcEEEEEecccccc
Q 021239          195 KSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVRFSA  260 (315)
Q Consensus       195 ~~~~~~lVVIDsl~~l~~~~~~~~~~~~~~~~~q~r~i~~~l~~L~~~~~~~~i~VI~inq~~~~~  260 (315)
                      +...+.+|+||.+..+.+... .+ .++    ...+.+.+++..+..+....++.||.++.--..+
T Consensus       294 ~~~~PsIIfIDEiDal~~~r~-~~-~~~----~~~riv~~LL~~mdg~~~~~~V~VIaaTN~~d~L  353 (806)
T 3cf2_A          294 EKNAPAIIFIDELDAIAPKRE-KT-HGE----VERRIVSQLLTLMDGLKQRAHVIVMAATNRPNSI  353 (806)
T ss_dssp             TTSCSEEEEEESGGGTCCTTT-TC-CCT----THHHHHHHHHTHHHHCCGGGCEEEEEECSSTTTS
T ss_pred             HHcCCeEEEEehhcccccccC-CC-CCh----HHHHHHHHHHHHHhcccccCCEEEEEecCChhhc
Confidence            567899999999999985322 11 111    2233455555555544455677777665544444

>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=98.02  E-value=1.4e-05  Score=73.12  Aligned_cols=79  Identities=22%  Similarity=0.280  Sum_probs=52.0

Q ss_pred             CCCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCChHHHHHcCCCCCCeEEeCCCCHHHHHHHHHHHH
Q 021239          115 GGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLT  194 (315)
Q Consensus       115 GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~~~~~~~g~~~~~l~i~~~~~~e~~~~~i~~l~  194 (315)
                      ++..+..-++|+||||+|||++|..++...   +.++++++...-..     .           .....+..+..+-...
T Consensus        46 ~~~~~~~~vLl~GppGtGKT~la~aia~~~---~~~~~~v~~~~l~~-----~-----------~~g~~~~~~~~~f~~a  106 (322)
T 3eie_A           46 GNRKPTSGILLYGPPGTGKSYLAKAVATEA---NSTFFSVSSSDLVS-----K-----------WMGESEKLVKQLFAMA  106 (322)
T ss_dssp             TTCCCCCEEEEECSSSSCHHHHHHHHHHHH---TCEEEEEEHHHHHT-----T-----------TGGGHHHHHHHHHHHH
T ss_pred             cCCCCCCeEEEECCCCCcHHHHHHHHHHHH---CCCEEEEchHHHhh-----c-----------ccchHHHHHHHHHHHH
Confidence            344556779999999999999999997765   56677776421100     0           0012233343343444


Q ss_pred             HcCCccEEeehhHhhhcc
Q 021239          195 KSGSIDVIVVDSVAALIP  212 (315)
Q Consensus       195 ~~~~~~lVVIDsl~~l~~  212 (315)
                      ....+.+|+||.+..+.+
T Consensus       107 ~~~~~~vl~iDEid~l~~  124 (322)
T 3eie_A          107 RENKPSIIFIDQVDALTG  124 (322)
T ss_dssp             HHTSSEEEEEECGGGGSC
T ss_pred             HhcCCeEEEechhhhhhc
Confidence            556889999999999874

>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=98.01  E-value=3.6e-05  Score=74.38  Aligned_cols=42  Identities=14%  Similarity=0.117  Sum_probs=36.7

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCC
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVEN  158 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~  158 (315)
                      +.+|.++.|.|++|+||||++..++......+++|.+.+.+.
T Consensus       290 i~~GeVI~LVGpNGSGKTTLl~~LAgll~~~~G~V~l~g~D~  331 (503)
T 2yhs_A          290 GKAPFVILMVGVNGVGKTTTIGKLARQFEQQGKSVMLAAGDT  331 (503)
T ss_dssp             SCTTEEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEECCCT
T ss_pred             ccCCeEEEEECCCcccHHHHHHHHHHHhhhcCCeEEEecCcc
Confidence            568999999999999999999999988887888888876654

>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=98.01  E-value=2.7e-05  Score=70.54  Aligned_cols=122  Identities=16%  Similarity=0.168  Sum_probs=66.6

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCChHHHHHcCCCCCCeEEeCCCCHHHHHHHHHHHHH
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTK  195 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~~~~~~~g~~~~~l~i~~~~~~e~~~~~i~~l~~  195 (315)
                      |++++..++|+||||+|||++|..++...   +.+.++++...    ....-+|...        .....++.    ...
T Consensus        45 ~~~~~~~vLL~Gp~GtGKT~la~ala~~~---~~~~i~v~~~~----l~~~~~g~~~--------~~~~~~f~----~a~  105 (301)
T 3cf0_A           45 GMTPSKGVLFYGPPGCGKTLLAKAIANEC---QANFISIKGPE----LLTMWFGESE--------ANVREIFD----KAR  105 (301)
T ss_dssp             CCCCCSEEEEECSSSSSHHHHHHHHHHHT---TCEEEEECHHH----HHHHHHTTCT--------THHHHHHH----HHH
T ss_pred             CCCCCceEEEECCCCcCHHHHHHHHHHHh---CCCEEEEEhHH----HHhhhcCchH--------HHHHHHHH----HHH
Confidence            67888999999999999999999888765   45565555311    1111122110        01122222    223


Q ss_pred             cCCccEEeehhHhhhccccccC-CCccCCChHHHHHHHHHHHHHHHHHHhccCcEEEEEecccccc
Q 021239          196 SGSIDVIVVDSVAALIPKCEIG-VPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVRFSA  260 (315)
Q Consensus       196 ~~~~~lVVIDsl~~l~~~~~~~-~~~~~~~~~~q~r~i~~~l~~L~~~~~~~~i~VI~inq~~~~~  260 (315)
                      ...+.+++||.+..+.+..... ...+...    .+.+.+.+..+..+....++.||.+++....+
T Consensus       106 ~~~p~il~iDEid~l~~~~~~~~~~~~~~~----~~~~~~lL~~l~~~~~~~~v~vi~atn~~~~l  167 (301)
T 3cf0_A          106 QAAPCVLFFDELDSIAKARGGNIGDGGGAA----DRVINQILTEMDGMSTKKNVFIIGATNRPDII  167 (301)
T ss_dssp             HTCSEEEEECSTTHHHHHHTTTTCCSSCSC----CHHHHHHHHHHHSSCTTSSEEEEEEESCGGGS
T ss_pred             hcCCeEEEEEChHHHhhccCCCcCCcchHH----HHHHHHHHHHhhcccCCCCEEEEEecCCcccc
Confidence            3578999999999887421111 1111111    11223444444322234577788777655444

>1w4r_A Thymidine kinase; type II, human, cytosolic, phosphorylation, transferase; HET: TTP; 1.83A {Homo sapiens} PDB: 1xbt_A* 2wvj_A* 2j87_A*

Probab=98.01  E-value=1.2e-05  Score=68.30  Aligned_cols=116  Identities=16%  Similarity=0.155  Sum_probs=73.9

Q ss_pred             CCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCC--hHHHHHcCCCCCCeEEeCCCCHHHHHHHHHHHHH
Q 021239          118 PKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALD--PSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTK  195 (315)
Q Consensus       118 ~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~--~~~~~~~g~~~~~l~i~~~~~~e~~~~~i~~l~~  195 (315)
                      ..|.+..|+|+.|+||||-+++.+.+...++.+|+|+..+-...  .....++|...+.+.+   .+.+++.+..     
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            46899999999999999999999999999999999998653322  1122233322222222   2233444321     


Q ss_pred             cCCccEEeehhHhhhccccccCCCccCCChHHHHHHHHHHHHHHHHHHhccCcEEEEEeccccccCCCCCCC
Q 021239          196 SGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVRFSAKSGQGLG  267 (315)
Q Consensus       196 ~~~~~lVVIDsl~~l~~~~~~~~~~~~~~~~~q~r~i~~~l~~L~~~~~~~~i~VI~inq~~~~~~~~~~~~  267 (315)
                       .++++|+||..+.+ ..                  ..+.+..|    .+.|+.||+.....+--  +..|+
T Consensus        90 -~~~DvIlIDEaQFf-k~------------------~ve~~~~L----~~~gk~VI~~GL~~DF~--~~~F~  135 (195)
T 1w4r_A           90 -LGVAVIGIDEGQFF-PD------------------IVEFCEAM----ANAGKTVIVAALDGTFQ--RKPFG  135 (195)
T ss_dssp             -HTCSEEEESSGGGC-TT------------------HHHHHHHH----HHTTCEEEEEEESBCTT--SSBCT
T ss_pred             -cCCCEEEEEchhhh-HH------------------HHHHHHHH----HHCCCeEEEEecccccc--cccch
Confidence             25899999999987 31                  12334444    36799988877655433  33455

>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=98.00  E-value=3.8e-05  Score=73.48  Aligned_cols=39  Identities=23%  Similarity=0.169  Sum_probs=33.1

Q ss_pred             CcEEEEEecCCCChhHHHHHHHHHHHhc--CCeEEEEecCC
Q 021239          120 GRIVEIYGREASGKTTLALHVIKEAQKL--GGYCAYLDVEN  158 (315)
Q Consensus       120 G~i~~i~G~~GsGKTtlal~la~~~~~~--g~~v~~i~~E~  158 (315)
                      +..++|+||||+|||||+..++......  +.+++|++.+.
T Consensus       130 ~~~lll~Gp~G~GKTtLa~aia~~l~~~~~~~~v~~v~~~~  170 (440)
T 2z4s_A          130 YNPLFIYGGVGLGKTHLLQSIGNYVVQNEPDLRVMYITSEK  170 (440)
T ss_dssp             SCCEEEECSSSSSHHHHHHHHHHHHHHHCCSSCEEEEEHHH
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEeeHHH
Confidence            6789999999999999999998887665  77888988643

>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=98.00  E-value=3.7e-05  Score=70.07  Aligned_cols=40  Identities=30%  Similarity=0.383  Sum_probs=36.1

Q ss_pred             CCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCC
Q 021239          119 KGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVEN  158 (315)
Q Consensus       119 ~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~  158 (315)
                      +|+++.|.||+|+||||++..++......+++|.+.+.+-
T Consensus       101 ~g~vi~lvG~nGsGKTTll~~Lagll~~~~g~V~l~g~D~  140 (304)
T 1rj9_A          101 KGRVVLVVGVNGVGKTTTIAKLGRYYQNLGKKVMFCAGDT  140 (304)
T ss_dssp             SSSEEEEECSTTSSHHHHHHHHHHHHHTTTCCEEEECCCC
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHHHhcCCEEEEEeecC
Confidence            6899999999999999999999998888888998887664

>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=98.00  E-value=2e-05  Score=72.53  Aligned_cols=42  Identities=19%  Similarity=0.133  Sum_probs=37.7

Q ss_pred             CCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCC
Q 021239          118 PKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENA  159 (315)
Q Consensus       118 ~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~  159 (315)
                      ++|.++.|.||+|+||||++..++......++++.+.+.+-.
T Consensus       127 ~~g~vi~lvG~nGaGKTTll~~Lag~l~~~~g~V~l~g~D~~  168 (328)
T 3e70_C          127 EKPYVIMFVGFNGSGKTTTIAKLANWLKNHGFSVVIAASDTF  168 (328)
T ss_dssp             CSSEEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEEECCS
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHHhcCCEEEEEeeccc
Confidence            579999999999999999999999988888999998887654

>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=97.99  E-value=2.5e-05  Score=68.56  Aligned_cols=78  Identities=18%  Similarity=0.135  Sum_probs=44.9

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCChHHHHHcCCCCCCeEEeCCCCHHHHHHHHHHHHH
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTK  195 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~~~~~~~g~~~~~l~i~~~~~~e~~~~~i~~l~~  195 (315)
                      |++....++|+||||+|||+++..++...   +.++++++...-...               ........+...+.. ..
T Consensus        35 g~~~~~~vll~G~~GtGKT~la~~la~~~---~~~~~~~~~~~~~~~---------------~~~~~~~~~~~~~~~-a~   95 (262)
T 2qz4_A           35 GAKVPKGALLLGPPGCGKTLLAKAVATEA---QVPFLAMAGAEFVEV---------------IGGLGAARVRSLFKE-AR   95 (262)
T ss_dssp             -CCCCCEEEEESCTTSSHHHHHHHHHHHH---TCCEEEEETTTTSSS---------------STTHHHHHHHHHHHH-HH
T ss_pred             CCCCCceEEEECCCCCCHHHHHHHHHHHh---CCCEEEechHHHHhh---------------ccChhHHHHHHHHHH-HH
Confidence            44555678999999999999999998765   456777775432210               000011122222222 23


Q ss_pred             cCCccEEeehhHhhhcc
Q 021239          196 SGSIDVIVVDSVAALIP  212 (315)
Q Consensus       196 ~~~~~lVVIDsl~~l~~  212 (315)
                      ...+.+|+||.+..+..
T Consensus        96 ~~~~~vl~iDeid~l~~  112 (262)
T 2qz4_A           96 ARAPCIVYIDEIDAVGK  112 (262)
T ss_dssp             HTCSEEEEEECC-----
T ss_pred             hcCCeEEEEeCcchhhc
Confidence            34689999999998863

>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=97.97  E-value=3e-06  Score=73.42  Aligned_cols=35  Identities=31%  Similarity=0.413  Sum_probs=27.3

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeE
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYC  151 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v  151 (315)
                      +++|+++.|.||+|+|||||+..++.......+.+
T Consensus        32 i~~Ge~~~iiG~NGsGKSTLlk~l~Gl~~p~~G~I   66 (214)
T 1sgw_A           32 IEKGNVVNFHGPNGIGKTTLLKTISTYLKPLKGEI   66 (214)
T ss_dssp             EETTCCEEEECCTTSSHHHHHHHHTTSSCCSEEEE
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhcCCCCCCeEE
Confidence            67999999999999999999988765543333333

>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=97.97  E-value=6e-06  Score=75.37  Aligned_cols=35  Identities=17%  Similarity=0.288  Sum_probs=27.8

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeE
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYC  151 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v  151 (315)
                      +++|+++.|.||+|+|||||+..++.......+.+
T Consensus        77 i~~Ge~vaivG~sGsGKSTLl~ll~gl~~p~~G~I  111 (306)
T 3nh6_A           77 VMPGQTLALVGPSGAGKSTILRLLFRFYDISSGCI  111 (306)
T ss_dssp             ECTTCEEEEESSSCHHHHHHHHHHTTSSCCSEEEE
T ss_pred             EcCCCEEEEECCCCchHHHHHHHHHcCCCCCCcEE
Confidence            67999999999999999999987765554433443

>2p65_A Hypothetical protein PF08_0063; CLPB, malaria, structural genomics, structural genomics consortium, SGC, unknown function; 1.70A {Plasmodium falciparum}

Probab=97.97  E-value=5.5e-05  Score=62.22  Aligned_cols=80  Identities=15%  Similarity=0.195  Sum_probs=48.0

Q ss_pred             CCcEEEEEecCCCChhHHHHHHHHHHHh-------cCCeEEEEecCCCCChHHHHHcCCCCCCeEEeCCCCHH-HHHHHH
Q 021239          119 KGRIVEIYGREASGKTTLALHVIKEAQK-------LGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAE-NLLSVV  190 (315)
Q Consensus       119 ~G~i~~i~G~~GsGKTtlal~la~~~~~-------~g~~v~~i~~E~~~~~~~~~~~g~~~~~l~i~~~~~~e-~~~~~i  190 (315)
                      .+..++|+||||+|||+++..++.....       .+..+++++....     ....  .       ...... .+...+
T Consensus        42 ~~~~vll~G~~G~GKT~la~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~--~-------~~~~~~~~~~~~~  107 (187)
T 2p65_A           42 TKNNPILLGDPGVGKTAIVEGLAIKIVQGDVPDSLKGRKLVSLDLSSL-----IAGA--K-------YRGDFEERLKSIL  107 (187)
T ss_dssp             SSCEEEEESCGGGCHHHHHHHHHHHHHTTCSCTTTTTCEEEEECHHHH-----HHHC--C-------SHHHHHHHHHHHH
T ss_pred             CCCceEEECCCCCCHHHHHHHHHHHHHhcCCcchhcCCeEEEEeHHHh-----hcCC--C-------chhHHHHHHHHHH
Confidence            3557899999999999999999888765       2556666653110     0000  0       000011 122223


Q ss_pred             HHHHHcCCccEEeehhHhhhcc
Q 021239          191 DTLTKSGSIDVIVVDSVAALIP  212 (315)
Q Consensus       191 ~~l~~~~~~~lVVIDsl~~l~~  212 (315)
                      ..+....++.+++||.+..+.+
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

>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=97.97  E-value=3.1e-05  Score=71.92  Aligned_cols=79  Identities=23%  Similarity=0.302  Sum_probs=50.6

Q ss_pred             CCCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCChHHHHHcCCCCCCeEEeCCCCHHHHHHHHHHHH
Q 021239          115 GGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLT  194 (315)
Q Consensus       115 GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~~~~~~~g~~~~~l~i~~~~~~e~~~~~i~~l~  194 (315)
                      ++..+..-++|+||||+|||++|..++...   +.++++++...     ....        +   ....+.....+-...
T Consensus        79 ~~~~~~~~iLL~GppGtGKT~la~ala~~~---~~~~~~v~~~~-----l~~~--------~---~g~~~~~~~~~f~~a  139 (355)
T 2qp9_X           79 GNRKPTSGILLYGPPGTGKSYLAKAVATEA---NSTFFSVSSSD-----LVSK--------W---MGESEKLVKQLFAMA  139 (355)
T ss_dssp             SSCCCCCCEEEECSTTSCHHHHHHHHHHHH---TCEEEEEEHHH-----HHSC--------C------CHHHHHHHHHHH
T ss_pred             cCCCCCceEEEECCCCCcHHHHHHHHHHHh---CCCEEEeeHHH-----Hhhh--------h---cchHHHHHHHHHHHH
Confidence            355666779999999999999999998876   45666665321     1000        0   011123333333334


Q ss_pred             HcCCccEEeehhHhhhcc
Q 021239          195 KSGSIDVIVVDSVAALIP  212 (315)
Q Consensus       195 ~~~~~~lVVIDsl~~l~~  212 (315)
                      ....+.+|+||.+..+.+
T Consensus       140 ~~~~~~vl~iDEid~l~~  157 (355)
T 2qp9_X          140 RENKPSIIFIDQVDALTG  157 (355)
T ss_dssp             HHTSSEEEEEECGGGGTC
T ss_pred             HHcCCeEEEEechHhhcc
Confidence            456789999999998874

>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding, nucleotide-binding, hydrolase; 2.70A {Drosophila melanogaster}

Probab=97.97  E-value=4e-05  Score=68.82  Aligned_cols=76  Identities=18%  Similarity=0.274  Sum_probs=51.2

Q ss_pred             CCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCChHHHHHcCCCCCCeEEeCCCCHHHHHHHHHHHHHcC
Q 021239          118 PKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTKSG  197 (315)
Q Consensus       118 ~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~~~~~~~g~~~~~l~i~~~~~~e~~~~~i~~l~~~~  197 (315)
                      .++..++|+||||+|||+++..++...   +.+.++++...-...                .....+.....+.......
T Consensus        52 ~~~~~vll~Gp~GtGKT~la~~la~~~---~~~~~~i~~~~l~~~----------------~~~~~~~~~~~~~~~~~~~  112 (297)
T 3b9p_A           52 APAKGLLLFGPPGNGKTLLARAVATEC---SATFLNISAASLTSK----------------YVGDGEKLVRALFAVARHM  112 (297)
T ss_dssp             CCCSEEEEESSSSSCHHHHHHHHHHHT---TCEEEEEESTTTSSS----------------SCSCHHHHHHHHHHHHHHT
T ss_pred             CCCCeEEEECcCCCCHHHHHHHHHHHh---CCCeEEeeHHHHhhc----------------ccchHHHHHHHHHHHHHHc
Confidence            356789999999999999999887765   456666665332110                0122344444444444556


Q ss_pred             CccEEeehhHhhhcc
Q 021239          198 SIDVIVVDSVAALIP  212 (315)
Q Consensus       198 ~~~lVVIDsl~~l~~  212 (315)
                      .+.+|+||.+..+..
T Consensus       113 ~~~vl~iDEid~l~~  127 (297)
T 3b9p_A          113 QPSIIFIDEVDSLLS  127 (297)
T ss_dssp             CSEEEEEETGGGTSB
T ss_pred             CCcEEEeccHHHhcc
Confidence            889999999999874

>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=97.96  E-value=2.7e-05  Score=70.67  Aligned_cols=80  Identities=16%  Similarity=0.193  Sum_probs=55.1

Q ss_pred             CCCcEEEEEecCCCChhHHHHHHHHHHHh-cCCeEEEEecCCCCChH------HHHHcCCCCCCeEEeCCCCHHHHHHHH
Q 021239          118 PKGRIVEIYGREASGKTTLALHVIKEAQK-LGGYCAYLDVENALDPS------LAEAMGIDAENLLIAQPDSAENLLSVV  190 (315)
Q Consensus       118 ~~G~i~~i~G~~GsGKTtlal~la~~~~~-~g~~v~~i~~E~~~~~~------~~~~~g~~~~~l~i~~~~~~e~~~~~i  190 (315)
                      .+|.++.|.|++|+||||++..++..+.. .|.+|++++.+......      +++..|++..     ...+..++...+
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            36889999999999999999999998885 67799999987643221      2233444321     112344444444


Q ss_pred             HHHHHcCCccEEeeh
Q 021239          191 DTLTKSGSIDVIVVD  205 (315)
Q Consensus       191 ~~l~~~~~~~lVVID  205 (315)
                      ..+   .++++|+||
T Consensus       178 ~~~---~~~dlvIiD  189 (296)
T 2px0_A          178 ELF---SEYDHVFVD  189 (296)
T ss_dssp             HHG---GGSSEEEEE
T ss_pred             HHh---cCCCEEEEe
Confidence            432   568999999

>4gp7_A Metallophosphoesterase; polynucleotide kinase phosphatase, RNA repair, transferase; HET: ATP CIT; 2.00A {Clostridium thermocellum} PDB: 4gp6_A*

Probab=97.96  E-value=2.1e-06  Score=71.33  Aligned_cols=23  Identities=35%  Similarity=0.572  Sum_probs=21.3

Q ss_pred             CCCCcEEEEEecCCCChhHHHHH
Q 021239          117 LPKGRIVEIYGREASGKTTLALH  139 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~  139 (315)
                      +++|+++.|.||||||||||+..
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            56899999999999999999984

>3e2i_A Thymidine kinase; Zn-binding, ATP-binding, DNA synthesis, nucleotide-B transferase; HET: MSE; 2.01A {Staphylococcus aureus}

Probab=97.94  E-value=1.6e-05  Score=68.66  Aligned_cols=111  Identities=15%  Similarity=0.122  Sum_probs=70.3

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCC---hHHHHHcCCCCCCeEEeCCCCHHHHHHHHHHH
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALD---PSLAEAMGIDAENLLIAQPDSAENLLSVVDTL  193 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~---~~~~~~~g~~~~~l~i~~~~~~e~~~~~i~~l  193 (315)
                      -..|.+.+|+|+-|+||||.++..+.++...+.+|+++...-...   .....+.|...+.+.+...   .++.+.+   
T Consensus        25 ~~~G~I~vitG~M~sGKTT~Llr~~~r~~~~g~kvli~kp~~D~R~~~~~I~Sr~G~~~~a~~v~~~---~di~~~i---   98 (219)
T 3e2i_A           25 YHSGWIECITGSMFSGKSEELIRRLRRGIYAKQKVVVFKPAIDDRYHKEKVVSHNGNAIEAINISKA---SEIMTHD---   98 (219)
T ss_dssp             --CCEEEEEEECTTSCHHHHHHHHHHHHHHTTCCEEEEEEC-----------CBTTBCCEEEEESSG---GGGGGSC---
T ss_pred             cCCceEEEEECCCCCCHHHHHHHHHHHHHHcCCceEEEEeccCCcchhhhHHHhcCCceeeEEeCCH---HHHHHHH---
Confidence            356899999999999999999888999988899998886543221   1344556655554444332   2232222   


Q ss_pred             HHcCCccEEeehhHhhhccccccCCCccCCChHHHHHHHHHHHHHHHHHHhccCcEEEEEeccc
Q 021239          194 TKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVR  257 (315)
Q Consensus       194 ~~~~~~~lVVIDsl~~l~~~~~~~~~~~~~~~~~q~r~i~~~l~~L~~~~~~~~i~VI~inq~~  257 (315)
                        ..++++|+||..+.+-.                  .+...+..+   + +.|++||+.-=..
T Consensus        99 --~~~~dvV~IDEaQFf~~------------------~~v~~l~~l---a-~~gi~Vi~~GLd~  138 (219)
T 3e2i_A           99 --LTNVDVIGIDEVQFFDD------------------EIVSIVEKL---S-ADGHRVIVAGLDM  138 (219)
T ss_dssp             --CTTCSEEEECCGGGSCT------------------HHHHHHHHH---H-HTTCEEEEEEESB
T ss_pred             --hcCCCEEEEechhcCCH------------------HHHHHHHHH---H-HCCCEEEEeeccc
Confidence              24789999999997652                  133444444   3 5799988766543

>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=97.92  E-value=0.00011  Score=71.05  Aligned_cols=121  Identities=17%  Similarity=0.143  Sum_probs=65.2

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCChHHHHHcCCCCCCeEEeCCCCHHHHHHHHHHHHH
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTK  195 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~~~~~~~g~~~~~l~i~~~~~~e~~~~~i~~l~~  195 (315)
                      -+++|  ++|+||||+|||+++..++...   +.+.++++...-...             +  .-.....+...+.. ..
T Consensus        47 ~~p~g--vLL~GppGtGKT~Laraia~~~---~~~f~~is~~~~~~~-------------~--~g~~~~~~r~lf~~-A~  105 (476)
T 2ce7_A           47 RMPKG--ILLVGPPGTGKTLLARAVAGEA---NVPFFHISGSDFVEL-------------F--VGVGAARVRDLFAQ-AK  105 (476)
T ss_dssp             CCCSE--EEEECCTTSSHHHHHHHHHHHH---TCCEEEEEGGGTTTC-------------C--TTHHHHHHHHHHHH-HH
T ss_pred             CCCCe--EEEECCCCCCHHHHHHHHHHHc---CCCeeeCCHHHHHHH-------------H--hcccHHHHHHHHHH-HH
Confidence            34445  8899999999999999988765   556777764332211             0  00011122222322 23


Q ss_pred             cCCccEEeehhHhhhccccccCCCccCCChHHHHHHHHHHHHHHHHHHhccCcEEEEEecccccc
Q 021239          196 SGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVRFSA  260 (315)
Q Consensus       196 ~~~~~lVVIDsl~~l~~~~~~~~~~~~~~~~~q~r~i~~~l~~L~~~~~~~~i~VI~inq~~~~~  260 (315)
                      ...+.+|+||.+..+.+.... +..+. . ....+.+.+.+..+..+-...++.||.+++....+
T Consensus       106 ~~~p~ILfIDEid~l~~~r~~-~~~g~-~-~~~~~~l~~LL~~ld~~~~~~~viVIaaTn~~~~L  167 (476)
T 2ce7_A          106 AHAPCIVFIDEIDAVGRHRGA-GLGGG-H-DEREQTLNQLLVEMDGFDSKEGIIVMAATNRPDIL  167 (476)
T ss_dssp             HTCSEEEEEETGGGTCCC------------CHHHHHHHHHHHHHHHSCGGGTEEEEEEESCGGGS
T ss_pred             hcCCCEEEEechhhhhhhccc-ccCcC-c-HHHHHHHHHHHHHHhccCCCCCEEEEEecCChhhh
Confidence            457899999999998742110 00000 0 01122234444444332234578888777765444

>2w58_A DNAI, primosome component (helicase loader); ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.50A {Geobacillus kaustophilus HTA426}

Probab=97.92  E-value=4.8e-05  Score=64.32  Aligned_cols=37  Identities=22%  Similarity=0.117  Sum_probs=33.2

Q ss_pred             cEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecC
Q 021239          121 RIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVE  157 (315)
Q Consensus       121 ~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E  157 (315)
                      ..++|+||||+|||+++..++..+...+.+++|++..
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            6799999999999999999999888888899998863

>2qgz_A Helicase loader, putative primosome component; structural genomics, PSI-2, protein structure initiative; 2.40A {Streptococcus pyogenes serotype M3}

Probab=97.90  E-value=3.2e-05  Score=70.53  Aligned_cols=38  Identities=24%  Similarity=0.271  Sum_probs=34.4

Q ss_pred             CcEEEEEecCCCChhHHHHHHHHHHH-hcCCeEEEEecC
Q 021239          120 GRIVEIYGREASGKTTLALHVIKEAQ-KLGGYCAYLDVE  157 (315)
Q Consensus       120 G~i~~i~G~~GsGKTtlal~la~~~~-~~g~~v~~i~~E  157 (315)
                      +..++|+||||+|||+|+..++..+. ..|.+|+|+...
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 888899998853

>1zu4_A FTSY; GTPase, signal recognition particle, SRP, receptor, protein transport; 1.95A {Mycoplasma mycoides} PDB: 1zu5_A

Probab=97.90  E-value=3.9e-05  Score=70.39  Aligned_cols=92  Identities=15%  Similarity=0.176  Sum_probs=58.9

Q ss_pred             CCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCChH--HHHHcCC-C-CCCeEEe--CC---CCHHHHHH
Q 021239          118 PKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPS--LAEAMGI-D-AENLLIA--QP---DSAENLLS  188 (315)
Q Consensus       118 ~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~~--~~~~~g~-~-~~~l~i~--~~---~~~e~~~~  188 (315)
                      .+|.++.|+|++|+||||++..+|......|++|++++.+......  ....++- . ..++.+.  +.   ++.....+
T Consensus       103 ~~~~vI~ivG~~G~GKTT~~~~LA~~l~~~g~kVllid~D~~r~~a~~ql~~~~~~~~~~~l~vip~~~~~~~p~~~~~~  182 (320)
T 1zu4_A          103 NRLNIFMLVGVNGTGKTTSLAKMANYYAELGYKVLIAAADTFRAGATQQLEEWIKTRLNNKVDLVKANKLNADPASVVFD  182 (320)
T ss_dssp             TSCEEEEEESSTTSSHHHHHHHHHHHHHHTTCCEEEEECCCSCHHHHHHHHHHHTTTSCTTEEEECCSSTTCCHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEeCCCcchhHHHHHHHHHhccccCCceEEeCCCCCCCHHHHHHH
Confidence            5789999999999999999999999998889999999987643221  1111210 0 2344444  11   12222333


Q ss_pred             HHHHHHHcCCccEEeehhHhhh
Q 021239          189 VVDTLTKSGSIDVIVVDSVAAL  210 (315)
Q Consensus       189 ~i~~l~~~~~~~lVVIDsl~~l  210 (315)
                      .+.... ..++++|+||....+
T Consensus       183 ~l~~~~-~~~yD~VIIDTpg~l  203 (320)
T 1zu4_A          183 AIKKAK-EQNYDLLLIDTAGRL  203 (320)
T ss_dssp             HHHHHH-HTTCSEEEEECCCCG
T ss_pred             HHHHHH-hcCCCEEEEcCCCcc
Confidence            333322 357899999965433

>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic; photosynthesis, rubisco activase, AAA+ protein; 2.95A {Nicotiana tabacum} PDB: 3zw6_A

Probab=97.88  E-value=8.6e-05  Score=67.06  Aligned_cols=82  Identities=12%  Similarity=0.158  Sum_probs=48.3

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCChHHHHHcCCCCCCeEEeCCCCHHHHHHHHHHHHH
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTK  195 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~~~~~~~g~~~~~l~i~~~~~~e~~~~~i~~l~~  195 (315)
                      |.++...++|+||||+|||++|..+|...   +.++++++...-...    ..|.        ......+.+.....+.+
T Consensus        32 ~~~~p~~lLl~GppGtGKT~la~aiA~~l---~~~~i~v~~~~l~~~----~~g~--------~~~~i~~~f~~a~~~~~   96 (293)
T 3t15_A           32 NIKVPLILGIWGGKGQGKSFQCELVFRKM---GINPIMMSAGELESG----NAGE--------PAKLIRQRYREAAEIIR   96 (293)
T ss_dssp             TCCCCSEEEEEECTTSCHHHHHHHHHHHH---TCCCEEEEHHHHHCC-------H--------HHHHHHHHHHHHHHHHT
T ss_pred             CCCCCeEEEEECCCCCCHHHHHHHHHHHh---CCCEEEEeHHHhhhc----cCch--------hHHHHHHHHHHHHHHHh
Confidence            55666789999999999999999998877   567777774211000    0000        00001122333333335


Q ss_pred             cCCccEEeehhHhhhcc
Q 021239          196 SGSIDVIVVDSVAALIP  212 (315)
Q Consensus       196 ~~~~~lVVIDsl~~l~~  212 (315)
                      ...+.+|+||.+..+.+
T Consensus        97 ~~~~~vl~iDEiD~~~~  113 (293)
T 3t15_A           97 KGNMCCLFINDLDAGAG  113 (293)
T ss_dssp             TSSCCCEEEECCC----
T ss_pred             cCCCeEEEEechhhhcC
Confidence            66789999999988774

>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=97.87  E-value=4.8e-05  Score=68.92  Aligned_cols=87  Identities=22%  Similarity=0.279  Sum_probs=57.2

Q ss_pred             CCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCChH------HHHHcCCCCCCeEEeCCCCHHHHH-HHHH
Q 021239          119 KGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPS------LAEAMGIDAENLLIAQPDSAENLL-SVVD  191 (315)
Q Consensus       119 ~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~~------~~~~~g~~~~~l~i~~~~~~e~~~-~~i~  191 (315)
                      +|.++.+.|++|+||||++..++......+++|++++.+......      +.+..+++.  +......+..++. ..+.
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      123334321  1001122334443 2333


Q ss_pred             HHHHcCCccEEeehhHh
Q 021239          192 TLTKSGSIDVIVVDSVA  208 (315)
Q Consensus       192 ~l~~~~~~~lVVIDsl~  208 (315)
                      .+ ...++++|+||...
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            33 22468999999763

>2j37_W Signal recognition particle 54 kDa protein (SRP54); ribosome, SRP, translation/RNA; 8.00A {Canis SP} PDB: 1wgw_A

Probab=97.87  E-value=0.00018  Score=69.87  Aligned_cols=101  Identities=17%  Similarity=0.116  Sum_probs=62.4

Q ss_pred             HHHHHhhcCC---CC----CCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCChH------HHHHcCCCC
Q 021239          106 LKLDLALGIG---GL----PKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPS------LAEAMGIDA  172 (315)
Q Consensus       106 ~~LD~~l~~G---Gl----~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~~------~~~~~g~~~  172 (315)
                      .+|..+++ +   ++    .+..++.|+|++|+||||++..++..+...|.+|++++.+......      ...+.+++.
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            45667776 4   23    2355899999999999999999999998889999999987644321      233344431


Q ss_pred             CCeEEeCCCCHHHHH-HHHHHHHHcCCccEEeehhHhhh
Q 021239          173 ENLLIAQPDSAENLL-SVVDTLTKSGSIDVIVVDSVAAL  210 (315)
Q Consensus       173 ~~l~i~~~~~~e~~~-~~i~~l~~~~~~~lVVIDsl~~l  210 (315)
                      -.  .....+..++. +.+..+ ...+.++++||....+
T Consensus       160 ~~--~~~~~dp~~i~~~al~~~-~~~~~DvvIIDTpG~~  195 (504)
T 2j37_W          160 YG--SYTEMDPVIIASEGVEKF-KNENFEIIIVDTSGRH  195 (504)
T ss_dssp             EE--CCCCSCHHHHHHHHHHHH-HHTTCCEEEEEECCCC
T ss_pred             Ec--cCCCCCHHHHHHHHHHHH-HHCCCcEEEEeCCCCc
Confidence            10  01112233332 233332 2357889999976644

>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=97.87  E-value=1.7e-05  Score=75.78  Aligned_cols=54  Identities=28%  Similarity=0.252  Sum_probs=43.6

Q ss_pred             HHHHHhhcCCC---C--CCC--cEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCC
Q 021239          106 LKLDLALGIGG---L--PKG--RIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENAL  160 (315)
Q Consensus       106 ~~LD~~l~~GG---l--~~G--~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~  160 (315)
                      .+|..+++ ++   +  .++  .++.|+|++|+||||++..++..+...|.+|++++.+...
T Consensus        79 ~~l~~ll~-~~~~~~~~~~~~~~vI~ivG~~GvGKTTla~~La~~l~~~G~kVllv~~D~~r  139 (432)
T 2v3c_C           79 EELVKLLG-EEAKKLELNPKKQNVILLVGIQGSGKTTTAAKLARYIQKRGLKPALIAADTYR  139 (432)
T ss_dssp             HHHHHHHC-CSCCCCCCCSSSCCCEEEECCSSSSTTHHHHHHHHHHHHHHCCEEEECCSCCC
T ss_pred             HHHHHHhC-CCCcCccccCCCCeEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEeccccC
Confidence            34666776 54   3  223  5899999999999999999999999889999999987543

>3vfd_A Spastin; ATPase, microtubule severing, hydrolase; 3.30A {Homo sapiens}

Probab=97.83  E-value=0.00013  Score=68.52  Aligned_cols=76  Identities=20%  Similarity=0.262  Sum_probs=48.8

Q ss_pred             CCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCChHHHHHcCCCCCCeEEeCCCCHHHHHHHHHHHHHcC
Q 021239          118 PKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTKSG  197 (315)
Q Consensus       118 ~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~~~~~~~g~~~~~l~i~~~~~~e~~~~~i~~l~~~~  197 (315)
                      .++..++|+||||+|||++|..++...   +..+++++...-....                ....+.....+.......
T Consensus       146 ~~~~~vLL~GppGtGKT~la~aia~~~---~~~~~~v~~~~l~~~~----------------~g~~~~~~~~~~~~a~~~  206 (389)
T 3vfd_A          146 APARGLLLFGPPGNGKTMLAKAVAAES---NATFFNISAASLTSKY----------------VGEGEKLVRALFAVAREL  206 (389)
T ss_dssp             CCCSEEEEESSTTSCHHHHHHHHHHHT---TCEEEEECSCCC-----------------------CHHHHHHHHHHHHHS
T ss_pred             CCCceEEEECCCCCCHHHHHHHHHHhh---cCcEEEeeHHHhhccc----------------cchHHHHHHHHHHHHHhc
Confidence            356789999999999999999886553   6677777764322210                011123333333334456


Q ss_pred             CccEEeehhHhhhcc
Q 021239          198 SIDVIVVDSVAALIP  212 (315)
Q Consensus       198 ~~~lVVIDsl~~l~~  212 (315)
                      .+.+|+||.+..+..
T Consensus       207 ~~~il~iDEid~l~~  221 (389)
T 3vfd_A          207 QPSIIFIDQVDSLLC  221 (389)
T ss_dssp             SSEEEEEETGGGGC-
T ss_pred             CCeEEEEECchhhcc
Confidence            788999999998874

>2chg_A Replication factor C small subunit; DNA-binding protein, DNA replication, clamp loader, AAA+ ATPase, ATP-binding, nucleotide-binding; HET: ANP; 2.1A {Archaeoglobus fulgidus}

Probab=97.83  E-value=8.1e-05  Score=62.78  Aligned_cols=68  Identities=13%  Similarity=0.231  Sum_probs=43.7

Q ss_pred             EEEEecCCCChhHHHHHHHHHHHhcCC--eEEEEecCCCCChHHHHHcCCCCCCeEEeCCCCHHHHHHHHHHHHH-----
Q 021239          123 VEIYGREASGKTTLALHVIKEAQKLGG--YCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTK-----  195 (315)
Q Consensus       123 ~~i~G~~GsGKTtlal~la~~~~~~g~--~v~~i~~E~~~~~~~~~~~g~~~~~l~i~~~~~~e~~~~~i~~l~~-----  195 (315)
                      ++|+||+|+|||+++..++......+.  ..+.++....                     ...+.+...+.....     
T Consensus        41 ~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~---------------------~~~~~~~~~~~~~~~~~~~~   99 (226)
T 2chg_A           41 LLFSGPPGTGKTATAIALARDLFGENWRDNFIEMNASDE---------------------RGIDVVRHKIKEFARTAPIG   99 (226)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHHGGGGGGGEEEEETTCT---------------------TCHHHHHHHHHHHHTSCCST
T ss_pred             EEEECCCCCCHHHHHHHHHHHHhccccccceEEeccccc---------------------cChHHHHHHHHHHhcccCCC
Confidence            999999999999999999887754432  2333443221                     122333333443332     


Q ss_pred             cCCccEEeehhHhhhc
Q 021239          196 SGSIDVIVVDSVAALI  211 (315)
Q Consensus       196 ~~~~~lVVIDsl~~l~  211 (315)
                      ..+..+|+||.+..+.
T Consensus       100 ~~~~~vliiDe~~~l~  115 (226)
T 2chg_A          100 GAPFKIIFLDEADALT  115 (226)
T ss_dssp             TCSCEEEEEETGGGSC
T ss_pred             ccCceEEEEeChhhcC
Confidence            2467899999988775

>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=97.83  E-value=0.00016  Score=61.45  Aligned_cols=92  Identities=15%  Similarity=0.245  Sum_probs=61.5

Q ss_pred             CcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCC-C---hHHHHHcCCCCC----CeEEeCCC------CHHH
Q 021239          120 GRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENAL-D---PSLAEAMGIDAE----NLLIAQPD------SAEN  185 (315)
Q Consensus       120 G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~-~---~~~~~~~g~~~~----~l~i~~~~------~~e~  185 (315)
                      ...+.+++.+|.||||.|+.++..++..|.+|+++.+-... .   ....+.+++...    .+......      ....
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            34788889999999999999999999999999999876542 1   134555542211    11111111      1122


Q ss_pred             HHHHHHHHHHcCCccEEeehhHhhhc
Q 021239          186 LLSVVDTLTKSGSIDVIVVDSVAALI  211 (315)
Q Consensus       186 ~~~~i~~l~~~~~~~lVVIDsl~~l~  211 (315)
                      .++.+.+.+.+..+++||+|.++...
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            33445555666789999999998765

>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=97.82  E-value=0.00011  Score=68.15  Aligned_cols=76  Identities=13%  Similarity=0.261  Sum_probs=50.4

Q ss_pred             CCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCChHHHHHcCCCCCCeEEeCCCCHHHHHHHHHHHHHcC
Q 021239          118 PKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTKSG  197 (315)
Q Consensus       118 ~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~~~~~~~g~~~~~l~i~~~~~~e~~~~~i~~l~~~~  197 (315)
                      .+...++|+||||+|||++|..++...   +..+++++...-...                .....+.....+.......
T Consensus       115 ~~~~~vLl~GppGtGKT~la~aia~~~---~~~~~~i~~~~l~~~----------------~~g~~~~~~~~~~~~a~~~  175 (357)
T 3d8b_A          115 GPPKGILLFGPPGTGKTLIGKCIASQS---GATFFSISASSLTSK----------------WVGEGEKMVRALFAVARCQ  175 (357)
T ss_dssp             SCCSEEEEESSTTSSHHHHHHHHHHHT---TCEEEEEEGGGGCCS----------------STTHHHHHHHHHHHHHHHT
T ss_pred             CCCceEEEECCCCCCHHHHHHHHHHHc---CCeEEEEehHHhhcc----------------ccchHHHHHHHHHHHHHhc
Confidence            456679999999999999999987654   567777775332111                0111233333333334456


Q ss_pred             CccEEeehhHhhhcc
Q 021239          198 SIDVIVVDSVAALIP  212 (315)
Q Consensus       198 ~~~lVVIDsl~~l~~  212 (315)
                      .+.+|+||.+..+..
T Consensus       176 ~~~vl~iDEid~l~~  190 (357)
T 3d8b_A          176 QPAVIFIDEIDSLLS  190 (357)
T ss_dssp             CSEEEEEETHHHHTB
T ss_pred             CCeEEEEeCchhhhc
Confidence            789999999999874

>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=97.82  E-value=7.3e-05  Score=71.13  Aligned_cols=87  Identities=22%  Similarity=0.256  Sum_probs=58.3

Q ss_pred             CCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCCh------HHHHHcCCCCCCeEEe-CCCCHHHHHH-HH
Q 021239          119 KGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP------SLAEAMGIDAENLLIA-QPDSAENLLS-VV  190 (315)
Q Consensus       119 ~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~------~~~~~~g~~~~~l~i~-~~~~~e~~~~-~i  190 (315)
                      ++.++.++|++|+||||++..++......|++|++++.+.....      .+.+..|++.   +.. ...+..++.. .+
T Consensus        97 ~~~vi~i~G~~GsGKTT~~~~LA~~l~~~g~~Vllvd~D~~r~aa~~qL~~~~~~~gv~v---~~~~~~~~p~~i~~~~l  173 (425)
T 2ffh_A           97 DRNLWFLVGLQGSGKTTTAAKLALYYKGKGRRPLLVAADTQRPAAREQLRLLGEKVGVPV---LEVMDGESPESIRRRVE  173 (425)
T ss_dssp             SSEEEEEECCTTSSHHHHHHHHHHHHHTTTCCEEEEECCSSCHHHHHHHHHHHHHHTCCE---EECCTTCCHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEeeccccCchhHHHHHHhcccCCccE---EecCCCCCHHHHHHHHH
Confidence            57899999999999999999999999988999999998754432      1233445431   111 1123344432 33


Q ss_pred             HHHHHcCCccEEeehhHhh
Q 021239          191 DTLTKSGSIDVIVVDSVAA  209 (315)
Q Consensus       191 ~~l~~~~~~~lVVIDsl~~  209 (315)
                      ..+ +..+.++|+||....
T Consensus       174 ~~~-~~~~~DvVIIDTaG~  191 (425)
T 2ffh_A          174 EKA-RLEARDLILVDTAGR  191 (425)
T ss_dssp             HHH-HHTTCSEEEEECCCC
T ss_pred             HHH-HHCCCCEEEEcCCCc
Confidence            332 335789999997543

>3j16_B RLI1P; ribosome recycling, translation, eukarya, ribosome; HET: ATP; 7.20A {Saccharomyces cerevisiae}

Probab=97.81  E-value=8.5e-05  Score=73.89  Aligned_cols=128  Identities=17%  Similarity=0.221  Sum_probs=70.6

Q ss_pred             CCCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCC------eEEEEecCCCCC------hHHH-----------------
Q 021239          115 GGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGG------YCAYLDVENALD------PSLA-----------------  165 (315)
Q Consensus       115 GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~------~v~~i~~E~~~~------~~~~-----------------  165 (315)
                      |-+.+|+++.|.||+|+|||||+..++.......+      .+.|+.-+....      ....                 
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            45777899999999999999999888765443222      355554332111      0111                 


Q ss_pred             HHcCCCC-CCeEEeCCCCHHH-HHHHHHHHHHcCCccEEeehhHhhhccccccCCCccCCChHHHHHHHHHHHHHHHHHH
Q 021239          166 EAMGIDA-ENLLIAQPDSAEN-LLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSL  243 (315)
Q Consensus       166 ~~~g~~~-~~l~i~~~~~~e~-~~~~i~~l~~~~~~~lVVIDsl~~l~~~~~~~~~~~~~~~~~q~r~i~~~l~~L~~~~  243 (315)
                      +.+++.. .+-.+..-.-.+. -+.+.+.+  ..+|+++++|..+.-..             ......+.+.++++.   
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            1112110 0001111111222 22333333  24799999998776552             122333555555553   


Q ss_pred             hccCcEEEEEecccccc
Q 021239          244 CQSHTLIIFLNQVRFSA  260 (315)
Q Consensus       244 ~~~~i~VI~inq~~~~~  260 (315)
                      ++.|.|||+++|-....
T Consensus       515 ~~~g~tviivtHdl~~~  531 (608)
T 3j16_B          515 LHNKKTAFIVEHDFIMA  531 (608)
T ss_dssp             HHHTCEEEEECSCHHHH
T ss_pred             HhCCCEEEEEeCCHHHH
Confidence            67799999999976543

>2yz2_A Putative ABC transporter ATP-binding protein TM_0; cobalt transport, TM02 hydrolase, inner membrane, membrane, nucleotide-binding; 2.30A {Thermotoga maritima}

Probab=97.80  E-value=5.1e-06  Score=74.26  Aligned_cols=36  Identities=25%  Similarity=0.278  Sum_probs=28.0

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeE
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYC  151 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v  151 (315)
                      -+++|+++.|.||+|+|||||+..++.......+.+
T Consensus        29 ~i~~Ge~~~liG~nGsGKSTLl~~i~Gl~~p~~G~I   64 (266)
T 2yz2_A           29 VINEGECLLVAGNTGSGKSTLLQIVAGLIEPTSGDV   64 (266)
T ss_dssp             EECTTCEEEEECSTTSSHHHHHHHHTTSSCCSEEEE
T ss_pred             EEcCCCEEEEECCCCCcHHHHHHHHhCCCCCCCcEE
Confidence            367999999999999999999988765543333343

>3ozx_A RNAse L inhibitor; ATP binding cassette protein, hydrolase, translation; HET: ADP; 2.05A {Sulfolobus solfataricus}

Probab=97.80  E-value=4.2e-05  Score=75.06  Aligned_cols=126  Identities=18%  Similarity=0.254  Sum_probs=69.9

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHhcCC-------eEEEEecCCCCC--h---HHHHHc--CC-CCC--------
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGG-------YCAYLDVENALD--P---SLAEAM--GI-DAE--------  173 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~-------~v~~i~~E~~~~--~---~~~~~~--g~-~~~--------  173 (315)
                      +++|+++.|.||+|+|||||+..++.......+       .+.|+.-+....  .   ......  .. ...        
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            578999999999999999999888765543333       344544322111  0   111111  00 000        


Q ss_pred             -Ce--------EEeCCCCHH-HHHHHHHHHHHcCCccEEeehhHhhhccccccCCCccCCChHHHHHHHHHHHHHHHHHH
Q 021239          174 -NL--------LIAQPDSAE-NLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSL  243 (315)
Q Consensus       174 -~l--------~i~~~~~~e-~~~~~i~~l~~~~~~~lVVIDsl~~l~~~~~~~~~~~~~~~~~q~r~i~~~l~~L~~~~  243 (315)
                       .+        .+..-.-.+ +-+.+.+.++  .+|+++++|..+....             ......+.+.++++.   
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             00        000111122 2333444443  4799999998876652             122333555555554   


Q ss_pred             hccCcEEEEEecccccc
Q 021239          244 CQSHTLIIFLNQVRFSA  260 (315)
Q Consensus       244 ~~~~i~VI~inq~~~~~  260 (315)
                      ++.+.+||+++|-....
T Consensus       433 ~~~g~tvi~vsHdl~~~  449 (538)
T 3ozx_A          433 RERKAVTFIIDHDLSIH  449 (538)
T ss_dssp             HHTTCEEEEECSCHHHH
T ss_pred             HhCCCEEEEEeCCHHHH
Confidence            77899999999976543

>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=97.79  E-value=5.6e-05  Score=74.87  Aligned_cols=38  Identities=29%  Similarity=0.441  Sum_probs=30.8

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEE
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAY  153 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~  153 (315)
                      -+++|+++.|.||+|+|||||+..++.......+.+.+
T Consensus       365 ~i~~G~~~~ivG~sGsGKSTll~~l~g~~~p~~G~i~~  402 (582)
T 3b5x_A          365 SIPQGKTVALVGRSGSGKSTIANLFTRFYDVDSGSICL  402 (582)
T ss_pred             EECCCCEEEEECCCCCCHHHHHHHHhcCCCCCCCEEEE
Confidence            36899999999999999999998887766555555543

>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=97.79  E-value=6.4e-05  Score=70.41  Aligned_cols=108  Identities=18%  Similarity=0.193  Sum_probs=71.9

Q ss_pred             CCccccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHhc--CCeEEEEecCCCCCh--HHHHHcCCCCC
Q 021239           98 GPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKL--GGYCAYLDVENALDP--SLAEAMGIDAE  173 (315)
Q Consensus        98 ~~~i~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~~--g~~v~~i~~E~~~~~--~~~~~~g~~~~  173 (315)
                      .+.+.||+..+|-++.   +.+|.-+.|.|++|+|||+|+..++..+.+.  +-.|+|....+....  ...+.+.   .
T Consensus       155 ~~~~~tGiraID~~~p---i~rGQr~~IvG~sG~GKTtLl~~Iar~i~~~~~~v~~I~~lIGER~~Ev~~~~~~~~---~  228 (422)
T 3ice_A          155 GSTEDLTARVLDLASP---IGRGQRGLIVAPPKAGKTMLLQNIAQSIAYNHPDCVLMVLLIDERPEEVTEMQRLVK---G  228 (422)
T ss_dssp             CCTTHHHHHHHHHHSC---CBTTCEEEEECCSSSSHHHHHHHHHHHHHHHCTTSEEEEEEESSCHHHHHHHHTTCS---S
T ss_pred             CCcccccceeeeeeee---ecCCcEEEEecCCCCChhHHHHHHHHHHhhcCCCeeEEEEEecCChHHHHHHHHHhC---e
Confidence            3678999999999987   7899999999999999999999998877654  335777665544433  1222221   1


Q ss_pred             CeEEeCCC-CHH-------HHHHHHHHHHHcCCccEEeehhHhhhc
Q 021239          174 NLLIAQPD-SAE-------NLLSVVDTLTKSGSIDVIVVDSVAALI  211 (315)
Q Consensus       174 ~l~i~~~~-~~e-------~~~~~i~~l~~~~~~~lVVIDsl~~l~  211 (315)
                      -+.....+ ++.       -.+...+.+.+++.--+|++|+++.+.
T Consensus       229 ~vV~atadep~~~r~~~a~~alt~AEyfrd~G~dVLil~DslTR~A  274 (422)
T 3ice_A          229 EVVASTFDEPASRHVQVAEMVIEKAKRLVEHKKDVIILLDSITRLA  274 (422)
T ss_dssp             EEEEECTTSCHHHHHHHHHHHHHHHHHHHHTSCEEEEEEECHHHHH
T ss_pred             EEEEeCCCCCHHHHHHHHHHHHHHHHHHHhcCCCEEEEEeCchHHH
Confidence            12222222 222       122334455566666788999999876

>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=97.79  E-value=6.7e-05  Score=72.78  Aligned_cols=118  Identities=21%  Similarity=0.312  Sum_probs=65.2

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCChHHHHHcCCCCCCeEEeCCCCHHHHHHHHHHHHH
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTK  195 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~~~~~~~g~~~~~l~i~~~~~~e~~~~~i~~l~~  195 (315)
                      |.++..-++|+||||+|||++|..++...   +.+.+++++..-...            +    ....+..+..+-....
T Consensus       234 g~~~~~~vLL~GppGtGKT~lAraia~~~---~~~fv~vn~~~l~~~------------~----~g~~~~~~~~~f~~A~  294 (489)
T 3hu3_A          234 GVKPPRGILLYGPPGTGKTLIARAVANET---GAFFFLINGPEIMSK------------L----AGESESNLRKAFEEAE  294 (489)
T ss_dssp             TCCCCCEEEEECSTTSSHHHHHHHHHHHC---SSEEEEEEHHHHHTS------------C----TTHHHHHHHHHHHHHH
T ss_pred             CCCCCCcEEEECcCCCCHHHHHHHHHHHh---CCCEEEEEchHhhhh------------h----cchhHHHHHHHHHHHH
Confidence            45666779999999999999999886654   667777774211100            0    0111111121222234


Q ss_pred             cCCccEEeehhHhhhccccccCCCccCCChHHHHHHHHHHHHHHHHHHhccCcEEEEEecccc
Q 021239          196 SGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVRF  258 (315)
Q Consensus       196 ~~~~~lVVIDsl~~l~~~~~~~~~~~~~~~~~q~r~i~~~l~~L~~~~~~~~i~VI~inq~~~  258 (315)
                      ...+.+++||.+..+.+....  .    ......+...++++.+...-...++.||.+++...
T Consensus       295 ~~~p~iLfLDEId~l~~~~~~--~----~~~~~~~~~~~LL~~ld~~~~~~~v~vIaaTn~~~  351 (489)
T 3hu3_A          295 KNAPAIIFIDELDAIAPKREK--T----HGEVERRIVSQLLTLMDGLKQRAHVIVMAATNRPN  351 (489)
T ss_dssp             HTCSEEEEEESHHHHCBCTTS--C----CCHHHHHHHHHHHHHHHHSCTTSCEEEEEEESCGG
T ss_pred             hcCCcEEEecchhhhcccccc--c----cchHHHHHHHHHHHHhhccccCCceEEEEecCCcc
Confidence            457889999999999853211  1    11122233344444443332344667776665443

>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=97.79  E-value=8e-05  Score=62.83  Aligned_cols=84  Identities=17%  Similarity=0.207  Sum_probs=58.1

Q ss_pred             EEEEE-ecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCChHHHHHcCCCCCCeEEeCCCCHHHHHHHHHHHHHcCCcc
Q 021239          122 IVEIY-GREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTKSGSID  200 (315)
Q Consensus       122 i~~i~-G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~~~~~~~g~~~~~l~i~~~~~~e~~~~~i~~l~~~~~~~  200 (315)
                      ++.|+ +..|+||||++.++|..++..|.+|+++|++.....  ...++....++.+..... +.+...+..+.  ..++
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            44555 668899999999999999999999999999854332  233344444555555444 55555555553  3589


Q ss_pred             EEeehhHhhh
Q 021239          201 VIVVDSVAAL  210 (315)
Q Consensus       201 lVVIDsl~~l  210 (315)
                      +||||.-..+
T Consensus        78 ~viiD~~~~~   87 (206)
T 4dzz_A           78 FAIVDGAGSL   87 (206)
T ss_dssp             EEEEECCSSS
T ss_pred             EEEEECCCCC
Confidence            9999975433

>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=97.78  E-value=1.8e-05  Score=73.74  Aligned_cols=110  Identities=13%  Similarity=0.129  Sum_probs=63.6

Q ss_pred             CCCcEEEEEecCCCChhHHHHHHHHHHHhc-CCeEEEEecCCCCChHHHHHcCCCCCCeEEeC---CCCHHHHHHHHHHH
Q 021239          118 PKGRIVEIYGREASGKTTLALHVIKEAQKL-GGYCAYLDVENALDPSLAEAMGIDAENLLIAQ---PDSAENLLSVVDTL  193 (315)
Q Consensus       118 ~~G~i~~i~G~~GsGKTtlal~la~~~~~~-g~~v~~i~~E~~~~~~~~~~~g~~~~~l~i~~---~~~~e~~~~~i~~l  193 (315)
                      .+|.+++|.||+||||||++..++...... ++.++.+.  +..+..      .....-.+.+   ......+.+.+...
T Consensus       121 ~~~g~i~I~GptGSGKTTlL~~l~g~~~~~~~~~i~t~e--d~~e~~------~~~~~~~v~q~~~~~~~~~~~~~La~a  192 (356)
T 3jvv_A          121 VPRGLVLVTGPTGSGKSTTLAAMLDYLNNTKYHHILTIE--DPIEFV------HESKKCLVNQREVHRDTLGFSEALRSA  192 (356)
T ss_dssp             CSSEEEEEECSTTSCHHHHHHHHHHHHHHHCCCEEEEEE--SSCCSC------CCCSSSEEEEEEBTTTBSCHHHHHHHH
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHhcccCCCCcEEEEcc--CcHHhh------hhccccceeeeeeccccCCHHHHHHHH
Confidence            567799999999999999999888877665 55654443  322210      0000001111   00111233344444


Q ss_pred             HHcCCccEEeehhHhhhccccccCCCccCCChHHHHHHHHHHHHHHHHHHhccCcEEEEEecccccc
Q 021239          194 TKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVRFSA  260 (315)
Q Consensus       194 ~~~~~~~lVVIDsl~~l~~~~~~~~~~~~~~~~~q~r~i~~~l~~L~~~~~~~~i~VI~inq~~~~~  260 (315)
                      +. .+|+++++|.+...                    +..+.+.++    .+.|.+|+++.|..+..
T Consensus       193 L~-~~PdvillDEp~d~--------------------e~~~~~~~~----~~~G~~vl~t~H~~~~~  234 (356)
T 3jvv_A          193 LR-EDPDIILVGEMRDL--------------------ETIRLALTA----AETGHLVFGTLHTTSAA  234 (356)
T ss_dssp             TT-SCCSEEEESCCCSH--------------------HHHHHHHHH----HHTTCEEEEEESCSSHH
T ss_pred             hh-hCcCEEecCCCCCH--------------------HHHHHHHHH----HhcCCEEEEEEccChHH
Confidence            43 58999999977511                    112222222    34699999999987654

>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein, calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides} PDB: 3syk_A 3zuh_A*

Probab=97.77  E-value=0.00015  Score=65.20  Aligned_cols=76  Identities=20%  Similarity=0.239  Sum_probs=47.9

Q ss_pred             CCCcEEEEEecCCCChhHHHHHHHHHHHhcC----CeEEEEecCCCCChHHHHHcCCCCCCeEEeCCCCHHHHHHHHHHH
Q 021239          118 PKGRIVEIYGREASGKTTLALHVIKEAQKLG----GYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTL  193 (315)
Q Consensus       118 ~~G~i~~i~G~~GsGKTtlal~la~~~~~~g----~~v~~i~~E~~~~~~~~~~~g~~~~~l~i~~~~~~e~~~~~i~~l  193 (315)
                      .++..++|+||||+|||+++..++..+...+    .++++++...-...            +   ........    ...
T Consensus        65 ~~~~~vll~G~~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~l~~~------------~---~g~~~~~~----~~~  125 (309)
T 3syl_A           65 TPTLHMSFTGNPGTGKTTVALKMAGLLHRLGYVRKGHLVSVTRDDLVGQ------------Y---IGHTAPKT----KEV  125 (309)
T ss_dssp             CCCCEEEEEECTTSSHHHHHHHHHHHHHHTTSSSSCCEEEECGGGTCCS------------S---TTCHHHHH----HHH
T ss_pred             CCCceEEEECCCCCCHHHHHHHHHHHHHhcCCcCCCcEEEEcHHHhhhh------------c---ccccHHHH----HHH
Confidence            4566799999999999999999988876543    36777764322110            0   00011122    222


Q ss_pred             HHcCCccEEeehhHhhhcc
Q 021239          194 TKSGSIDVIVVDSVAALIP  212 (315)
Q Consensus       194 ~~~~~~~lVVIDsl~~l~~  212 (315)
                      +......+++||.+..+..
T Consensus       126 ~~~~~~~vl~iDEid~l~~  144 (309)
T 3syl_A          126 LKRAMGGVLFIDEAYYLYR  144 (309)
T ss_dssp             HHHHTTSEEEEETGGGSCC
T ss_pred             HHhcCCCEEEEEChhhhcc
Confidence            2222568999999998873

>1yqt_A RNAse L inhibitor; ATP-binding cassette, ribosome biogenesis, hydrolyase/translation complex; HET: ADP; 1.90A {Pyrococcus furiosus}

Probab=97.75  E-value=1.7e-05  Score=77.97  Aligned_cols=126  Identities=18%  Similarity=0.227  Sum_probs=69.5

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHhcC------CeEEEEecCCCCCh-----HHH-----HH-------------
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLG------GYCAYLDVENALDP-----SLA-----EA-------------  167 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~~g------~~v~~i~~E~~~~~-----~~~-----~~-------------  167 (315)
                      +++|+++.|.||+|+|||||+..++.......      .++.|+.-+.....     +..     ..             
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            36899999999999999999988876544322      24566654432210     110     00             


Q ss_pred             cCCCC-CCeEEeCCCCHHH-HHHHHHHHHHcCCccEEeehhHhhhccccccCCCccCCChHHHHHHHHHHHHHHHHHHhc
Q 021239          168 MGIDA-ENLLIAQPDSAEN-LLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQ  245 (315)
Q Consensus       168 ~g~~~-~~l~i~~~~~~e~-~~~~i~~l~~~~~~~lVVIDsl~~l~~~~~~~~~~~~~~~~~q~r~i~~~l~~L~~~~~~  245 (315)
                      +|+.. .+-.+..-...+. -+.+.+.++  .+++++++|..+.-..             ......+.+.++++   +++
T Consensus       389 ~~l~~~~~~~~~~LSGGe~qrv~lAraL~--~~p~lLlLDEPt~~LD-------------~~~~~~i~~~l~~l---~~~  450 (538)
T 1yqt_A          389 LGIIDLYDREVNELSGGELQRVAIAATLL--RDADIYLLDEPSAYLD-------------VEQRLAVSRAIRHL---MEK  450 (538)
T ss_dssp             TTCGGGTTSBGGGCCHHHHHHHHHHHHHT--SCCSEEEEECTTTTCC-------------HHHHHHHHHHHHHH---HHH
T ss_pred             cCChhhhcCChhhCCHHHHHHHHHHHHHH--hCCCEEEEeCCcccCC-------------HHHHHHHHHHHHHH---HHh
Confidence            01100 0000111111222 223333332  4789999998776552             12223355555554   367


Q ss_pred             cCcEEEEEecccccc
Q 021239          246 SHTLIIFLNQVRFSA  260 (315)
Q Consensus       246 ~~i~VI~inq~~~~~  260 (315)
                      .+.+||+++|-....
T Consensus       451 ~g~tvi~vsHd~~~~  465 (538)
T 1yqt_A          451 NEKTALVVEHDVLMI  465 (538)
T ss_dssp             HTCEEEEECSCHHHH
T ss_pred             CCCEEEEEeCCHHHH
Confidence            799999999976544

>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=97.75  E-value=6.7e-05  Score=66.28  Aligned_cols=68  Identities=25%  Similarity=0.312  Sum_probs=39.8

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHH--HHhcCCeEEEEecCCCC--Ch-HHHH-HcCCCCCCeEEeCCCCHHH
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKE--AQKLGGYCAYLDVENAL--DP-SLAE-AMGIDAENLLIAQPDSAEN  185 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~--~~~~g~~v~~i~~E~~~--~~-~~~~-~~g~~~~~l~i~~~~~~e~  185 (315)
                      +++|+++.|.||+|+|||||+..++..  .....+.+ +++.....  .. .+.+ .+++.+++..+....+..+
T Consensus        26 i~~Ge~~~l~G~nGsGKSTLlk~l~Gl~~~~p~~G~I-~~~g~~~~~~~~~~~~~~~i~~v~q~~~~~~~~tv~e   99 (250)
T 2d2e_A           26 VPKGEVHALMGPNGAGKSTLGKILAGDPEYTVERGEI-LLDGENILELSPDERARKGLFLAFQYPVEVPGVTIAN   99 (250)
T ss_dssp             EETTCEEEEECSTTSSHHHHHHHHHTCTTCEEEEEEE-EETTEECTTSCHHHHHHTTBCCCCCCCC-CCSCBHHH
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhCCCCCCCCceEE-EECCEECCCCCHHHHHhCcEEEeccCCccccCCCHHH
Confidence            679999999999999999999888764  22233444 44432211  11 2222 3566666544433334433

>4fcw_A Chaperone protein CLPB; AAA domain; HET: ADP; 2.35A {Thermus thermophilus} PDB: 4fcv_A* 4fd2_A* 4fct_A*

Probab=97.74  E-value=0.00012  Score=65.83  Aligned_cols=85  Identities=14%  Similarity=0.151  Sum_probs=54.7

Q ss_pred             CcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCCh-HHHHHcCCCCCCeEEeCCCCHHHHHHHHHHHHHcCC
Q 021239          120 GRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP-SLAEAMGIDAENLLIAQPDSAENLLSVVDTLTKSGS  198 (315)
Q Consensus       120 G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~-~~~~~~g~~~~~l~i~~~~~~e~~~~~i~~l~~~~~  198 (315)
                      ...++|+||||+|||+++..++......+.++++++...-... ...+-+|......-....   ..+    ...+....
T Consensus        47 ~~~~ll~G~~GtGKt~la~~la~~~~~~~~~~~~~~~~~~~~~~~~~~l~g~~~~~~~~~~~---~~~----~~~~~~~~  119 (311)
T 4fcw_A           47 IGSFLFLGPTGVGKTELAKTLAATLFDTEEAMIRIDMTEYMEKHAVSRLIGAPPGYVGYEEG---GQL----TEAVRRRP  119 (311)
T ss_dssp             SEEEEEESCSSSSHHHHHHHHHHHHHSCGGGEEEEEGGGCCSTTHHHHHHCCCTTSTTTTTC---CHH----HHHHHHCS
T ss_pred             ceEEEEECCCCcCHHHHHHHHHHHHcCCCcceEEeecccccccccHHHhcCCCCcccccccc---chH----HHHHHhCC
Confidence            4589999999999999999999888777778888887654433 233444543321111000   112    22333345


Q ss_pred             ccEEeehhHhhhc
Q 021239          199 IDVIVVDSVAALI  211 (315)
Q Consensus       199 ~~lVVIDsl~~l~  211 (315)
                      ..+++||.+..+.
T Consensus       120 ~~vl~lDEi~~l~  132 (311)
T 4fcw_A          120 YSVILFDAIEKAH  132 (311)
T ss_dssp             SEEEEEETGGGSC
T ss_pred             CeEEEEeChhhcC
Confidence            6899999997664

>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=97.74  E-value=0.0001  Score=73.42  Aligned_cols=126  Identities=17%  Similarity=0.213  Sum_probs=70.5

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHhcC------CeEEEEecCCCCCh-----HH------------------HHH
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLG------GYCAYLDVENALDP-----SL------------------AEA  167 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~~g------~~v~~i~~E~~~~~-----~~------------------~~~  167 (315)
                      +++|+++.|.||+|+|||||+..++.......      .++.|+.-+.....     +.                  ++.
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            46899999999999999999988876543322      24556654432210     00                  011


Q ss_pred             cCCCC-CCeEEeCCCCHHH-HHHHHHHHHHcCCccEEeehhHhhhccccccCCCccCCChHHHHHHHHHHHHHHHHHHhc
Q 021239          168 MGIDA-ENLLIAQPDSAEN-LLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQ  245 (315)
Q Consensus       168 ~g~~~-~~l~i~~~~~~e~-~~~~i~~l~~~~~~~lVVIDsl~~l~~~~~~~~~~~~~~~~~q~r~i~~~l~~L~~~~~~  245 (315)
                      +|+.. .+-.+..-...+. -+.+.+.++  .+++++++|..+....             ......+.+.++++.   ++
T Consensus       459 ~~l~~~~~~~~~~LSGGe~QRv~iAraL~--~~p~lLlLDEPt~~LD-------------~~~~~~l~~~l~~l~---~~  520 (607)
T 3bk7_A          459 LGIIDLYDRNVEDLSGGELQRVAIAATLL--RDADIYLLDEPSAYLD-------------VEQRLAVSRAIRHLM---EK  520 (607)
T ss_dssp             HTCTTTTTSBGGGCCHHHHHHHHHHHHHT--SCCSEEEEECTTTTCC-------------HHHHHHHHHHHHHHH---HH
T ss_pred             cCCchHhcCChhhCCHHHHHHHHHHHHHH--hCCCEEEEeCCccCCC-------------HHHHHHHHHHHHHHH---Hh
Confidence            12210 0001111111222 233333332  4789999998776652             122333555555553   67


Q ss_pred             cCcEEEEEecccccc
Q 021239          246 SHTLIIFLNQVRFSA  260 (315)
Q Consensus       246 ~~i~VI~inq~~~~~  260 (315)
                      .+.+||+++|.....
T Consensus       521 ~g~tvi~vsHd~~~~  535 (607)
T 3bk7_A          521 NEKTALVVEHDVLMI  535 (607)
T ss_dssp             TTCEEEEECSCHHHH
T ss_pred             CCCEEEEEeCCHHHH
Confidence            799999999975443

>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=97.74  E-value=2.2e-05  Score=75.19  Aligned_cols=80  Identities=20%  Similarity=0.288  Sum_probs=49.6

Q ss_pred             CCCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCChHHHHHcCCCCCCeEEeCCCCHHHHHHHHHHHH
Q 021239          115 GGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLT  194 (315)
Q Consensus       115 GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~~~~~~~g~~~~~l~i~~~~~~e~~~~~i~~l~  194 (315)
                      |+..+..-++|+||||+|||++|..++...  .+.++++++...-...    ..|.        .......++..    .
T Consensus       162 ~~~~~~~~vLL~GppGtGKT~lA~aia~~~--~~~~~~~v~~~~l~~~----~~g~--------~~~~~~~~f~~----a  223 (444)
T 2zan_A          162 GKRTPWRGILLFGPPGTGKSYLAKAVATEA--NNSTFFSISSSDLVSK----WLGE--------SEKLVKNLFQL----A  223 (444)
T ss_dssp             GGGCCCSEEEEECSTTSSHHHHHHHHHHHC--CSSEEEEECCC---------------------CCCTHHHHHHH----H
T ss_pred             ccCCCCceEEEECCCCCCHHHHHHHHHHHc--CCCCEEEEeHHHHHhh----hcch--------HHHHHHHHHHH----H
Confidence            345667789999999999999999988765  2456666665322110    0110        01122333332    2


Q ss_pred             HcCCccEEeehhHhhhcc
Q 021239          195 KSGSIDVIVVDSVAALIP  212 (315)
Q Consensus       195 ~~~~~~lVVIDsl~~l~~  212 (315)
                      ....+.+|+||.+..+.+
T Consensus       224 ~~~~~~vl~iDEid~l~~  241 (444)
T 2zan_A          224 RENKPSIIFIDEIDSLCG  241 (444)
T ss_dssp             HHSCSEEEEESCTTTTCC
T ss_pred             HHcCCeEEEEechHhhcc
Confidence            345789999999998874

>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=97.73  E-value=6e-05  Score=74.65  Aligned_cols=38  Identities=32%  Similarity=0.500  Sum_probs=29.4

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEe
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLD  155 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~  155 (315)
                      +++|+.+.|.||+|+|||||+..++.......+.+ +++
T Consensus       366 i~~G~~~~ivG~sGsGKSTLl~~l~g~~~p~~G~i-~~~  403 (582)
T 3b60_A          366 IPAGKTVALVGRSGSGKSTIASLITRFYDIDEGHI-LMD  403 (582)
T ss_dssp             ECTTCEEEEEECTTSSHHHHHHHHTTTTCCSEEEE-EET
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhhccCCCCCeE-EEC
Confidence            67999999999999999999988776554433443 444

>3qf4_B Uncharacterized ABC transporter ATP-binding prote TM_0288; multidrug transporter, transport protein; HET: ANP; 2.90A {Thermotoga maritima}

Probab=97.70  E-value=4.6e-05  Score=75.79  Aligned_cols=35  Identities=26%  Similarity=0.313  Sum_probs=27.8

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeE
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYC  151 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v  151 (315)
                      +++|+.+.|.||+|+|||||+..++.......+.+
T Consensus       378 i~~G~~~~ivG~sGsGKSTll~~l~g~~~p~~G~i  412 (598)
T 3qf4_B          378 IKPGQKVALVGPTGSGKTTIVNLLMRFYDVDRGQI  412 (598)
T ss_dssp             CCTTCEEEEECCTTSSTTHHHHHHTTSSCCSEEEE
T ss_pred             EcCCCEEEEECCCCCcHHHHHHHHhcCcCCCCeEE
Confidence            78999999999999999999987766554433333

>1yqt_A RNAse L inhibitor; ATP-binding cassette, ribosome biogenesis, hydrolyase/translation complex; HET: ADP; 1.90A {Pyrococcus furiosus}

Probab=97.70  E-value=0.00013  Score=71.61  Aligned_cols=28  Identities=25%  Similarity=0.398  Sum_probs=24.9

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHH
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEA  144 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~  144 (315)
                      +++|+++.|.||+|+|||||+..++...
T Consensus        44 i~~Ge~~~LvG~NGaGKSTLlk~l~Gl~   71 (538)
T 1yqt_A           44 VKEGMVVGIVGPNGTGKSTAVKILAGQL   71 (538)
T ss_dssp             CCTTSEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             CCCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            4799999999999999999998887644

>2xxa_A Signal recognition particle protein; protein transport, RNA/RNA binding protein, hydrolase, gtpas; HET: GCP; 3.94A {Escherichia coli} PDB: 2j28_9

Probab=97.70  E-value=0.00013  Score=69.69  Aligned_cols=83  Identities=20%  Similarity=0.241  Sum_probs=56.8

Q ss_pred             CcEEEEEecCCCChhHHHHHHHHHHHhc-CCeEEEEecCCCCChH------HHHHcCCCCCCeEEeCC---CCHHHHH-H
Q 021239          120 GRIVEIYGREASGKTTLALHVIKEAQKL-GGYCAYLDVENALDPS------LAEAMGIDAENLLIAQP---DSAENLL-S  188 (315)
Q Consensus       120 G~i~~i~G~~GsGKTtlal~la~~~~~~-g~~v~~i~~E~~~~~~------~~~~~g~~~~~l~i~~~---~~~e~~~-~  188 (315)
                      ..++.++|++|+||||++..+|..++.. |.+|++++++......      +.+..+++     +...   .+..++. .
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            4688899999999999999999999998 9999999998654431      23333432     2221   2334442 2


Q ss_pred             HHHHHHHcCCccEEeehhHh
Q 021239          189 VVDTLTKSGSIDVIVVDSVA  208 (315)
Q Consensus       189 ~i~~l~~~~~~~lVVIDsl~  208 (315)
                      .+..+ ...+.++|+||...
T Consensus       175 ~l~~~-~~~~~D~VIIDTpG  193 (433)
T 2xxa_A          175 ALKEA-KLKFYDVLLVDTAG  193 (433)
T ss_dssp             HHHHH-HHTTCSEEEEECCC
T ss_pred             HHHHH-HhCCCCEEEEECCC
Confidence            33332 33578999999853

>3n70_A Transport activator; sigma-54, ntpase, PSI, MCSG, structural genomics, center for structural genomics; 2.80A {Escherichia coli}

Probab=97.69  E-value=3.6e-05  Score=61.95  Aligned_cols=38  Identities=18%  Similarity=0.134  Sum_probs=29.5

Q ss_pred             CCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecC
Q 021239          119 KGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVE  157 (315)
Q Consensus       119 ~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E  157 (315)
                      .+.-++|+||||+|||++|..++......+.+.+ ++..
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            4456899999999999999988776655566666 6654

>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=97.69  E-value=0.00025  Score=68.25  Aligned_cols=114  Identities=19%  Similarity=0.331  Sum_probs=75.2

Q ss_pred             CCCCCccccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCCh--HHHHHc---C
Q 021239           95 SRRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP--SLAEAM---G  169 (315)
Q Consensus        95 ~~~~~~i~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~--~~~~~~---g  169 (315)
                      ....+.+.||+..+|.++.   +-+|.-..|.|++|+|||++++..+.+....+..|+|....+....  ...+.+   |
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            3456889999999999987   6789999999999999999988777666555667888877665443  222222   2


Q ss_pred             -CCCCCeEEeCCC-C-HHHH------HHHHHHHHHcCCccEEeehhHhhhc
Q 021239          170 -IDAENLLIAQPD-S-AENL------LSVVDTLTKSGSIDVIVVDSVAALI  211 (315)
Q Consensus       170 -~~~~~l~i~~~~-~-~e~~------~~~i~~l~~~~~~~lVVIDsl~~l~  211 (315)
                       ++-.-+.....+ + ..+.      ....+.+..++.--++++|+++.+.
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             221122233322 2 2222      2233445556666799999998765

>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=97.68  E-value=0.0001  Score=68.37  Aligned_cols=87  Identities=20%  Similarity=0.263  Sum_probs=57.0

Q ss_pred             CcEEEEEecCCCChhHHHHHHHHHHHhc--------CCeEEEEecCCCC-Ch-----HHHHHc-CCCCCCeEEeCCCCHH
Q 021239          120 GRIVEIYGREASGKTTLALHVIKEAQKL--------GGYCAYLDVENAL-DP-----SLAEAM-GIDAENLLIAQPDSAE  184 (315)
Q Consensus       120 G~i~~i~G~~GsGKTtlal~la~~~~~~--------g~~v~~i~~E~~~-~~-----~~~~~~-g~~~~~l~i~~~~~~e  184 (315)
                      +..++|+||||+|||+++..++......        +..++|++..... ..     .....+ |.....    ...+..
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            4589999999999999999998887654        7788999864432 22     123333 332111    112234


Q ss_pred             HHHHHHHHHHHcCCccEEeehhHhhhc
Q 021239          185 NLLSVVDTLTKSGSIDVIVVDSVAALI  211 (315)
Q Consensus       185 ~~~~~i~~l~~~~~~~lVVIDsl~~l~  211 (315)
                      +++..+...+...++ +|+||.+..+.
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            555655555554445 99999999886

>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=97.68  E-value=0.00031  Score=67.87  Aligned_cols=113  Identities=18%  Similarity=0.301  Sum_probs=73.8

Q ss_pred             CCCCccccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHh--------cCCeEEEEecCCCCCh--HHH
Q 021239           96 RRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQK--------LGGYCAYLDVENALDP--SLA  165 (315)
Q Consensus        96 ~~~~~i~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~--------~g~~v~~i~~E~~~~~--~~~  165 (315)
                      ...+.+.||+..+|.++.   +-+|.-..|.|++|+|||++++..+.+...        .+..|+|....+....  ...
T Consensus       141 ~v~epl~TGiraID~l~P---igrGQR~~I~g~~g~GKT~Lal~~I~~q~~~~~~~~~~~d~~~V~~~IGeR~~Ev~~~~  217 (510)
T 2ck3_A          141 SVREPMQTGIKAVDSLVP---IGRGQRELIIGDRQTGKTSIAIDTIINQKRFNDGTDEKKKLYCIYVAIGQKRSTVAQLV  217 (510)
T ss_dssp             CCCSBCCCSCHHHHHHSC---CBTTCBCEEEESTTSSHHHHHHHHHHHTHHHHTSCCTTTCCEEEEEEESCCHHHHHHHH
T ss_pred             ccCccccccceeeccccc---cccCCEEEEecCCCCCchHHHHHHHHHHHhhccccccCCCeEEEEEECCCCcHHHHHHH
Confidence            456789999999999987   778999999999999999998766666555        4456888877665543  222


Q ss_pred             HHc---C-CCCCCeEEeCCCC--HHHH------HHHHHHHHHcCCccEEeehhHhhhc
Q 021239          166 EAM---G-IDAENLLIAQPDS--AENL------LSVVDTLTKSGSIDVIVVDSVAALI  211 (315)
Q Consensus       166 ~~~---g-~~~~~l~i~~~~~--~e~~------~~~i~~l~~~~~~~lVVIDsl~~l~  211 (315)
                      +.+   | ++-.-+.....+.  ....      ....+.+..++.--++++|+++.+.
T Consensus       218 ~~~~~~g~m~~tvvV~atad~p~~~r~~a~~~a~tiAEyfrd~G~dVLli~Dsltr~A  275 (510)
T 2ck3_A          218 KRLTDADAMKYTIVVSATASDAAPLQYLAPYSGCSMGEYFRDNGKHALIIYDDLSKQA  275 (510)
T ss_dssp             HHHHHTTCGGGEEEEEECTTSCHHHHHHHHHHHHHHHHHHHTTTCEEEEEEETHHHHH
T ss_pred             HHHHhcCCcccceEEEECCCCCHHHHHHHHHHHHHHHHHHHHcCCcEEEEEcCHHHHH
Confidence            222   2 1111222333322  2222      2333445555566799999998775

>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A {Homo sapiens}

Probab=97.67  E-value=0.00013  Score=65.22  Aligned_cols=75  Identities=31%  Similarity=0.302  Sum_probs=44.8

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCChHHHHHcCCCCCCeEEeCCCCHHHHHHHHHHHHHc
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTKS  196 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~~~~~~~g~~~~~l~i~~~~~~e~~~~~i~~l~~~  196 (315)
                      +++|  ++|+||||+|||||+..++...   +...++++...-...                .....+..+..+-+....
T Consensus        43 ~~~G--vlL~Gp~GtGKTtLakala~~~---~~~~i~i~g~~l~~~----------------~~~~~~~~i~~vf~~a~~  101 (274)
T 2x8a_A           43 TPAG--VLLAGPPGCGKTLLAKAVANES---GLNFISVKGPELLNM----------------YVGESERAVRQVFQRAKN  101 (274)
T ss_dssp             CCSE--EEEESSTTSCHHHHHHHHHHHT---TCEEEEEETTTTCSS----------------TTHHHHHHHHHHHHHHHH
T ss_pred             CCCe--EEEECCCCCcHHHHHHHHHHHc---CCCEEEEEcHHHHhh----------------hhhHHHHHHHHHHHHHHh
Confidence            3455  9999999999999999887764   334566664321110                000112222222222234


Q ss_pred             CCccEEeehhHhhhcc
Q 021239          197 GSIDVIVVDSVAALIP  212 (315)
Q Consensus       197 ~~~~lVVIDsl~~l~~  212 (315)
                      ..+.++++|.+..+..
T Consensus       102 ~~p~i~~~Deid~~~~  117 (274)
T 2x8a_A          102 SAPCVIFFDEVDALCP  117 (274)
T ss_dssp             TCSEEEEEETCTTTCC
T ss_pred             cCCCeEeeehhhhhhc
Confidence            5688999999988763

>3zq6_A Putative arsenical pump-driving ATPase; tail-anchored, membrane protein; HET: ADP; 2.11A {Methanothermobacter thermautotrophicusorganism_taxid}

Probab=97.67  E-value=0.00017  Score=66.01  Aligned_cols=40  Identities=23%  Similarity=0.199  Sum_probs=37.0

Q ss_pred             cEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCC
Q 021239          121 RIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENAL  160 (315)
Q Consensus       121 ~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~  160 (315)
                      .++.+.|..|+||||++.++|..+++.|.+|+++|++...
T Consensus        15 ~i~v~sgKGGvGKTTvA~~LA~~lA~~G~rVLlvD~D~~~   54 (324)
T 3zq6_A           15 TFVFIGGKGGVGKTTISAATALWMARSGKKTLVISTDPAH   54 (324)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHHHHHTTCCEEEEECCSSC
T ss_pred             EEEEEeCCCCchHHHHHHHHHHHHHHCCCcEEEEeCCCCc
Confidence            6888899999999999999999999999999999998743

>2qe7_A ATP synthase subunit alpha; blockage of ATP hydrolysis, F1-ATPase, single analysis, thermoalkaliphilic, hydrolase; 3.06A {Bacillus SP} PDB: 1sky_B

Probab=97.66  E-value=0.00025  Score=68.38  Aligned_cols=114  Identities=18%  Similarity=0.265  Sum_probs=75.3

Q ss_pred             CCCCCccccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCCh--HHHHH---cC
Q 021239           95 SRRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP--SLAEA---MG  169 (315)
Q Consensus        95 ~~~~~~i~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~--~~~~~---~g  169 (315)
                      ....+.+.||+..+|.++.   +-+|.-..|.|++|+|||++++..+.+....+..|+|....+....  ...+.   -|
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            3456789999999999987   7789999999999999999988777776655556788877665543  22222   22


Q ss_pred             -CCCCCeEEeCCCC--HHHH------HHHHHHHHHcCCccEEeehhHhhhc
Q 021239          170 -IDAENLLIAQPDS--AENL------LSVVDTLTKSGSIDVIVVDSVAALI  211 (315)
Q Consensus       170 -~~~~~l~i~~~~~--~e~~------~~~i~~l~~~~~~~lVVIDsl~~l~  211 (315)
                       ++-.-+.....+.  ....      ....+.+..++.--++++|+++.+.
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             2211223333322  2222      2334445555566799999998775

>4a82_A Cystic fibrosis transmembrane conductance regulat; CFTR, ION channel, transport protein, casse protein; 2.00A {Homo sapiens} PDB: 2onj_A* 2hyd_A

Probab=97.64  E-value=4.7e-05  Score=75.40  Aligned_cols=35  Identities=26%  Similarity=0.311  Sum_probs=27.7

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeE
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYC  151 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v  151 (315)
                      +++|+++.|.||+|+|||||+..++.......+.+
T Consensus       364 i~~G~~~~ivG~sGsGKSTll~~l~g~~~p~~G~i  398 (578)
T 4a82_A          364 IEKGETVAFVGMSGGGKSTLINLIPRFYDVTSGQI  398 (578)
T ss_dssp             ECTTCEEEEECSTTSSHHHHHTTTTTSSCCSEEEE
T ss_pred             ECCCCEEEEECCCCChHHHHHHHHhcCCCCCCcEE
Confidence            68999999999999999999987765554433333

>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=97.63  E-value=2.5e-05  Score=79.88  Aligned_cols=118  Identities=18%  Similarity=0.170  Sum_probs=64.0

Q ss_pred             CCCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCChHHHHHcCCCCCCeEEeCCCCHHHHHHHHHHHH
Q 021239          115 GGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLT  194 (315)
Q Consensus       115 GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~~~~~~~g~~~~~l~i~~~~~~e~~~~~i~~l~  194 (315)
                      .|+.+..-++++||||+|||.+|..+|.++   +.+.+.++.     ......           .....+..+..+-...
T Consensus       506 ~g~~~~~gvLl~GPPGtGKT~lAkaiA~e~---~~~f~~v~~-----~~l~s~-----------~vGese~~vr~lF~~A  566 (806)
T 3cf2_A          506 FGMTPSKGVLFYGPPGCGKTLLAKAIANEC---QANFISIKG-----PELLTM-----------WFGESEANVREIFDKA  566 (806)
T ss_dssp             SCCCCCSCCEEESSTTSSHHHHHHHHHHTT---TCEEEECCH-----HHHHTT-----------TCSSCHHHHHHHHHHH
T ss_pred             cCCCCCceEEEecCCCCCchHHHHHHHHHh---CCceEEecc-----chhhcc-----------ccchHHHHHHHHHHHH
Confidence            577777789999999999999999887766   333333321     011110           0112244444444445


Q ss_pred             HcCCccEEeehhHhhhccccccCCCccCCChHHHHHHHHHHHHHHHHHHhccCcEEEEEe
Q 021239          195 KSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLN  254 (315)
Q Consensus       195 ~~~~~~lVVIDsl~~l~~~~~~~~~~~~~~~~~q~r~i~~~l~~L~~~~~~~~i~VI~in  254 (315)
                      +...|.+|+||.+..+.+.-.... . + ......+.+.++|..+..+-...++.||..+
T Consensus       567 r~~~P~IifiDEiDsl~~~R~~~~-~-~-~~~~~~rv~~~lL~~mdg~~~~~~V~vi~aT  623 (806)
T 3cf2_A          567 RQAAPCVLFFDELDSIAKARGGNI-G-D-GGGAADRVINQILTEMDGMSTKKNVFIIGAT  623 (806)
T ss_dssp             HTTCSEEEECSCGGGCC-----------------CHHHHHHHHHHHSSCSSSSEEEECC-
T ss_pred             HHcCCceeechhhhHHhhccCCCC-C-C-CchHHHHHHHHHHHHHhCCCCCCCEEEEEeC
Confidence            567899999999999984321110 0 0 0012234456666666544344566666433

>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=97.61  E-value=0.00023  Score=68.71  Aligned_cols=113  Identities=19%  Similarity=0.364  Sum_probs=74.3

Q ss_pred             CCCCccccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCCh--HHHHHc---C-
Q 021239           96 RRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP--SLAEAM---G-  169 (315)
Q Consensus        96 ~~~~~i~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~--~~~~~~---g-  169 (315)
                      ...+.+.||+..+|.++.   +-+|.-..|.|++|+|||++++..+.+....+..|+|....+....  ...+.+   | 
T Consensus       154 ~v~epl~TGiraID~l~P---igrGQR~~I~g~~g~GKT~Lal~~I~~~~~~dv~~V~~~IGeR~~Ev~e~~~~~~~~g~  230 (515)
T 2r9v_A          154 PVDTPLQTGIKAIDSMIP---IGRGQRELIIGDRQTGKTAIAIDTIINQKGQGVYCIYVAIGQKKSAIARIIDKLRQYGA  230 (515)
T ss_dssp             CCCSEECCSCHHHHHHSC---EETTCBEEEEEETTSSHHHHHHHHHHTTTTTTEEEEEEEESCCHHHHHHHHHHHHHTTG
T ss_pred             CCCcchhcCccccccccc---cccCCEEEEEcCCCCCccHHHHHHHHHhhcCCcEEEEEEcCCCcHHHHHHHHHHHhCCC
Confidence            456789999999999987   7799999999999999999988777776655556788877665543  222222   1 


Q ss_pred             CCCCCeEEeCCCC--HHHH------HHHHHHHHHcCCccEEeehhHhhhc
Q 021239          170 IDAENLLIAQPDS--AENL------LSVVDTLTKSGSIDVIVVDSVAALI  211 (315)
Q Consensus       170 ~~~~~l~i~~~~~--~e~~------~~~i~~l~~~~~~~lVVIDsl~~l~  211 (315)
                      ++-.-+.....+.  ...+      ....+.+..++.--++++||++.+.
T Consensus       231 m~rtvvV~atad~p~~~r~~a~~~a~tiAEyfrd~G~dVLli~DslTr~A  280 (515)
T 2r9v_A          231 MEYTTVVVASASDPASLQYIAPYAGCAMGEYFAYSGRDALVVYDDLSKHA  280 (515)
T ss_dssp             GGGEEEEEECTTSCHHHHHHHHHHHHHHHHHHHTTTCEEEEEEETHHHHH
T ss_pred             cceeEEEEECCCCCHHHHHHHHHHHHHHHHHHHHcCCcEEEEeccHHHHH
Confidence            1111122333322  2222      2333445555666799999998775

>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=97.60  E-value=4.2e-05  Score=72.07  Aligned_cols=38  Identities=29%  Similarity=0.414  Sum_probs=29.3

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEec
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDV  156 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~  156 (315)
                      +++|+++.|.||+|||||||+..++.-.. ..+. ++++.
T Consensus        44 i~~Ge~~~llGpsGsGKSTLLr~iaGl~~-~~G~-I~i~G   81 (390)
T 3gd7_A           44 ISPGQRVGLLGRTGSGKSTLLSAFLRLLN-TEGE-IQIDG   81 (390)
T ss_dssp             ECTTCEEEEEESTTSSHHHHHHHHHTCSE-EEEE-EEESS
T ss_pred             EcCCCEEEEECCCCChHHHHHHHHhCCCC-CCeE-EEECC
Confidence            67999999999999999999988876543 3333 44544

>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=97.57  E-value=4.6e-05  Score=63.69  Aligned_cols=39  Identities=23%  Similarity=0.210  Sum_probs=30.7

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecC
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVE  157 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E  157 (315)
                      ++++|.++.|.|+||+||||++..++..   .+...++++.+
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            5789999999999999999999988764   34445677653

>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=97.57  E-value=0.00054  Score=63.42  Aligned_cols=54  Identities=17%  Similarity=0.135  Sum_probs=43.9

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCChHHHHHcCCC
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGID  171 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~~~~~~~g~~  171 (315)
                      .-+.-.++.+.|..|+||||++.++|..++..|.+|+.+|++..  ......+|.+
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            33455678888999999999999999999999999999999884  3455556654

>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=97.56  E-value=0.00024  Score=66.32  Aligned_cols=89  Identities=19%  Similarity=0.207  Sum_probs=59.1

Q ss_pred             CCcEEEE--EecCCCChhHHHHHHHHHHHhc------CCeEEEEecCCCCCh-----HHHHHcCCCCCCeEEeCCCCHHH
Q 021239          119 KGRIVEI--YGREASGKTTLALHVIKEAQKL------GGYCAYLDVENALDP-----SLAEAMGIDAENLLIAQPDSAEN  185 (315)
Q Consensus       119 ~G~i~~i--~G~~GsGKTtlal~la~~~~~~------g~~v~~i~~E~~~~~-----~~~~~~g~~~~~l~i~~~~~~e~  185 (315)
                      .+..++|  +|++|+|||+++..++......      +..++|++.......     ...+.+|.....    ...+..+
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            4568888  9999999999999998876543      557889986443332     234455543210    1223555


Q ss_pred             HHHHHHHHHH-cCCccEEeehhHhhhc
Q 021239          186 LLSVVDTLTK-SGSIDVIVVDSVAALI  211 (315)
Q Consensus       186 ~~~~i~~l~~-~~~~~lVVIDsl~~l~  211 (315)
                      +...+...+. ..++-+||||.+..+.
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            5655555443 3567899999999876

>3qf4_A ABC transporter, ATP-binding protein; multidrug transporter, transport protein; HET: ANP; 2.90A {Thermotoga maritima}

Probab=97.56  E-value=3.9e-05  Score=76.14  Aligned_cols=38  Identities=26%  Similarity=0.378  Sum_probs=29.0

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEe
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLD  155 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~  155 (315)
                      +++|+++.|.||+|+|||||+..++.......+. ++++
T Consensus       366 i~~Ge~~~ivG~sGsGKSTll~~l~g~~~~~~G~-i~i~  403 (587)
T 3qf4_A          366 VKPGSLVAVLGETGSGKSTLMNLIPRLIDPERGR-VEVD  403 (587)
T ss_dssp             ECTTCEEEEECSSSSSHHHHHHTTTTSSCCSEEE-EEES
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhCCccCCCcE-EEEC
Confidence            6799999999999999999998776555433333 3444

>3ozx_A RNAse L inhibitor; ATP binding cassette protein, hydrolase, translation; HET: ADP; 2.05A {Sulfolobus solfataricus}

Probab=97.56  E-value=5.8e-05  Score=74.10  Aligned_cols=28  Identities=25%  Similarity=0.355  Sum_probs=24.6

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHH
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEA  144 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~  144 (315)
                      .++|+++.|.||+|+|||||+..++...
T Consensus        22 ~~~Gei~gLiGpNGaGKSTLlkiL~Gl~   49 (538)
T 3ozx_A           22 PKNNTILGVLGKNGVGKTTVLKILAGEI   49 (538)
T ss_dssp             CCTTEEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCCCCEEEEECCCCCcHHHHHHHHhcCC
Confidence            4589999999999999999998887644

>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=97.56  E-value=0.00053  Score=65.76  Aligned_cols=113  Identities=22%  Similarity=0.374  Sum_probs=75.6

Q ss_pred             CCCCccccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHh-cCCeEEEEecCCCCCh--HHHHH---cC
Q 021239           96 RRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQK-LGGYCAYLDVENALDP--SLAEA---MG  169 (315)
Q Consensus        96 ~~~~~i~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~-~g~~v~~i~~E~~~~~--~~~~~---~g  169 (315)
                      ...+.+.||+..+|-++.   +-+|.-..|.|++|+|||+|+..++.+.++ .+.-++|....+....  +..+.   .+
T Consensus       132 ~~~e~l~TGir~ID~l~p---igkGQr~~Ifgg~G~GKT~L~~~i~~~~~~~~~~v~V~~~iGER~rEv~e~~~~~~~~~  208 (482)
T 2ck3_D          132 VEQEILVTGIKVVDLLAP---YAKGGKIGLFGGAGVGKTVLIMELINNVAKAHGGYSVFAGVGERTREGNDLYHEMIESG  208 (482)
T ss_dssp             CCCCEECCSCHHHHHHSC---EETTCEEEEEECTTSSHHHHHHHHHHHTTTTCSSEEEEEEESCCHHHHHHHHHHHHHHT
T ss_pred             ccCcCCccceEEEecccc---cccCCeeeeecCCCCChHHHHHHHHHhhHhhCCCEEEEEECCCcchHHHHHHHHhhhcc
Confidence            456889999999999987   779999999999999999999999998654 3467777766655443  22222   22


Q ss_pred             -CCC-----CCe-EEeCCCC--HH------HHHHHHHHHHH-cCCccEEeehhHhhhc
Q 021239          170 -IDA-----ENL-LIAQPDS--AE------NLLSVVDTLTK-SGSIDVIVVDSVAALI  211 (315)
Q Consensus       170 -~~~-----~~l-~i~~~~~--~e------~~~~~i~~l~~-~~~~~lVVIDsl~~l~  211 (315)
                       +++     .-+ .+...+.  ..      --....+.+.. ++.--++++||++.+.
T Consensus       209 ~l~~~~~~~rtvvV~~t~d~p~~~r~~~~~~a~tiAEyfrd~~G~dVLll~DsitR~A  266 (482)
T 2ck3_D          209 VINLKDATSKVALVYGQMNEPPGARARVALTGLTVAEYFRDQEGQDVLLFIDNIFRFT  266 (482)
T ss_dssp             SSCSSSSCCCEEEEEECTTSCHHHHHHHHHHHHHHHHHHHHTTCSCEEEEEECTHHHH
T ss_pred             ccccccCCceEEEEEECCCCCHHHHHHHHHHHHHHHHHHHHhcCCcEEEEeccHHHHH
Confidence             331     122 2333322  11      12233445555 5666789999998775

>3j16_B RLI1P; ribosome recycling, translation, eukarya, ribosome; HET: ATP; 7.20A {Saccharomyces cerevisiae}

Probab=97.54  E-value=3.6e-05  Score=76.57  Aligned_cols=29  Identities=17%  Similarity=0.296  Sum_probs=25.1

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHH
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQ  145 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~  145 (315)
                      +++|+++.|.||+|+|||||+..++....
T Consensus       100 ~~~Gei~~LvGpNGaGKSTLLkiL~Gll~  128 (608)
T 3j16_B          100 PRPGQVLGLVGTNGIGKSTALKILAGKQK  128 (608)
T ss_dssp             CCTTSEEEEECCTTSSHHHHHHHHHTSSC
T ss_pred             CCCCCEEEEECCCCChHHHHHHHHhcCCC
Confidence            46899999999999999999988876543

>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=97.54  E-value=0.0002  Score=65.71  Aligned_cols=24  Identities=21%  Similarity=0.451  Sum_probs=21.5

Q ss_pred             EEEEecCCCChhHHHHHHHHHHHh
Q 021239          123 VEIYGREASGKTTLALHVIKEAQK  146 (315)
Q Consensus       123 ~~i~G~~GsGKTtlal~la~~~~~  146 (315)
                      ++|+||+|+||||++..++.....
T Consensus        39 ~ll~Gp~G~GKTtl~~~la~~l~~   62 (354)
T 1sxj_E           39 LLLYGPNGTGKKTRCMALLESIFG   62 (354)
T ss_dssp             EEEECSTTSSHHHHHHTHHHHHSC
T ss_pred             EEEECCCCCCHHHHHHHHHHHHcC
Confidence            899999999999999999886644

>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=97.53  E-value=0.00019  Score=71.38  Aligned_cols=28  Identities=29%  Similarity=0.401  Sum_probs=24.9

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHH
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEA  144 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~  144 (315)
                      +++|+++.|.||+|+|||||+..++...
T Consensus       114 i~~Ge~~~LiG~NGsGKSTLlkiL~Gll  141 (607)
T 3bk7_A          114 VKDGMVVGIVGPNGTGKTTAVKILAGQL  141 (607)
T ss_dssp             CCTTSEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCCCCEEEEECCCCChHHHHHHHHhCCC
Confidence            5799999999999999999998887544

>3ux8_A Excinuclease ABC, A subunit; UVRA, nucleotide excision repair, DNA repair, ABC ATPase, DN binding protein; HET: ADP; 2.10A {Geobacillus}

Probab=97.52  E-value=0.00026  Score=71.29  Aligned_cols=22  Identities=41%  Similarity=0.807  Sum_probs=20.2

Q ss_pred             CCCCCcEEEEEecCCCChhHHH
Q 021239          116 GLPKGRIVEIYGREASGKTTLA  137 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtla  137 (315)
                      -+++|+++.|.||+|+|||||+
T Consensus        40 ~i~~Ge~~~liGpNGaGKSTLl   61 (670)
T 3ux8_A           40 EIPRGKLVVLTGLSGSGKSSLA   61 (670)
T ss_dssp             EEETTSEEEEECSTTSSHHHHH
T ss_pred             EECCCCEEEEECCCCCCHHHHh
Confidence            3679999999999999999996

>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=97.52  E-value=0.00065  Score=65.42  Aligned_cols=114  Identities=18%  Similarity=0.324  Sum_probs=75.7

Q ss_pred             CCCCCccccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHh-cCCeEEEEecCCCCCh--HHHHH---c
Q 021239           95 SRRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQK-LGGYCAYLDVENALDP--SLAEA---M  168 (315)
Q Consensus        95 ~~~~~~i~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~-~g~~v~~i~~E~~~~~--~~~~~---~  168 (315)
                      ....+.+.||+..+|-++.   +-+|.-+.|.|++|+|||+|+..++.+.++ .+..++|....+....  +..+.   .
T Consensus       143 ~~~~e~l~TGirvID~l~p---igkGqr~gIfgg~GvGKT~L~~~l~~~~a~~~~~v~V~~~iGER~rEv~e~~~~~~~~  219 (498)
T 1fx0_B          143 DTKLSIFETGIKVVNLLAP---YRRGGKIGLFGGAGVGKTVLIMELINNIAKAHGGVSVFGGVGERTREGNDLYMEMKES  219 (498)
T ss_dssp             CCCCCCCCCSCTTHHHHSC---CCTTCCEEEEECSSSSHHHHHHHHHHHTTTTCSSCEEEEEESCCSHHHHHHHHHHHHT
T ss_pred             cccccccccceeEeeeecc---cccCCeEEeecCCCCCchHHHHHHHHHHHhhCCCEEEEEEcccCcHHHHHHHHhhhcc
Confidence            3457889999999999987   778999999999999999999999998654 3567778776665544  22222   2


Q ss_pred             C-CCC------CCeE-EeCCCC--HH------HHHHHHHHHHH-cCCccEEeehhHhhhc
Q 021239          169 G-IDA------ENLL-IAQPDS--AE------NLLSVVDTLTK-SGSIDVIVVDSVAALI  211 (315)
Q Consensus       169 g-~~~------~~l~-i~~~~~--~e------~~~~~i~~l~~-~~~~~lVVIDsl~~l~  211 (315)
                      | +++      .-+. +...+.  ..      -.....+.+.. ++.--++++||++.+.
T Consensus       220 ~~l~~~~l~~~rtvvV~~t~d~p~~~R~~~~~~altiAEyfrd~~G~dVLl~~DsitR~A  279 (498)
T 1fx0_B          220 GVINEQNIAESKVALVYGQMNEPPGARMRVGLTALTMAEYFRDVNEQDVLLFIDNIFRFV  279 (498)
T ss_dssp             TSSCSSTTCCCCEEEEEECTTSCHHHHTTHHHHHHHTHHHHTTTSCCEEEEEEECSHHHH
T ss_pred             cccccccccccceEEEEeCCCCCHHHHHHHHHHHHHHHHHHHHhcCCcEEEEeccHHHHH
Confidence            2 331      1222 222222  11      12233444544 4555688999998776

>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=97.52  E-value=0.00047  Score=66.14  Aligned_cols=114  Identities=18%  Similarity=0.329  Sum_probs=71.3

Q ss_pred             CCCCCccccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHh-cCCeEEEEecCCCCCh--HHHHHc--C
Q 021239           95 SRRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQK-LGGYCAYLDVENALDP--SLAEAM--G  169 (315)
Q Consensus        95 ~~~~~~i~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~-~g~~v~~i~~E~~~~~--~~~~~~--g  169 (315)
                      ....+.+.||+..+|.+..   +-+|..+.|+|++|+|||+|+..++.+... .+.-++|....+....  ...+.+  +
T Consensus       129 ~~~~e~l~TGir~ID~L~p---i~kGq~~~i~G~sGvGKTtL~~~l~~~~~~~~~~i~V~~~iGerttev~el~~~l~~~  205 (473)
T 1sky_E          129 ATEVEILETGIKVVDLLAP---YIKGGKIGLFGGAGVGKTVLIQELIHNIAQEHGGISVFAGVGERTREGNDLYHEMKDS  205 (473)
T ss_dssp             CCSCCEECCSCHHHHHHSC---EETTCEEEEECCSSSCHHHHHHHHHHHHHHHTCCCEEEEEESSCHHHHHHHHHHHHHT
T ss_pred             cccCccccccchHHHHHhh---hccCCEEEEECCCCCCccHHHHHHHhhhhhccCcEEEEeeeccCchHHHHHHHHhhhc
Confidence            3556789999999999876   668899999999999999999999988764 4556666654333322  222212  1


Q ss_pred             CCCCC--eEEeCCC-C-HHHH------HHHHHHHHH-cCCccEEeehhHhhhc
Q 021239          170 IDAEN--LLIAQPD-S-AENL------LSVVDTLTK-SGSIDVIVVDSVAALI  211 (315)
Q Consensus       170 ~~~~~--l~i~~~~-~-~e~~------~~~i~~l~~-~~~~~lVVIDsl~~l~  211 (315)
                      -..++  +.+...+ + ....      ....+.+.. ++.--++++|+++.+.
T Consensus       206 ~~l~~tvvv~~~~~d~pg~r~~~~~~~ltiAEyFrd~~G~~VLl~~D~itR~a  258 (473)
T 1sky_E          206 GVISKTAMVFGQMNEPPGARMRVALTGLTMAEYFRDEQGQDGLLFIDNIFRFT  258 (473)
T ss_dssp             SGGGGEEEEEECTTSCHHHHHHHHHHHHHHHHHHHHHSCCEEEEEEECTHHHH
T ss_pred             CCcceeEEEEEcCCCCHHHHHHHHHHHHHHHHHHHHhcCCcEEEEeccHHHHH
Confidence            01112  2222222 1 1111      233444444 4566799999998775

>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=97.51  E-value=0.00018  Score=63.84  Aligned_cols=76  Identities=20%  Similarity=0.216  Sum_probs=47.2

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCChHHHHHcCCCCCCeEEeCCCCHHHHHHHHHHH--
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTL--  193 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~~~~~~~g~~~~~l~i~~~~~~e~~~~~i~~l--  193 (315)
                      +.++...++|+||||+|||++|..++...   +.+.++++.....       +|           .........+...  
T Consensus        60 ~~~~~~~vLl~G~~GtGKT~la~~ia~~~---~~~~~~i~~~~~~-------~g-----------~~~~~~~~~~~~~~~  118 (272)
T 1d2n_A           60 DRTPLVSVLLEGPPHSGKTALAAKIAEES---NFPFIKICSPDKM-------IG-----------FSETAKCQAMKKIFD  118 (272)
T ss_dssp             SSCSEEEEEEECSTTSSHHHHHHHHHHHH---TCSEEEEECGGGC-------TT-----------CCHHHHHHHHHHHHH
T ss_pred             CCCCCeEEEEECCCCCcHHHHHHHHHHHh---CCCEEEEeCHHHh-------cC-----------CchHHHHHHHHHHHH
Confidence            34566789999999999999999988764   4556666532100       01           0111111122222  


Q ss_pred             -HHcCCccEEeehhHhhhcc
Q 021239          194 -TKSGSIDVIVVDSVAALIP  212 (315)
Q Consensus       194 -~~~~~~~lVVIDsl~~l~~  212 (315)
                       .....+.+|+||.+..+..
T Consensus       119 ~~~~~~~~vl~iDEid~l~~  138 (272)
T 1d2n_A          119 DAYKSQLSCVVVDDIERLLD  138 (272)
T ss_dssp             HHHTSSEEEEEECCHHHHTT
T ss_pred             HHHhcCCcEEEEEChhhhhc
Confidence             2235689999999999864

>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=97.50  E-value=0.00017  Score=63.32  Aligned_cols=35  Identities=37%  Similarity=0.382  Sum_probs=26.2

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEe
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLD  155 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~  155 (315)
                      -+++|  ++|+||||+||||++..++....   ...++++
T Consensus        47 ~~~~g--~ll~G~~G~GKTtl~~~i~~~~~---~~~i~~~   81 (254)
T 1ixz_A           47 RIPKG--VLLVGPPGVGKTHLARAVAGEAR---VPFITAS   81 (254)
T ss_dssp             CCCSE--EEEECCTTSSHHHHHHHHHHHTT---CCEEEEE
T ss_pred             CCCCe--EEEECCCCCCHHHHHHHHHHHhC---CCEEEee
Confidence            34556  99999999999999998876552   3455554

>1wcv_1 SOJ, segregation protein; ATPase, bacterial, chromosome segregation; 1.6A {Thermus thermophilus} PDB: 2bej_A* 2bek_A*

Probab=97.50  E-value=0.00026  Score=62.29  Aligned_cols=89  Identities=16%  Similarity=0.285  Sum_probs=58.6

Q ss_pred             CCcEEEEE-ecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCChHHHHHcCCCC--------------------CCeEE
Q 021239          119 KGRIVEIY-GREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDA--------------------ENLLI  177 (315)
Q Consensus       119 ~G~i~~i~-G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~~~~~~~g~~~--------------------~~l~i  177 (315)
                      .+.++.++ +..|+||||++.++|..++..|.+|+++|++....  ....+|...                    .++.+
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            45677776 56899999999999999999999999999986532  233344321                    34555


Q ss_pred             eCCCC-HHHH----H---HHHHHHHHcCCccEEeehhHhh
Q 021239          178 AQPDS-AENL----L---SVVDTLTKSGSIDVIVVDSVAA  209 (315)
Q Consensus       178 ~~~~~-~e~~----~---~~i~~l~~~~~~~lVVIDsl~~  209 (315)
                      ..... ....    .   ..+.+.++...+++||||.-..
T Consensus        83 lp~~~~~~~~~~~l~~~~~~l~~~l~~~~yD~iiiD~pp~  122 (257)
T 1wcv_1           83 LPATPDLVGATVELAGAPTALREALRDEGYDLVLLDAPPS  122 (257)
T ss_dssp             ECCCTTHHHHHHHHTTCTTHHHHHCCCTTCSEEEEECCSS
T ss_pred             EeCChhHHHHHHHHhhHHHHHHHHhcccCCCEEEEeCCCC
Confidence            54432 2211    1   3444544436789999997654

>3cio_A ETK, tyrosine-protein kinase ETK; WZC, escherichia coli tyrosine kinase domain, signaling protein, transferase, inner membrane, membrane; 2.50A {Escherichia coli}

Probab=97.49  E-value=0.00043  Score=62.70  Aligned_cols=41  Identities=20%  Similarity=0.250  Sum_probs=36.7

Q ss_pred             CCcEEEEEec-CCCChhHHHHHHHHHHHhcCCeEEEEecCCC
Q 021239          119 KGRIVEIYGR-EASGKTTLALHVIKEAQKLGGYCAYLDVENA  159 (315)
Q Consensus       119 ~G~i~~i~G~-~GsGKTtlal~la~~~~~~g~~v~~i~~E~~  159 (315)
                      ++.++.|+++ +|+||||++.++|..++..|.+|++||.+..
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            4568888886 8999999999999999999999999999875

>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=97.48  E-value=0.00019  Score=69.25  Aligned_cols=113  Identities=17%  Similarity=0.266  Sum_probs=75.6

Q ss_pred             CCCCccccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCCh--HHHHHc---C-
Q 021239           96 RRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP--SLAEAM---G-  169 (315)
Q Consensus        96 ~~~~~i~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~--~~~~~~---g-  169 (315)
                      ...+.+.||+..+|.++.   +-+|.-..|.|++|+|||++++..+.+....+..|+|....+....  ...+.+   | 
T Consensus       142 ~v~epl~TGiraID~l~P---igrGQR~~Ifg~~g~GKT~Lal~~I~~~~~~dv~~V~~~iGeR~~Ev~~~~~~~~~~g~  218 (507)
T 1fx0_A          142 SVYEPLQTGLIAIDAMIP---VGRGQRELIIGDRQTGKTAVATDTILNQQGQNVICVYVAIGQKASSVAQVVTNFQERGA  218 (507)
T ss_dssp             CCCSBCCCSCTTTTTTSC---CBTTCBCBEEESSSSSHHHHHHHHHHTCCTTTCEEEEEEESCCHHHHHHHHHHTGGGTG
T ss_pred             ccCCcccccceecccccc---cccCCEEEEecCCCCCccHHHHHHHHHhhcCCcEEEEEEcCCCchHHHHHHHHHHhcCc
Confidence            456789999999999987   6789999999999999999988777776665667888887665543  222222   1 


Q ss_pred             CCCCCeEEeCCCC--------HHHHHHHHHHHHHcCCccEEeehhHhhhc
Q 021239          170 IDAENLLIAQPDS--------AENLLSVVDTLTKSGSIDVIVVDSVAALI  211 (315)
Q Consensus       170 ~~~~~l~i~~~~~--------~e~~~~~i~~l~~~~~~~lVVIDsl~~l~  211 (315)
                      ++-.-+.....+.        ..--....+.+..++.--++++|+++.+.
T Consensus       219 m~rtvvV~atad~p~~~r~~a~~~a~tiAEyfrd~G~dVLli~Dsltr~A  268 (507)
T 1fx0_A          219 MEYTIVVAETADSPATLQYLAPYTGAALAEYFMYRERHTLIIYDDLSKQA  268 (507)
T ss_dssp             GGSEEEEEECTTSCGGGTTHHHHHHHHHHHHHHHTTCEEEEEEECHHHHH
T ss_pred             cccceEEEECCCCCHHHHHHHHHHHHHHHHHHHHcCCcEEEEEecHHHHH
Confidence            1111122222221        11233444555556667799999998775

>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=97.48  E-value=0.00074  Score=60.24  Aligned_cols=42  Identities=17%  Similarity=0.133  Sum_probs=37.0

Q ss_pred             CCcEEEEEec-CCCChhHHHHHHHHHHHhcCCeEEEEecCCCC
Q 021239          119 KGRIVEIYGR-EASGKTTLALHVIKEAQKLGGYCAYLDVENAL  160 (315)
Q Consensus       119 ~G~i~~i~G~-~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~  160 (315)
                      +..++.|+++ +|+||||++.++|..+++.|.+|+++|.+...
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 89999999999999999999999999998654

>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=97.45  E-value=0.00053  Score=66.81  Aligned_cols=42  Identities=26%  Similarity=0.180  Sum_probs=33.7

Q ss_pred             CCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCCh
Q 021239          118 PKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP  162 (315)
Q Consensus       118 ~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~  162 (315)
                      ++...++|+||||+|||++|..++...   +..+++++.......
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            455789999999999999999988776   678888877655443

>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=97.43  E-value=0.00015  Score=61.29  Aligned_cols=40  Identities=33%  Similarity=0.442  Sum_probs=34.0

Q ss_pred             CCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecC
Q 021239          118 PKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVE  157 (315)
Q Consensus       118 ~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E  157 (315)
                      ++|.++.|.|++|+||||++..++......|..+.|++.+
T Consensus        23 ~~g~~i~l~G~sGsGKSTl~~~La~~l~~~G~~~~~~d~d   62 (200)
T 3uie_A           23 QKGCVIWVTGLSGSGKSTLACALNQMLYQKGKLCYILDGD   62 (200)
T ss_dssp             SCCEEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEEHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHHhcCceEEEecCc
Confidence            6899999999999999999999988876556666788854

>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=97.43  E-value=0.0012  Score=60.34  Aligned_cols=49  Identities=22%  Similarity=0.211  Sum_probs=32.8

Q ss_pred             cHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHh---cCCeEEEEec
Q 021239          105 SLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQK---LGGYCAYLDV  156 (315)
Q Consensus       105 ~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~---~g~~v~~i~~  156 (315)
                      +..|-..+. .|-.+.  ++|+||||+|||+++..++.....   ....+..++.
T Consensus        46 ~~~l~~~l~-~~~~~~--~ll~G~~G~GKT~la~~la~~l~~~~~~~~~~~~~~~   97 (353)
T 1sxj_D           46 VTVLKKTLK-SANLPH--MLFYGPPGTGKTSTILALTKELYGPDLMKSRILELNA   97 (353)
T ss_dssp             HHHHHHHTT-CTTCCC--EEEECSTTSSHHHHHHHHHHHHHHHHHHTTSEEEECS
T ss_pred             HHHHHHHHh-cCCCCE--EEEECCCCCCHHHHHHHHHHHhCCCcccccceEEEcc
Confidence            345555665 332222  899999999999999999887642   2334555554

>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=97.43  E-value=0.00079  Score=62.78  Aligned_cols=40  Identities=23%  Similarity=0.309  Sum_probs=35.1

Q ss_pred             CCCcEEEEEe-cCCCChhHHHHHHHHHHHhcCCeEEEEecC
Q 021239          118 PKGRIVEIYG-REASGKTTLALHVIKEAQKLGGYCAYLDVE  157 (315)
Q Consensus       118 ~~G~i~~i~G-~~GsGKTtlal~la~~~~~~g~~v~~i~~E  157 (315)
                      .++.++.+++ ..|+||||++.++|..++..|.+|+++|++
T Consensus       141 ~~~kvIav~s~KGGvGKTT~a~nLA~~La~~g~rVlliD~D  181 (373)
T 3fkq_A          141 DKSSVVIFTSPCGGVGTSTVAAACAIAHANMGKKVFYLNIE  181 (373)
T ss_dssp             TSCEEEEEECSSTTSSHHHHHHHHHHHHHHHTCCEEEEECC
T ss_pred             CCceEEEEECCCCCChHHHHHHHHHHHHHhCCCCEEEEECC
Confidence            3466777765 799999999999999999999999999998

>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=97.43  E-value=0.00026  Score=73.61  Aligned_cols=28  Identities=21%  Similarity=0.069  Sum_probs=24.3

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHH
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEA  144 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~  144 (315)
                      +.+|+++.|.||+|+||||++.+++...
T Consensus       659 ~~~g~i~~ItGpNGsGKSTlLr~ial~~  686 (934)
T 3thx_A          659 KDKQMFHIITGPNMGGKSTYIRQTGVIV  686 (934)
T ss_dssp             TTTBCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             cCCCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            4679999999999999999999985543

>2yvu_A Probable adenylyl-sulfate kinase; transferase, structural genomics, NPPSFA, national P protein structural and functional analyses; 2.10A {Aeropyrum pernix}

Probab=97.42  E-value=0.00013  Score=60.96  Aligned_cols=40  Identities=38%  Similarity=0.371  Sum_probs=35.5

Q ss_pred             CCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecC
Q 021239          118 PKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVE  157 (315)
Q Consensus       118 ~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E  157 (315)
                      .+|.++.|.|++|+||||++..++......|.++.+++.+
T Consensus        11 ~~~~~i~l~G~~GsGKsT~~~~L~~~l~~~~~~~~~~~~d   50 (186)
T 2yvu_A           11 EKGIVVWLTGLPGSGKTTIATRLADLLQKEGYRVEVLDGD   50 (186)
T ss_dssp             SCCEEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEEHH
T ss_pred             CCCcEEEEEcCCCCCHHHHHHHHHHHHHhcCCeEEEeeHH
Confidence            5789999999999999999999999888788888888753

>2qen_A Walker-type ATPase; unknown function; HET: ADP; 2.25A {Pyrococcus abyssi}

Probab=97.41  E-value=0.00024  Score=64.56  Aligned_cols=87  Identities=14%  Similarity=0.159  Sum_probs=53.9

Q ss_pred             CcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCC------Ch-H----HHHHcCC------------CCCCeE
Q 021239          120 GRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENAL------DP-S----LAEAMGI------------DAENLL  176 (315)
Q Consensus       120 G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~------~~-~----~~~~~g~------------~~~~l~  176 (315)
                      |.+++|+|++|+|||+|+.+++...   +  ++|+++....      +. .    ..+.++-            ......
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            4799999999999999999987654   2  8899875431      11 1    1222211            000000


Q ss_pred             E-eCCCCHHHHHHHHHHHHHcCCccEEeehhHhhhc
Q 021239          177 I-AQPDSAENLLSVVDTLTKSGSIDVIVVDSVAALI  211 (315)
Q Consensus       177 i-~~~~~~e~~~~~i~~l~~~~~~~lVVIDsl~~l~  211 (315)
                      . .......+++..+.......++-+||||.++.+.
T Consensus       106 ~~~~~~~~~~~~~~l~~~~~~~~~~vlvlDe~~~~~  141 (350)
T 2qen_A          106 LEPRKLSLREVFRELNDLGEELGEFIVAFDEAQYLR  141 (350)
T ss_dssp             SCGGGCCHHHHHHHHHHHHHHHSCEEEEEETGGGGG
T ss_pred             eccccchHHHHHHHHHHHHhccCCEEEEEeCHHHHh
Confidence            0 0124566677777665544347899999999876

>3b9q_A Chloroplast SRP receptor homolog, alpha subunit CPFTSY; protein translocation, GTP-binding, nucleotide-binding, protein transport; 1.75A {Arabidopsis thaliana}

Probab=97.41  E-value=0.00016  Score=65.74  Aligned_cols=42  Identities=19%  Similarity=0.192  Sum_probs=36.6

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCC
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVEN  158 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~  158 (315)
                      +++|+++.|.||+|+||||++..++......++++.+...+-
T Consensus        97 ~~~g~vi~lvG~nGsGKTTll~~Lag~l~~~~g~V~l~g~d~  138 (302)
T 3b9q_A           97 FRKPAVIMIVGVNGGGKTTSLGKLAHRLKNEGTKVLMAAGDT  138 (302)
T ss_dssp             SSSCEEEEEECCTTSCHHHHHHHHHHHHHHTTCCEEEECCCC
T ss_pred             cCCCcEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeecc
Confidence            468999999999999999999999998888888888776553

>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=97.41  E-value=0.00049  Score=58.52  Aligned_cols=26  Identities=23%  Similarity=0.211  Sum_probs=22.8

Q ss_pred             cEEEEEecCCCChhHHHHHHHHHHHh
Q 021239          121 RIVEIYGREASGKTTLALHVIKEAQK  146 (315)
Q Consensus       121 ~i~~i~G~~GsGKTtlal~la~~~~~  146 (315)
                      ..++|+||+|+|||+++..++.....
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            48999999999999999999877653

>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=97.40  E-value=0.00078  Score=62.03  Aligned_cols=50  Identities=22%  Similarity=0.201  Sum_probs=41.2

Q ss_pred             HHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCC
Q 021239          107 KLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENA  159 (315)
Q Consensus       107 ~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~  159 (315)
                      .|+.++. ..  .-.++.+.|..|+||||++.++|..++..|.+|+.+|++..
T Consensus         6 ~l~~~l~-~~--~~~i~~~sgkGGvGKTt~a~~lA~~la~~g~~vllid~D~~   55 (334)
T 3iqw_A            6 TLQSILD-QR--SLRWIFVGGKGGVGKTTTSCSLAIQLAKVRRSVLLLSTDPA   55 (334)
T ss_dssp             SSHHHHH-CT--TCCEEEEECSTTSSHHHHHHHHHHHHTTSSSCEEEEECCSS
T ss_pred             cHHHHhc-CC--CeEEEEEeCCCCccHHHHHHHHHHHHHhCCCcEEEEECCCC
Confidence            3455665 21  24688999999999999999999999999999999999843

>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=97.40  E-value=0.00017  Score=59.69  Aligned_cols=39  Identities=28%  Similarity=0.275  Sum_probs=32.3

Q ss_pred             CCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEec
Q 021239          118 PKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDV  156 (315)
Q Consensus       118 ~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~  156 (315)
                      ++|.++.|.|++||||||++..++......|.++++++.
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            679999999999999999999998876556667777763

>3c8u_A Fructokinase; YP_612366.1, putative fructose transport system kinase, STRU genomics, joint center for structural genomics, JCSG; 1.95A {Silicibacter SP}

Probab=97.40  E-value=0.00017  Score=61.52  Aligned_cols=42  Identities=21%  Similarity=0.298  Sum_probs=34.1

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCC
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVEN  158 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~  158 (315)
                      .++|.++.|.||+|+|||||+..++......|..+.++..+.
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            468999999999999999999988887765454567777654

>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=97.40  E-value=3.6e-05  Score=70.91  Aligned_cols=83  Identities=13%  Similarity=0.073  Sum_probs=46.1

Q ss_pred             CCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCChHHHHHcCCCCCCeEEeCCCCHHHHHHHHHHHHHcC
Q 021239          118 PKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTKSG  197 (315)
Q Consensus       118 ~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~~~~~~~g~~~~~l~i~~~~~~e~~~~~i~~l~~~~  197 (315)
                      ++|+++.|.||+|+|||||+..++.......+.+ .++.......      ....+.+.+... ........+...+ ..
T Consensus       169 ~~g~~v~i~G~~GsGKTTll~~l~g~~~~~~g~i-~i~~~~e~~~------~~~~~~i~~~~g-gg~~~r~~la~aL-~~  239 (330)
T 2pt7_A          169 AIGKNVIVCGGTGSGKTTYIKSIMEFIPKEERII-SIEDTEEIVF------KHHKNYTQLFFG-GNITSADCLKSCL-RM  239 (330)
T ss_dssp             HHTCCEEEEESTTSCHHHHHHHGGGGSCTTSCEE-EEESSCCCCC------SSCSSEEEEECB-TTBCHHHHHHHHT-TS
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhCCCcCCCcEE-EECCeecccc------ccchhEEEEEeC-CChhHHHHHHHHh-hh
Confidence            4789999999999999999988776654444444 4442211110      000112222211 1122223333333 25


Q ss_pred             CccEEeehhHhh
Q 021239          198 SIDVIVVDSVAA  209 (315)
Q Consensus       198 ~~~lVVIDsl~~  209 (315)
                      +|+++++|....
T Consensus       240 ~p~ilildE~~~  251 (330)
T 2pt7_A          240 RPDRIILGELRS  251 (330)
T ss_dssp             CCSEEEECCCCS
T ss_pred             CCCEEEEcCCCh
Confidence            799999997653

>2qm8_A GTPase/ATPase; G protein, G3E, metallochaperone, chaperone; HET: MSE; 1.70A {Methylobacterium extorquens} SCOP: c.37.1.10 PDB: 2qm7_A*

Probab=97.40  E-value=0.00013  Score=67.33  Aligned_cols=93  Identities=23%  Similarity=0.177  Sum_probs=58.0

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCCh------HHHHHcCCCCC--CeEEeCCC---C--
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP------SLAEAMGIDAE--NLLIAQPD---S--  182 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~------~~~~~~g~~~~--~l~i~~~~---~--  182 (315)
                      -+.+|.++.|.|+||+|||||+..++......++++.+++.+.....      ....++++-.+  ++++....   .  
T Consensus        51 ~~~~g~~v~i~G~~GaGKSTLl~~l~g~~~~~~g~v~i~~~d~~~~~~~~~~~~~~~~i~~v~q~~~~~~~~~~~~~~l~  130 (337)
T 2qm8_A           51 QTGRAIRVGITGVPGVGKSTTIDALGSLLTAAGHKVAVLAVDPSSTRTGGSILGDKTRMARLAIDRNAFIRPSPSSGTLG  130 (337)
T ss_dssp             GCCCSEEEEEECCTTSCHHHHHHHHHHHHHHTTCCEEEEEECGGGGSSCCCSSCCGGGSTTGGGCTTEEEECCCCCSSHH
T ss_pred             ccCCCeEEEEECCCCCCHHHHHHHHHHhhhhCCCEEEEEEEcCcccccccchHHHhhhheeeccCcccccccCccccccc
Confidence            35689999999999999999999999888777888888875432110      11233444333  33332221   1  


Q ss_pred             --HHHHHHHHHHHHHcCCccEEeehhHhh
Q 021239          183 --AENLLSVVDTLTKSGSIDVIVVDSVAA  209 (315)
Q Consensus       183 --~e~~~~~i~~l~~~~~~~lVVIDsl~~  209 (315)
                        .....+.+ ..+...+.++++||....
T Consensus       131 G~tr~~~e~~-~~~~~~~~~~iliDT~Gi  158 (337)
T 2qm8_A          131 GVAAKTRETM-LLCEAAGFDVILVETVGV  158 (337)
T ss_dssp             HHHHHHHHHH-HHHHHTTCCEEEEEECSS
T ss_pred             chHHHHHHHH-HHHhcCCCCEEEEECCCC
Confidence              12223322 123446789999997764

>3l0o_A Transcription termination factor RHO; helicase, RHO factor, RNA capture mechanism, ATP-binding, hydrolase, nucleotide-binding, RN binding; 2.35A {Thermotoga maritima}

Probab=97.38  E-value=0.00038  Score=65.14  Aligned_cols=107  Identities=19%  Similarity=0.180  Sum_probs=69.5

Q ss_pred             CccccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHhc--CCeEEEEecCCCCCh--HHHHHcCCCCCC
Q 021239           99 PVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKL--GGYCAYLDVENALDP--SLAEAMGIDAEN  174 (315)
Q Consensus        99 ~~i~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~~--g~~v~~i~~E~~~~~--~~~~~~g~~~~~  174 (315)
                      +.+.||+..+|.++.   +-+|.-..|.|++|+|||+++.+++.+....  +-.|+|....+....  ...+.+  . ..
T Consensus       157 e~~~tGiraID~l~P---igrGQR~lIfg~~g~GKT~Ll~~Ia~~i~~~~~dv~~V~~lIGER~~EV~d~~~~~--~-G~  230 (427)
T 3l0o_A          157 DPKIYSTRLIDLFAP---IGKGQRGMIVAPPKAGKTTILKEIANGIAENHPDTIRIILLIDERPEEVTDIREST--N-AI  230 (427)
T ss_dssp             STTCHHHHHHHHHSC---CBTTCEEEEEECTTCCHHHHHHHHHHHHHHHCTTSEEEEEECSCCHHHHSSSSSSC--C-SE
T ss_pred             cchhccchhhhhccc---ccCCceEEEecCCCCChhHHHHHHHHHHhhcCCCeEEEEEEeccCcchHHHHHHHh--C-Ce
Confidence            678999999999987   6689999999999999999998888877653  335677665543332  111111  0 12


Q ss_pred             eEEeCCC-CHH-H------HHHHHHHHHHcCCccEEeehhHhhhc
Q 021239          175 LLIAQPD-SAE-N------LLSVVDTLTKSGSIDVIVVDSVAALI  211 (315)
Q Consensus       175 l~i~~~~-~~e-~------~~~~i~~l~~~~~~~lVVIDsl~~l~  211 (315)
                      +.....+ ++. .      .....+.+.+.+.--+|++||++.+.
T Consensus       231 VV~atadep~~~r~~~a~~altiAEyfrd~G~dVLil~DslTR~A  275 (427)
T 3l0o_A          231 VIAAPFDMPPDKQVKVAELTLEMAKRLVEFNYDVVILLDSLTRLA  275 (427)
T ss_dssp             EEECCTTSCHHHHHHHHHHHHHHHHHHHHTTCEEEEEEECHHHHH
T ss_pred             EEEECCCCCHHHHHHHHHHHHHHHHHHHHcCCCEEEecccchHHH
Confidence            2222222 111 1      22334455555566688899999776

>4a8j_A Elongator complex protein 4; transcription; 2.10A {Saccharomyces cerevisiae} PDB: 4ejs_A

Probab=97.37  E-value=0.00012  Score=67.69  Aligned_cols=47  Identities=32%  Similarity=0.355  Sum_probs=39.3

Q ss_pred             CCCccccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHH----HHHHHHHh
Q 021239           97 RGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLAL----HVIKEAQK  146 (315)
Q Consensus        97 ~~~~i~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal----~la~~~~~  146 (315)
                      ....+|||+++||.+||.||++.|++++|.|+   |||+++.    +++++-+.
T Consensus        17 ~~~~~stG~~~lD~llghgGlp~g~~~li~e~---~~t~~~~~Ll~~f~aeG~~   67 (361)
T 4a8j_A           17 SQPTTSTGSADLDSILGHMGLPLGNSVLVEEQ---STTEFHSILGKLFAAQGIV   67 (361)
T ss_dssp             CCEEECCSCHHHHHHTTSSSEETTCEEEEEEC---SSCCTHHHHHHHHHHHHHH
T ss_pred             CCeeeccCCccHHHHhccCCccCCcEEEEeCC---CCCcHHHHHHHHHHHHhHh
Confidence            35789999999999997679999999999998   8999984    66655443

>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=97.37  E-value=0.00062  Score=63.17  Aligned_cols=51  Identities=14%  Similarity=0.153  Sum_probs=42.1

Q ss_pred             HHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHH--hcCCeEEEEecCCC
Q 021239          106 LKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQ--KLGGYCAYLDVENA  159 (315)
Q Consensus       106 ~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~--~~g~~v~~i~~E~~  159 (315)
                      +.|+.++. .  +.-.+++..|..|+||||++.++|..++  ..|.+|+.+|++..
T Consensus         7 ~~l~~l~~-~--~~~~i~v~sgKGGvGKTTvaanLA~~lA~~~~G~rVLLvD~D~~   59 (354)
T 2woj_A            7 PNLHSLIT-S--TTHKWIFVGGKGGVGKTTSSCSIAIQMALSQPNKQFLLISTDPA   59 (354)
T ss_dssp             SSCHHHHT-C--SSCCEEEEEESTTSSHHHHHHHHHHHHHHHCTTSCEEEEECCSS
T ss_pred             ccHHHHhc-C--CCcEEEEEeCCCCCcHHHHHHHHHHHHHHhcCCCeEEEEECCCC
Confidence            34566665 2  2346888889999999999999999999  89999999999985

>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=97.35  E-value=0.00056  Score=57.13  Aligned_cols=23  Identities=30%  Similarity=0.442  Sum_probs=20.6

Q ss_pred             EEEEEecCCCChhHHHHHHHHHH
Q 021239          122 IVEIYGREASGKTTLALHVIKEA  144 (315)
Q Consensus       122 i~~i~G~~GsGKTtlal~la~~~  144 (315)
                      .+.|.||||+|||||+..++...
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            57899999999999998888776

>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=97.35  E-value=0.00013  Score=75.76  Aligned_cols=28  Identities=21%  Similarity=0.245  Sum_probs=24.6

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHH
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEA  144 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~  144 (315)
                      +++|+++.|.||+|+||||++.+++...
T Consensus       670 ~~~g~i~~ItGPNGaGKSTlLr~i~~i~  697 (918)
T 3thx_B          670 EDSERVMIITGPNMGGKSSYIKQVALIT  697 (918)
T ss_dssp             TTSCCEEEEESCCCHHHHHHHHHHHHHH
T ss_pred             CCCCeEEEEECCCCCchHHHHHHHHHHH
Confidence            5679999999999999999999887543

>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=97.35  E-value=0.00023  Score=61.75  Aligned_cols=38  Identities=24%  Similarity=0.175  Sum_probs=34.4

Q ss_pred             EEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCC
Q 021239          123 VEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENAL  160 (315)
Q Consensus       123 ~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~  160 (315)
                      +.|.|..|+||||++.++|...++.|.+|+.+|++...
T Consensus         3 I~vs~kGGvGKTt~a~~LA~~la~~g~~VlliD~D~~~   40 (254)
T 3kjh_A            3 LAVAGKGGVGKTTVAAGLIKIMASDYDKIYAVDGDPDS   40 (254)
T ss_dssp             EEEECSSSHHHHHHHHHHHHHHTTTCSCEEEEEECTTS
T ss_pred             EEEecCCCCCHHHHHHHHHHHHHHCCCeEEEEeCCCCc
Confidence            44589999999999999999999999999999998853

>1rz3_A Hypothetical protein rbstp0775; MCSG, structural genomics, PSI, protein structure initiative; 1.90A {Geobacillus stearothermophilus} SCOP: c.37.1.6

Probab=97.33  E-value=0.00025  Score=60.11  Aligned_cols=42  Identities=24%  Similarity=0.283  Sum_probs=35.8

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCC
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVEN  158 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~  158 (315)
                      .++|.++.|.|++|+||||++..++......++.+.+++.+.
T Consensus        19 ~~~~~~i~i~G~~GsGKstl~~~l~~~~~~~~~~v~~~~~d~   60 (201)
T 1rz3_A           19 TAGRLVLGIDGLSRSGKTTLANQLSQTLREQGISVCVFHMDD   60 (201)
T ss_dssp             CSSSEEEEEEECTTSSHHHHHHHHHHHHHHTTCCEEEEEGGG
T ss_pred             cCCCeEEEEECCCCCCHHHHHHHHHHHHhhcCCeEEEeccCc
Confidence            467899999999999999999999887766788888886554

>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 3.20A {Thermus thermophilus} SCOP: c.37.1.20

Probab=97.31  E-value=0.00036  Score=62.13  Aligned_cols=35  Identities=37%  Similarity=0.382  Sum_probs=26.2

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEe
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLD  155 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~  155 (315)
                      -+++|  ++|+||||+||||++..++....   ...++++
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  89999999999999998876552   3455554

>3io3_A DEHA2D07832P; chaperone, membrane traffic, ATPase; HET: ADP; 1.80A {Debaryomyces hansenii}

Probab=97.31  E-value=0.00043  Score=64.13  Aligned_cols=59  Identities=15%  Similarity=0.152  Sum_probs=45.4

Q ss_pred             HHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHH--hcCCeEEEEecCCCCChHHHHHcCC
Q 021239          107 KLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQ--KLGGYCAYLDVENALDPSLAEAMGI  170 (315)
Q Consensus       107 ~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~--~~g~~v~~i~~E~~~~~~~~~~~g~  170 (315)
                      .|+.++. .  +.-.++.+.|..|+||||++.++|..++  ..|.+|+.+|++.  .......+|.
T Consensus         8 ~L~~~l~-~--~~~~i~~~~gkGGvGKTt~a~~lA~~la~~~~g~~vllid~D~--~~~l~~~~~~   68 (348)
T 3io3_A            8 TLESIVQ-H--DSLKWIFVGGKGGVGKTTTSSSVAVQLALAQPNEQFLLISTDP--AHNLSDAFCQ   68 (348)
T ss_dssp             SSHHHHT-C--TTCSEEEEECSTTSSHHHHHHHHHHHHHHHCTTSCEEEEECCS--SCHHHHHHTS
T ss_pred             hHHHHhc-C--CCcEEEEEeCCCCCcHHHHHHHHHHHHHHhcCCCeEEEEECCC--CCChHHHhcc
Confidence            4566665 2  2337999999999999999999999999  8899999999983  3334444443

>3co5_A Putative two-component system transcriptional RES regulator; structural genomics, APC89341.1; 2.40A {Neisseria gonorrhoeae}

Probab=97.31  E-value=9.6e-05  Score=59.30  Aligned_cols=24  Identities=25%  Similarity=0.079  Sum_probs=19.8

Q ss_pred             CcEEEEEecCCCChhHHHHHHHHH
Q 021239          120 GRIVEIYGREASGKTTLALHVIKE  143 (315)
Q Consensus       120 G~i~~i~G~~GsGKTtlal~la~~  143 (315)
                      +.-++|+|+||+|||++|..++..
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            445899999999999999876543

>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=97.31  E-value=0.001  Score=59.81  Aligned_cols=43  Identities=9%  Similarity=0.133  Sum_probs=36.6

Q ss_pred             CCcEEEEEec-CCCChhHHHHHHHHHHHhcCCeEEEEecCCCCC
Q 021239          119 KGRIVEIYGR-EASGKTTLALHVIKEAQKLGGYCAYLDVENALD  161 (315)
Q Consensus       119 ~G~i~~i~G~-~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~  161 (315)
                      ++.++.|+++ +|+||||++.++|..++..|.+|++||++....
T Consensus        91 ~~kvI~vts~kgG~GKTtva~nLA~~lA~~G~rVLLID~D~~~~  134 (286)
T 3la6_A           91 QNNVLMMTGVSPSIGMTFVCANLAAVISQTNKRVLLIDCDMRKG  134 (286)
T ss_dssp             TCCEEEEEESSSSSSHHHHHHHHHHHHHTTTCCEEEEECCTTTC
T ss_pred             CCeEEEEECCCCCCcHHHHHHHHHHHHHhCCCCEEEEeccCCCC
Confidence            4556666665 899999999999999999999999999988643

>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=97.31  E-value=0.00049  Score=63.13  Aligned_cols=68  Identities=15%  Similarity=0.273  Sum_probs=42.4

Q ss_pred             EEEEecCCCChhHHHHHHHHHHHhcCCe--EEEEecCCCCChHHHHHcCCCCCCeEEeCCCCHHHHHHHHHHHHHc----
Q 021239          123 VEIYGREASGKTTLALHVIKEAQKLGGY--CAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTKS----  196 (315)
Q Consensus       123 ~~i~G~~GsGKTtlal~la~~~~~~g~~--v~~i~~E~~~~~~~~~~~g~~~~~l~i~~~~~~e~~~~~i~~l~~~----  196 (315)
                      ++|+||||+||||++..++......+..  +..++...                     ....+++.+.+......    
T Consensus        49 ~ll~Gp~G~GKTtla~~la~~l~~~~~~~~~~~~~~~~---------------------~~~~~~ir~~i~~~~~~~~~~  107 (340)
T 1sxj_C           49 LLFYGPPGTGKTSTIVALAREIYGKNYSNMVLELNASD---------------------DRGIDVVRNQIKDFASTRQIF  107 (340)
T ss_dssp             EEEECSSSSSHHHHHHHHHHHHHTTSHHHHEEEECTTS---------------------CCSHHHHHTHHHHHHHBCCSS
T ss_pred             EEEECCCCCCHHHHHHHHHHHHcCCCccceEEEEcCcc---------------------cccHHHHHHHHHHHHhhcccC
Confidence            8999999999999999998887543222  22222110                     11234444444444321    


Q ss_pred             -CCccEEeehhHhhhc
Q 021239          197 -GSIDVIVVDSVAALI  211 (315)
Q Consensus       197 -~~~~lVVIDsl~~l~  211 (315)
                       .+.++++||.+..+.
T Consensus       108 ~~~~~viiiDe~~~l~  123 (340)
T 1sxj_C          108 SKGFKLIILDEADAMT  123 (340)
T ss_dssp             SCSCEEEEETTGGGSC
T ss_pred             CCCceEEEEeCCCCCC
Confidence             247999999988664

>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=97.29  E-value=0.00037  Score=63.36  Aligned_cols=94  Identities=16%  Similarity=0.165  Sum_probs=59.2

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHH--hcCCeEEEEecCCCCC-hHHHHHcCCCCCCeEEeCCCCHHHHHHHHHHH
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQ--KLGGYCAYLDVENALD-PSLAEAMGIDAENLLIAQPDSAENLLSVVDTL  193 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~--~~g~~v~~i~~E~~~~-~~~~~~~g~~~~~l~i~~~~~~e~~~~~i~~l  193 (315)
                      ..+|.++.|.|++|+|||||+..++....  ..++.+.+++.+.... ....+..|+. ++.......+..++...+..+
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            36889999999999999999988887665  4567788887765432 2223445544 322222333555555555443


Q ss_pred             HH------------------------cCCccEEeehhHhhhc
Q 021239          194 TK------------------------SGSIDVIVVDSVAALI  211 (315)
Q Consensus       194 ~~------------------------~~~~~lVVIDsl~~l~  211 (315)
                      ..                        ..++++||+|.+..+.
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            21                        1235789999876655

>2og2_A Putative signal recognition particle receptor; nucleotide-binding, protein transport; 2.00A {Arabidopsis thaliana}

Probab=97.28  E-value=0.00027  Score=65.78  Aligned_cols=42  Identities=19%  Similarity=0.192  Sum_probs=36.6

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCC
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVEN  158 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~  158 (315)
                      +++|+++.|.|++|+||||++..++......+++|.+...+-
T Consensus       154 ~~~g~vi~lvG~nGsGKTTll~~Lag~l~~~~G~V~l~g~D~  195 (359)
T 2og2_A          154 FRKPAVIMIVGVNGGGKTTSLGKLAHRLKNEGTKVLMAAGDT  195 (359)
T ss_dssp             SSSSEEEEEECCTTSCHHHHHHHHHHHHHHTTCCEEEECCCC
T ss_pred             cCCCeEEEEEcCCCChHHHHHHHHHhhccccCCEEEEecccc
Confidence            458999999999999999999999998887888888877553

>3g5u_A MCG1178, multidrug resistance protein 1A; P-glycoprotein, PGP, cyclic peptide, membrane protein; 3.80A {Mus musculus} PDB: 3g61_A* 3g60_A*

Probab=97.28  E-value=0.00029  Score=75.94  Aligned_cols=34  Identities=24%  Similarity=0.383  Sum_probs=27.2

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCe
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGY  150 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~  150 (315)
                      +++|+.+.|.||+|+|||||+..++.......+.
T Consensus       413 i~~G~~~~ivG~sGsGKSTl~~ll~g~~~~~~G~  446 (1284)
T 3g5u_A          413 VKSGQTVALVGNSGCGKSTTVQLMQRLYDPLDGM  446 (1284)
T ss_dssp             ECTTCEEEEECCSSSSHHHHHHHTTTSSCCSEEE
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhCCCCCCCeE
Confidence            6799999999999999999998776555433333

>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=97.27  E-value=0.0016  Score=59.01  Aligned_cols=79  Identities=15%  Similarity=0.182  Sum_probs=50.2

Q ss_pred             HHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCChHHHHHcCCCCCCeEEeCCCCHHH
Q 021239          106 LKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAEN  185 (315)
Q Consensus       106 ~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~~~~~~~g~~~~~l~i~~~~~~e~  185 (315)
                      ..|-..+. .| ....+++++||||+|||+++..++...   +..+++++....                      ..+.
T Consensus        36 ~~l~~~l~-~~-~~~~~~L~~G~~G~GKT~la~~la~~l---~~~~~~i~~~~~----------------------~~~~   88 (324)
T 3u61_B           36 ETFKSITS-KG-KIPHIILHSPSPGTGKTTVAKALCHDV---NADMMFVNGSDC----------------------KIDF   88 (324)
T ss_dssp             HHHHHHHH-TT-CCCSEEEECSSTTSSHHHHHHHHHHHT---TEEEEEEETTTC----------------------CHHH
T ss_pred             HHHHHHHH-cC-CCCeEEEeeCcCCCCHHHHHHHHHHHh---CCCEEEEccccc----------------------CHHH
Confidence            34444554 23 223578999999999999999987665   556777774321                      1233


Q ss_pred             HHHHHHHHHHc----CCccEEeehhHhhhc
Q 021239          186 LLSVVDTLTKS----GSIDVIVVDSVAALI  211 (315)
Q Consensus       186 ~~~~i~~l~~~----~~~~lVVIDsl~~l~  211 (315)
                      +...+......    .+.++|+||.+..+.
T Consensus        89 i~~~~~~~~~~~~~~~~~~vliiDEi~~l~  118 (324)
T 3u61_B           89 VRGPLTNFASAASFDGRQKVIVIDEFDRSG  118 (324)
T ss_dssp             HHTHHHHHHHBCCCSSCEEEEEEESCCCGG
T ss_pred             HHHHHHHHHhhcccCCCCeEEEEECCcccC
Confidence            33334443332    267899999987764

>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=97.26  E-value=0.00012  Score=79.17  Aligned_cols=39  Identities=23%  Similarity=0.430  Sum_probs=29.5

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEec
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDV  156 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~  156 (315)
                      +++|+.+.|+|++|+||||++..+..-+-...|.+ ++|.
T Consensus      1102 I~~Ge~vaIVG~SGsGKSTL~~lL~rl~~p~~G~I-~iDG 1140 (1321)
T 4f4c_A         1102 VEPGQTLALVGPSGCGKSTVVALLERFYDTLGGEI-FIDG 1140 (1321)
T ss_dssp             ECTTCEEEEECSTTSSTTSHHHHHTTSSCCSSSEE-EETT
T ss_pred             ECCCCEEEEECCCCChHHHHHHHHhcCccCCCCEE-EECC
Confidence            68999999999999999999987765554444443 4443

>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=97.26  E-value=0.00031  Score=75.86  Aligned_cols=34  Identities=24%  Similarity=0.404  Sum_probs=27.9

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCe
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGY  150 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~  150 (315)
                      +++|+.+.|.||+|+||||++..+...+-...+.
T Consensus       441 i~~G~~vaivG~sGsGKSTll~ll~~~~~~~~G~  474 (1321)
T 4f4c_A          441 VNAGQTVALVGSSGCGKSTIISLLLRYYDVLKGK  474 (1321)
T ss_dssp             ECTTCEEEEEECSSSCHHHHHHHHTTSSCCSEEE
T ss_pred             ecCCcEEEEEecCCCcHHHHHHHhccccccccCc
Confidence            6899999999999999999998776665444433

>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=97.25  E-value=0.001  Score=61.31  Aligned_cols=44  Identities=16%  Similarity=0.070  Sum_probs=38.0

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCC
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENAL  160 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~  160 (315)
                      ..+|.++.|.|+||+||||++..++......++++.+++.+...
T Consensus        53 ~~~~~~i~i~G~~g~GKSTl~~~l~~~~~~~~~~v~v~~~d~~~   96 (341)
T 2p67_A           53 CGNTLRLGVTGTPGAGKSTFLEAFGMLLIREGLKVAVIAVDPSS   96 (341)
T ss_dssp             CSCSEEEEEEECTTSCHHHHHHHHHHHHHHTTCCEEEEEECCC-
T ss_pred             cCCCEEEEEEcCCCCCHHHHHHHHHHHHHhcCCeEEEEeecCCc
Confidence            35788999999999999999999999888889999998877643

>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=97.25  E-value=0.00069  Score=62.78  Aligned_cols=88  Identities=20%  Similarity=0.233  Sum_probs=54.2

Q ss_pred             CCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCCh---------HHHHHcCCCCCCeEEeCCCC---HH--
Q 021239          119 KGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP---------SLAEAMGIDAENLLIAQPDS---AE--  184 (315)
Q Consensus       119 ~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~---------~~~~~~g~~~~~l~i~~~~~---~e--  184 (315)
                      ....+.|+|+||+||||++..++......|.+|+.++.+.....         .+...++.+ .++.+....+   ..  
T Consensus        78 ~~~~I~i~G~~G~GKSTl~~~L~~~l~~~g~kV~vi~~Dp~~~~~~g~~l~d~~~~~~~~~~-~~~~i~~~~~~~~~~~~  156 (355)
T 3p32_A           78 NAHRVGITGVPGVGKSTAIEALGMHLIERGHRVAVLAVDPSSTRTGGSILGDKTRMARLAVH-PNAYIRPSPTSGTLGGV  156 (355)
T ss_dssp             CSEEEEEECCTTSSHHHHHHHHHHHHHTTTCCEEEEEEC----------------CHHHHTC-TTEEEECCC--CCHHHH
T ss_pred             CceEEEEECCCCCCHHHHHHHHHHHHHhCCCceEEEecCCCCCcccchhccchhhHHhhccC-CCeeEEECCCCccccch
Confidence            44589999999999999999999999888999999998755432         111222211 2344433221   11  


Q ss_pred             --HHHHHHHHHHHcCCccEEeehhHh
Q 021239          185 --NLLSVVDTLTKSGSIDVIVVDSVA  208 (315)
Q Consensus       185 --~~~~~i~~l~~~~~~~lVVIDsl~  208 (315)
                        ...+.+ ..+...+.++++||...
T Consensus       157 ~~~t~d~i-~~~~~~~~~~iiiDTpG  181 (355)
T 3p32_A          157 TRATRETV-VLLEAAGFDVILIETVG  181 (355)
T ss_dssp             HHHHHHHH-HHHHHTTCCEEEEEECS
T ss_pred             hHHHHHHH-HHHhhCCCCEEEEeCCC
Confidence              222333 33445678999999764

>2eyu_A Twitching motility protein PILT; pilus retraction motor, C-terminal domain PILT, protein transport; 1.87A {Aquifex aeolicus}

Probab=97.24  E-value=0.00033  Score=62.26  Aligned_cols=39  Identities=18%  Similarity=0.158  Sum_probs=33.1

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHhc-CCeEEEEe
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKL-GGYCAYLD  155 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~~-g~~v~~i~  155 (315)
                      +++|+++.|.||+|+||||++..++...... .+.+.+..
T Consensus        22 i~~g~~v~i~Gp~GsGKSTll~~l~g~~~~~~~G~I~~~g   61 (261)
T 2eyu_A           22 HRKMGLILVTGPTGSGKSTTIASMIDYINQTKSYHIITIE   61 (261)
T ss_dssp             GCSSEEEEEECSTTCSHHHHHHHHHHHHHHHCCCEEEEEE
T ss_pred             hCCCCEEEEECCCCccHHHHHHHHHHhCCCCCCCEEEEcC
Confidence            6799999999999999999999988877665 67776655

>2woo_A ATPase GET3; tail-anchored, membrane protein, targeting factor, endoplasmic reticulum, TRC40, ATP-binding, golgi apparatus; 3.01A {Schizosaccharomyces pombe}

Probab=97.23  E-value=0.0017  Score=59.48  Aligned_cols=40  Identities=18%  Similarity=0.207  Sum_probs=36.9

Q ss_pred             CcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCC
Q 021239          120 GRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENA  159 (315)
Q Consensus       120 G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~  159 (315)
                      -.++++.|..|+||||++.++|..+++.|.+|+++|++..
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            4578889999999999999999999999999999999876

>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=97.22  E-value=0.0019  Score=57.97  Aligned_cols=82  Identities=15%  Similarity=0.176  Sum_probs=49.5

Q ss_pred             HHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHhcC--CeEEEEecCCCCChHHHHHcCCCCCCeEEeCCCCH
Q 021239          106 LKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLG--GYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSA  183 (315)
Q Consensus       106 ~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g--~~v~~i~~E~~~~~~~~~~~g~~~~~l~i~~~~~~  183 (315)
                      ..|...+. .|-.+.  ++|+||+|+|||+++..++......+  ..+++++....                     ...
T Consensus        31 ~~l~~~l~-~~~~~~--~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~---------------------~~~   86 (323)
T 1sxj_B           31 DRLQQIAK-DGNMPH--MIISGMPGIGKTTSVHCLAHELLGRSYADGVLELNASDD---------------------RGI   86 (323)
T ss_dssp             HHHHHHHH-SCCCCC--EEEECSTTSSHHHHHHHHHHHHHGGGHHHHEEEECTTSC---------------------CSH
T ss_pred             HHHHHHHH-cCCCCe--EEEECcCCCCHHHHHHHHHHHhcCCcccCCEEEecCccc---------------------cCh
Confidence            34555555 332222  89999999999999999988864322  23444443221                     123


Q ss_pred             HHHHHHHHHHHH------cCCccEEeehhHhhhc
Q 021239          184 ENLLSVVDTLTK------SGSIDVIVVDSVAALI  211 (315)
Q Consensus       184 e~~~~~i~~l~~------~~~~~lVVIDsl~~l~  211 (315)
                      +.+.+.+..+..      ..+..+|+||.+..+.
T Consensus        87 ~~i~~~~~~~~~~~~~~~~~~~~viiiDe~~~l~  120 (323)
T 1sxj_B           87 DVVRNQIKHFAQKKLHLPPGKHKIVILDEADSMT  120 (323)
T ss_dssp             HHHHTHHHHHHHBCCCCCTTCCEEEEEESGGGSC
T ss_pred             HHHHHHHHHHHhccccCCCCCceEEEEECcccCC
Confidence            444444444331      2247899999988765

>1kgd_A CASK, peripheral plasma membrane CASK; maguk, guanylate kinase like domain, protein binding; 1.31A {Homo sapiens} SCOP: c.37.1.1

Probab=97.21  E-value=0.00021  Score=59.46  Aligned_cols=29  Identities=14%  Similarity=0.299  Sum_probs=24.3

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHH
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEA  144 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~  144 (315)
                      |..+|.++.|.||+|+|||||+..++...
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            45679999999999999999999887754

>2obl_A ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O127} PDB: 2obm_A*

Probab=97.21  E-value=0.00023  Score=65.94  Aligned_cols=45  Identities=22%  Similarity=0.227  Sum_probs=38.3

Q ss_pred             CCccccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHH
Q 021239           98 GPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQ  145 (315)
Q Consensus        98 ~~~i~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~  145 (315)
                      ...+.||+..||.++.   +.+|+.+.|.|++|+|||||+..++....
T Consensus        52 ~~~~~tg~~ald~ll~---i~~Gq~~gIiG~nGaGKTTLl~~I~g~~~   96 (347)
T 2obl_A           52 DQPFILGVRAIDGLLT---CGIGQRIGIFAGSGVGKSTLLGMICNGAS   96 (347)
T ss_dssp             CSEECCSCHHHHHHSC---EETTCEEEEEECTTSSHHHHHHHHHHHSC
T ss_pred             ceecCCCCEEEEeeee---ecCCCEEEEECCCCCCHHHHHHHHhcCCC
Confidence            4456789999999965   88999999999999999999877776653

>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=97.21  E-value=0.00093  Score=66.10  Aligned_cols=50  Identities=12%  Similarity=0.171  Sum_probs=41.7

Q ss_pred             CCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCChHHHHHcCC
Q 021239          119 KGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGI  170 (315)
Q Consensus       119 ~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~~~~~~~g~  170 (315)
                      ...++.+.|.+|+||||++.++|..+++.|.+|+++|++..  ......+|.
T Consensus         7 ~~~i~~~sgkGGvGKTT~a~~lA~~lA~~G~rVLlvd~D~~--~~l~~~l~~   56 (589)
T 1ihu_A            7 IPPYLFFTGKGGVGKTSISCATAIRLAEQGKRVLLVSTDPA--SNVGQVFSQ   56 (589)
T ss_dssp             CCSEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEECCTT--CCHHHHTTS
T ss_pred             CCEEEEEeCCCcCHHHHHHHHHHHHHHHCCCcEEEEECCCC--cCHHHHhCC
Confidence            45789999999999999999999999999999999999974  233444444

>3pvs_A Replication-associated recombination protein A; maintenance of genome stability Pro recombination; 2.50A {Escherichia coli}

Probab=97.21  E-value=0.0006  Score=65.31  Aligned_cols=69  Identities=17%  Similarity=0.214  Sum_probs=42.2

Q ss_pred             cEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCChHHHHHcCCCCCCeEEeCCCCHHHHHHHHHHHHHcCCcc
Q 021239          121 RIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTKSGSID  200 (315)
Q Consensus       121 ~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~~~~~~~g~~~~~l~i~~~~~~e~~~~~i~~l~~~~~~~  200 (315)
                      ..++|+||||+|||+++..++...   +.....++......                   ....+.+.............
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            469999999999999999887765   33444444211110                   01122333333333345678


Q ss_pred             EEeehhHhhhc
Q 021239          201 VIVVDSVAALI  211 (315)
Q Consensus       201 lVVIDsl~~l~  211 (315)
                      +++||.+..+.
T Consensus       109 iLfIDEI~~l~  119 (447)
T 3pvs_A          109 ILFVDEVHRFN  119 (447)
T ss_dssp             EEEEETTTCC-
T ss_pred             EEEEeChhhhC
Confidence            99999998764

>2dhr_A FTSH; AAA+ protein, hexameric Zn metalloprotease, hydrolase; HET: ADP; 3.90A {Thermus thermophilus}

Probab=97.21  E-value=0.00042  Score=67.29  Aligned_cols=73  Identities=23%  Similarity=0.176  Sum_probs=45.4

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCChHHHHHcCCCCCCeEEeCCCCHHHHHHHHHHHHH
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTK  195 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~~~~~~~g~~~~~l~i~~~~~~e~~~~~i~~l~~  195 (315)
                      -+++|  ++|+||||+|||+|+..++..+   +.+.++++...-...                  . .......+..+.+
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  9999999999999999888765   356677765321110                  0 0111122333322


Q ss_pred             ---cCCccEEeehhHhhhcc
Q 021239          196 ---SGSIDVIVVDSVAALIP  212 (315)
Q Consensus       196 ---~~~~~lVVIDsl~~l~~  212 (315)
                         ...+.+++||.+..+..
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               23568999999988763

>1tue_A Replication protein E1; helicase, replication, E1E2 complex, AAA+ protein; 2.10A {Human papillomavirus type 18} SCOP: c.37.1.20

Probab=97.21  E-value=0.00016  Score=61.95  Aligned_cols=45  Identities=22%  Similarity=0.239  Sum_probs=37.5

Q ss_pred             CCCccccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHH
Q 021239           97 RGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEA  144 (315)
Q Consensus        97 ~~~~i~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~  144 (315)
                      ..+.++. +..|...+.  |+|+...++|+||||+|||++|..++...
T Consensus        38 ~~~~~~f-~~~l~~~~~--~iPkkn~ili~GPPGtGKTt~a~ala~~l   82 (212)
T 1tue_A           38 QIEFITF-LGALKSFLK--GTPKKNCLVFCGPANTGKSYFGMSFIHFI   82 (212)
T ss_dssp             TCCHHHH-HHHHHHHHH--TCTTCSEEEEESCGGGCHHHHHHHHHHHH
T ss_pred             CcCHHHH-HHHHHHHHh--cCCcccEEEEECCCCCCHHHHHHHHHHHh
Confidence            4555555 778888887  78888889999999999999999988776

>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=97.19  E-value=0.0002  Score=58.74  Aligned_cols=35  Identities=26%  Similarity=0.279  Sum_probs=29.1

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeE
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYC  151 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v  151 (315)
                      -+++|+++.|.||+|+|||||+..++... ...+.+
T Consensus        29 ~i~~Ge~v~L~G~nGaGKTTLlr~l~g~l-~~~G~V   63 (158)
T 1htw_A           29 HTEKAIMVYLNGDLGAGKTTLTRGMLQGI-GHQGNV   63 (158)
T ss_dssp             CCSSCEEEEEECSTTSSHHHHHHHHHHHT-TCCSCC
T ss_pred             ccCCCCEEEEECCCCCCHHHHHHHHHHhC-CCCCeE
Confidence            35799999999999999999999988877 444443

>3te6_A Regulatory protein SIR3; heterochromatin, gene silencing, SIR complex, HMR, HML, TELO AAA+ domain, structural, nucleus, gene RE; 2.80A {Saccharomyces cerevisiae}

Probab=97.16  E-value=0.0011  Score=60.60  Aligned_cols=97  Identities=14%  Similarity=0.062  Sum_probs=57.7

Q ss_pred             HHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHhc-------CCeEEEEecCCCCCh-----HHHHHc-CCCCC
Q 021239          107 KLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKL-------GGYCAYLDVENALDP-----SLAEAM-GIDAE  173 (315)
Q Consensus       107 ~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~~-------g~~v~~i~~E~~~~~-----~~~~~~-g~~~~  173 (315)
                      .|...+. +|  ++..+.|+||||+|||+++..++......       .-.++|+++-.-...     .+++.+ |..  
T Consensus        35 ~L~~~i~-~~--~~~~lli~GpPGTGKT~~v~~v~~~L~~~~~~~~~~~~~~v~INc~~~~t~~~~~~~I~~~L~g~~--  109 (318)
T 3te6_A           35 PIYDSLM-SS--QNKLFYITNADDSTKFQLVNDVMDELITSSARKELPIFDYIHIDALELAGMDALYEKIWFAISKEN--  109 (318)
T ss_dssp             HHHHHHH-TT--CCCEEEEECCCSHHHHHHHHHHHHHHHHTTTTTSSCCEEEEEEETTCCC--HHHHHHHHHHHSCCC--
T ss_pred             HHHHHhc-CC--CCCeEEEECCCCCCHHHHHHHHHHHHHHHhhhccCCceEEEEEeccccCCHHHHHHHHHHHhcCCC--
Confidence            4445555 44  56678999999999999999999887642       225677886554332     234444 321  


Q ss_pred             CeEEeCCCCHHHHHHHHHHHH-HcCCccEEeehhHhhhc
Q 021239          174 NLLIAQPDSAENLLSVVDTLT-KSGSIDVIVVDSVAALI  211 (315)
Q Consensus       174 ~l~i~~~~~~e~~~~~i~~l~-~~~~~~lVVIDsl~~l~  211 (315)
                         .......+.+...+.... ....+-+|++|.+..+.
T Consensus       110 ---~~~~~~~~~L~~~f~~~~~~~~~~~ii~lDE~d~l~  145 (318)
T 3te6_A          110 ---LCGDISLEALNFYITNVPKAKKRKTLILIQNPENLL  145 (318)
T ss_dssp             -----CCCCHHHHHHHHHHSCGGGSCEEEEEEECCSSSC
T ss_pred             ---CCchHHHHHHHHHHHHhhhccCCceEEEEecHHHhh
Confidence               111223333333333321 23467899999888775

>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=97.15  E-value=0.0013  Score=57.62  Aligned_cols=38  Identities=24%  Similarity=0.328  Sum_probs=33.0

Q ss_pred             EEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCC
Q 021239          122 IVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENA  159 (315)
Q Consensus       122 i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~  159 (315)
                      +.+..+..|+||||++.++|..++..|.+|+++|.+..
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            34446778999999999999999999999999999864

>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=97.15  E-value=0.0022  Score=62.27  Aligned_cols=42  Identities=17%  Similarity=0.044  Sum_probs=31.0

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHhc--CC--eEEEEecCC
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKL--GG--YCAYLDVEN  158 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~~--g~--~v~~i~~E~  158 (315)
                      +..+.-++|+|.+|+|||+++..++..++..  .+  +++.+|..+
T Consensus       164 L~~~pHlLIaG~TGSGKSt~L~~li~sLl~~~~p~~v~l~liDpK~  209 (512)
T 2ius_A          164 LAKMPHLLVAGTTGSGASVGVNAMILSMLYKAQPEDVRFIMIDPKM  209 (512)
T ss_dssp             GGGSCSEEEECCTTSSHHHHHHHHHHHHHTTCCTTTEEEEEECCSS
T ss_pred             cccCceEEEECCCCCCHHHHHHHHHHHHHHhCCCceEEEEEECCch
Confidence            4457789999999999999999998876643  12  455566544

>4eun_A Thermoresistant glucokinase; putative sugar kinase, enzyme function initiative, EFI, STRU genomics, transferase; 1.60A {Janibacter SP}

Probab=97.13  E-value=0.00034  Score=59.14  Aligned_cols=39  Identities=31%  Similarity=0.400  Sum_probs=30.4

Q ss_pred             CCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCC
Q 021239          118 PKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALD  161 (315)
Q Consensus       118 ~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~  161 (315)
                      ++|.++.|.|++|+||||++..++...   |  ..+++.+.-..
T Consensus        27 ~~g~~i~l~G~~GsGKSTl~~~L~~~~---g--~~~i~~d~~~~   65 (200)
T 4eun_A           27 EPTRHVVVMGVSGSGKTTIAHGVADET---G--LEFAEADAFHS   65 (200)
T ss_dssp             -CCCEEEEECCTTSCHHHHHHHHHHHH---C--CEEEEGGGGSC
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHhh---C--CeEEccccccc
Confidence            579999999999999999999888766   2  45677655443

>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=97.13  E-value=0.001  Score=63.48  Aligned_cols=63  Identities=16%  Similarity=0.257  Sum_probs=49.6

Q ss_pred             CCCCccccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCC----eEEEEecCCCCC
Q 021239           96 RRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGG----YCAYLDVENALD  161 (315)
Q Consensus        96 ~~~~~i~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~----~v~~i~~E~~~~  161 (315)
                      ...+.+.||+..+|-++.   +-+|.-..|.|++|+|||+|+.+++..+...+.    .|+|....+...
T Consensus       130 ~~~e~l~TGiraID~l~p---igrGQr~~Ifgg~G~GKt~L~~~Ia~~~~~~~d~~~~~~V~~~iGeR~~  196 (465)
T 3vr4_D          130 YPDEFIQTGISAIDHLNT---LVRGQKLPVFSGSGLPHKELAAQIARQATVLDSSDDFAVVFAAIGITFE  196 (465)
T ss_dssp             CCCCBCBCSCHHHHTTSC---CBTTCBCCEEECTTSCHHHHHHHHHHHCBCSSCSSCEEEEEEEEEECHH
T ss_pred             CcccccccCceEEecccc---cccCCEEEEeCCCCcChHHHHHHHHHHHHhccCCCceEEEEEEecCCcH
Confidence            456789999999999987   668888999999999999999888776654334    677776655443

>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=97.11  E-value=0.0029  Score=55.17  Aligned_cols=39  Identities=23%  Similarity=0.324  Sum_probs=33.3

Q ss_pred             cEEEE-EecCCCChhHHHHHHHHHHHhcCCeEEEEecCCC
Q 021239          121 RIVEI-YGREASGKTTLALHVIKEAQKLGGYCAYLDVENA  159 (315)
Q Consensus       121 ~i~~i-~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~  159 (315)
                      .++.| .+..|+||||++.++|..++..|.+|+++|++..
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            34555 5568999999999999999999999999999873

>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=97.11  E-value=0.00061  Score=69.84  Aligned_cols=28  Identities=29%  Similarity=0.360  Sum_probs=25.1

Q ss_pred             CCCcEEEEEecCCCChhHHHHHHHHHHH
Q 021239          118 PKGRIVEIYGREASGKTTLALHVIKEAQ  145 (315)
Q Consensus       118 ~~G~i~~i~G~~GsGKTtlal~la~~~~  145 (315)
                      ++|+++.|.||+|+||||++.+++....
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            5799999999999999999999887643

>2www_A Methylmalonic aciduria type A protein, mitochondrial; transport protein, nucleotide-binding; HET: GDP 2PE; 2.64A {Homo sapiens}

Probab=97.10  E-value=0.00091  Score=61.90  Aligned_cols=43  Identities=23%  Similarity=0.194  Sum_probs=35.8

Q ss_pred             CCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCC
Q 021239          118 PKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENAL  160 (315)
Q Consensus       118 ~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~  160 (315)
                      +.+..+.|.|+||+|||||...++......++++.++..+...
T Consensus        72 ~~~~~v~lvG~pgaGKSTLln~L~~~~~~~~~~v~V~~~dp~~  114 (349)
T 2www_A           72 PLAFRVGLSGPPGAGKSTFIEYFGKMLTERGHKLSVLAVDPSS  114 (349)
T ss_dssp             CSCEEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEECCC--
T ss_pred             cCceEEEEEcCCCCCHHHHHHHHHHHhhhcCCeEEEEeecCCC
Confidence            4578999999999999999999998887788888888866543

>3tr0_A Guanylate kinase, GMP kinase; purines, pyrimidines, nucleosides, nucleotides, transferase; HET: 5GP; 1.85A {Coxiella burnetii}

Probab=97.10  E-value=0.0003  Score=59.27  Aligned_cols=28  Identities=25%  Similarity=0.375  Sum_probs=24.1

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHH
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEA  144 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~  144 (315)
                      +.+|.++.|.||+|+||||++..++...
T Consensus         4 m~~g~ii~l~Gp~GsGKSTl~~~L~~~~   31 (205)
T 3tr0_A            4 MNKANLFIISAPSGAGKTSLVRALVKAL   31 (205)
T ss_dssp             -CCCCEEEEECCTTSCHHHHHHHHHHHS
T ss_pred             CCCCcEEEEECcCCCCHHHHHHHHHhhC
Confidence            3579999999999999999998887653

>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=97.10  E-value=0.0021  Score=59.97  Aligned_cols=39  Identities=18%  Similarity=0.158  Sum_probs=33.2

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHhc-CCeEEEEe
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKL-GGYCAYLD  155 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~~-g~~v~~i~  155 (315)
                      +++|.++.|.||+|+||||++..++...... .+.++++.
T Consensus       133 ~~~g~~i~ivG~~GsGKTTll~~l~~~~~~~~~g~I~~~e  172 (372)
T 2ewv_A          133 HRKMGLILVTGPTGSGKSTTIASMIDYINQTKSYHIITIE  172 (372)
T ss_dssp             TSSSEEEEEECSSSSSHHHHHHHHHHHHHHHSCCEEEEEE
T ss_pred             hcCCCEEEEECCCCCCHHHHHHHHHhhcCcCCCcEEEEec
Confidence            5789999999999999999999998877665 57776665

>2dpy_A FLII, flagellum-specific ATP synthase; beta barrel, alpha-beta structure, hydrolase; HET: ADP; 2.40A {Salmonella typhimurium}

Probab=97.09  E-value=0.00044  Score=66.06  Aligned_cols=56  Identities=18%  Similarity=0.216  Sum_probs=41.9

Q ss_pred             CCccccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecC
Q 021239           98 GPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVE  157 (315)
Q Consensus        98 ~~~i~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E  157 (315)
                      ...+.||...||.++.   +.+|+.+.|.|++|+|||||+..++..... ...++.+..+
T Consensus       138 ~~~~~tg~~vld~vl~---i~~Gq~~~IvG~sGsGKSTLl~~Iag~~~~-~~G~i~~~G~  193 (438)
T 2dpy_A          138 EHVLDTGVRAINALLT---VGRGQRMGLFAGSGVGKSVLLGMMARYTRA-DVIVVGLIGE  193 (438)
T ss_dssp             CSBCCCSCHHHHHHSC---CBTTCEEEEEECTTSSHHHHHHHHHHHSCC-SEEEEEEESC
T ss_pred             ceecCCCceEEeeeEE---ecCCCEEEEECCCCCCHHHHHHHHhcccCC-CeEEEEEece
Confidence            3455678999999965   899999999999999999998777666533 3334444443

>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=97.08  E-value=0.00031  Score=59.78  Aligned_cols=28  Identities=29%  Similarity=0.405  Sum_probs=23.9

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHH
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEA  144 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~  144 (315)
                      +++|+++.|.||+|+|||||+..++...
T Consensus        17 i~~Gei~~l~GpnGsGKSTLl~~l~gl~   44 (207)
T 1znw_A           17 AAVGRVVVLSGPSAVGKSTVVRCLRERI   44 (207)
T ss_dssp             --CCCEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CCCCCEEEEECCCCCCHHHHHHHHHhhC
Confidence            6789999999999999999998887665

>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=97.07  E-value=0.00042  Score=57.66  Aligned_cols=29  Identities=28%  Similarity=0.446  Sum_probs=25.9

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHH
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEA  144 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~  144 (315)
                      |++++.++.|.|+||+||||++..++...
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            56788999999999999999999988765

>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=97.05  E-value=0.00068  Score=71.24  Aligned_cols=24  Identities=25%  Similarity=0.176  Sum_probs=21.7

Q ss_pred             CcEEEEEecCCCChhHHHHHHHHH
Q 021239          120 GRIVEIYGREASGKTTLALHVIKE  143 (315)
Q Consensus       120 G~i~~i~G~~GsGKTtlal~la~~  143 (315)
                      |++++|.||+|+||||++.+++..
T Consensus       789 g~i~~ItGpNgsGKSTlLr~iGl~  812 (1022)
T 2o8b_B          789 AYCVLVTGPNMGGKSTLMRQAGLL  812 (1022)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCChHHHHHHHHHH
Confidence            899999999999999999998443

>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=97.04  E-value=0.0015  Score=67.59  Aligned_cols=79  Identities=18%  Similarity=0.246  Sum_probs=44.0

Q ss_pred             CcEEEEEecCCCChhHHHHHHHHHHHh-------cCCeEEEEecCCCCChHHHHHcCCCCCCeEEeCCCCHHH-HHHHHH
Q 021239          120 GRIVEIYGREASGKTTLALHVIKEAQK-------LGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAEN-LLSVVD  191 (315)
Q Consensus       120 G~i~~i~G~~GsGKTtlal~la~~~~~-------~g~~v~~i~~E~~~~~~~~~~~g~~~~~l~i~~~~~~e~-~~~~i~  191 (315)
                      ...++|+||||+|||+++..++.....       .+.++++++...-..       |.       ......++ +...+.
T Consensus       191 ~~~vlL~G~pG~GKT~la~~la~~l~~~~~p~~l~~~~~~~l~~~~l~~-------g~-------~~~g~~~~~l~~~~~  256 (854)
T 1qvr_A          191 KNNPVLIGEPGVGKTAIVEGLAQRIVKGDVPEGLKGKRIVSLQMGSLLA-------GA-------KYRGEFEERLKAVIQ  256 (854)
T ss_dssp             CCCCEEEECTTSCHHHHHHHHHHHHHHTCSCTTSTTCEEEEECC-------------------------CHHHHHHHHHH
T ss_pred             CCceEEEcCCCCCHHHHHHHHHHHHhcCCCchhhcCCeEEEeehHHhhc-------cC-------ccchHHHHHHHHHHH
Confidence            345789999999999999999988754       356777776532111       00       00112232 233333


Q ss_pred             HHHHcCCccEEeehhHhhhcc
Q 021239          192 TLTKSGSIDVIVVDSVAALIP  212 (315)
Q Consensus       192 ~l~~~~~~~lVVIDsl~~l~~  212 (315)
                      ......++.+++||.+..+.+
T Consensus       257 ~~~~~~~~~iL~IDEi~~l~~  277 (854)
T 1qvr_A          257 EVVQSQGEVILFIDELHTVVG  277 (854)
T ss_dssp             HHHTTCSSEEEEECCC-----
T ss_pred             HHHhcCCCeEEEEecHHHHhc
Confidence            333334678999999998874

>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=97.04  E-value=0.00017  Score=63.40  Aligned_cols=38  Identities=18%  Similarity=0.178  Sum_probs=29.8

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEE
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAY  153 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~  153 (315)
                      -+++|+++.|.||+|+|||||+..++.......+.+.|
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            36799999999999999999998887655444445543

>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=97.04  E-value=0.00053  Score=60.61  Aligned_cols=38  Identities=18%  Similarity=0.114  Sum_probs=31.7

Q ss_pred             CCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEec
Q 021239          119 KGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDV  156 (315)
Q Consensus       119 ~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~  156 (315)
                      ++.++.|.|+|||||||++..++......|..+++++.
T Consensus         3 ~~~lIvl~G~pGSGKSTla~~La~~L~~~g~~~i~~~~   40 (260)
T 3a4m_A            3 DIMLIILTGLPGVGKSTFSKNLAKILSKNNIDVIVLGS   40 (260)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEECT
T ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHhCCCEEEEECc
Confidence            46799999999999999999998876666777766664

>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=97.04  E-value=0.0012  Score=62.98  Aligned_cols=64  Identities=14%  Similarity=0.201  Sum_probs=49.5

Q ss_pred             CCCCCccccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHhcC-------C----eEEEEecCCCCC
Q 021239           95 SRRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLG-------G----YCAYLDVENALD  161 (315)
Q Consensus        95 ~~~~~~i~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g-------~----~v~~i~~E~~~~  161 (315)
                      ....+.+.||+..+|-++.   +-+|.-..|.|++|+|||+|+.+++..+...+       .    .|+|....+...
T Consensus       125 ~~~~e~l~TGiraID~l~p---igrGQr~~Ifgg~G~GKt~L~~~Ia~~~~a~~~~~~~~~d~~~~~~V~~~iGeR~~  199 (464)
T 3gqb_B          125 RKPEQFIQTGISTIDVMNT---LVRGQKLPIFSGSGLPANEIAAQIARQATVRPDLSGEGEKEEPFAVVFAAMGITQR  199 (464)
T ss_dssp             CCCCCBCBCSCHHHHTTSC---CBTTCBCCEEEETTSCHHHHHHHHHHHCBCCHHHHCCCSTTCCEEEEEEEEEECHH
T ss_pred             cCccccccCcceeeecccc---cccCCEEEEecCCCCCchHHHHHHHHHHHhcccccccccCCCceEEEEEEecCchH
Confidence            3457889999999999987   67899999999999999999988876654321       2    677766554443

>3ea0_A ATPase, para family; alpha-beta-alpha sandwich, structural genomics, PSI-2, prote structure initiative; HET: ATP; 2.20A {Chlorobium tepidum}

Probab=97.02  E-value=0.002  Score=55.66  Aligned_cols=41  Identities=10%  Similarity=0.094  Sum_probs=35.0

Q ss_pred             CCcEEEEEe-cCCCChhHHHHHHHHHHHhc-CCeEEEEecCCC
Q 021239          119 KGRIVEIYG-REASGKTTLALHVIKEAQKL-GGYCAYLDVENA  159 (315)
Q Consensus       119 ~G~i~~i~G-~~GsGKTtlal~la~~~~~~-g~~v~~i~~E~~  159 (315)
                      .+.++.+++ ..|+||||++.++|..++.. |.+|+++|++..
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            355666665 58999999999999999998 999999999866

>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=97.02  E-value=0.00014  Score=63.69  Aligned_cols=31  Identities=29%  Similarity=0.612  Sum_probs=26.4

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHh
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQK  146 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~  146 (315)
                      -+++|+++.|.||+|+|||||+..++.....
T Consensus        27 ~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~p   57 (237)
T 2cbz_A           27 SIPEGALVAVVGQVGCGKSSLLSALLAEMDK   57 (237)
T ss_dssp             EECTTCEEEEECSTTSSHHHHHHHHTTCSEE
T ss_pred             EECCCCEEEEECCCCCCHHHHHHHHhcCCCC
Confidence            3679999999999999999999887765543

>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=97.01  E-value=0.0028  Score=61.93  Aligned_cols=61  Identities=18%  Similarity=0.194  Sum_probs=49.6

Q ss_pred             CCCCccccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCC
Q 021239           96 RRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALD  161 (315)
Q Consensus        96 ~~~~~i~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~  161 (315)
                      ...+.+.||+..+|.++.   +-+|.-..|.|++|+|||+++.+++.+.  ...-++|....+...
T Consensus       211 ~~~epl~TGirvID~l~P---igrGqr~~Ifgg~g~GKT~L~~~ia~~~--~~~v~V~~~iGER~~  271 (600)
T 3vr4_A          211 NPDVPMITGQRVIDTFFP---VTKGGAAAVPGPFGAGKTVVQHQIAKWS--DVDLVVYVGCGERGN  271 (600)
T ss_dssp             CCCSBCCCCCHHHHHHSC---CBTTCEEEEECCTTSCHHHHHHHHHHHS--SCSEEEEEEEEECHH
T ss_pred             CCCceecccchhhhccCC---ccCCCEEeeecCCCccHHHHHHHHHhcc--CCCEEEEEEecccHH
Confidence            456889999999999987   7799999999999999999999887653  345677777655543

>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=97.00  E-value=0.0007  Score=57.65  Aligned_cols=40  Identities=28%  Similarity=0.227  Sum_probs=33.9

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHH-hcCCeEEEEec
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQ-KLGGYCAYLDV  156 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~-~~g~~v~~i~~  156 (315)
                      +++|.++.|.|++|+||||++..++.... ..|.++.+++.
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            56899999999999999999999988775 45667888874

>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=97.00  E-value=0.00074  Score=61.58  Aligned_cols=43  Identities=19%  Similarity=0.138  Sum_probs=34.7

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHhc-C-CeEEEEecCCC
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKL-G-GYCAYLDVENA  159 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~~-g-~~v~~i~~E~~  159 (315)
                      +++|.++.|.|++|||||||+..++...... | .++.|+..+..
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            6789999999999999999998888776543 3 36778876654

>2j41_A Guanylate kinase; GMP, GMK, transferase, ATP-binding, nucleotide- binding; HET: 5GP; 1.9A {Staphylococcus aureus}

Probab=96.99  E-value=0.00044  Score=58.23  Aligned_cols=28  Identities=21%  Similarity=0.401  Sum_probs=24.1

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHH
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEA  144 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~  144 (315)
                      +++|.++.|.|++||||||++..++...
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            4689999999999999999998887654

>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=96.99  E-value=0.001  Score=63.75  Aligned_cols=113  Identities=14%  Similarity=0.247  Sum_probs=72.2

Q ss_pred             CCCCccccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHhc----CCeEEEEecCCCCCh--HHHHHc-
Q 021239           96 RRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKL----GGYCAYLDVENALDP--SLAEAM-  168 (315)
Q Consensus        96 ~~~~~i~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~~----g~~v~~i~~E~~~~~--~~~~~~-  168 (315)
                      ...+.+.||+..+|-++.   +-+|.-..|.|++|+|||+|+.++|.++...    +..|+|....+....  +..+.+ 
T Consensus       131 ~~~e~l~TGir~ID~l~p---igrGQr~~Ifgg~G~GKt~Ll~~Ia~~~~~n~~~~~~~~V~~~iGER~~Ev~e~~~~~~  207 (469)
T 2c61_A          131 PPKDFIQTGISTIDGTNT---LVRGQKLPIFSASGLPHNEIALQIARQASVPGSESAFAVVFAAMGITNEEAQYFMSDFE  207 (469)
T ss_dssp             CCCSBCBCSCHHHHTTSC---CBTTCBCCEEECTTSCHHHHHHHHHHHCBCTTCSSCEEEEEEEEEECHHHHHHHHHHHH
T ss_pred             ccccccceeeEeeeeeec---cccCCEEEEECCCCCCHHHHHHHHHHHHhhccCCCCcEEEEEEccCCcHHHHHHHHHHH
Confidence            456789999999999987   6788899999999999999999888877542    235777766554433  122111 


Q ss_pred             --C-CCCCCeEEeCCCC--HHH------HHHHHHHHH-HcCCccEEeehhHhhhc
Q 021239          169 --G-IDAENLLIAQPDS--AEN------LLSVVDTLT-KSGSIDVIVVDSVAALI  211 (315)
Q Consensus       169 --g-~~~~~l~i~~~~~--~e~------~~~~i~~l~-~~~~~~lVVIDsl~~l~  211 (315)
                        | ++-.-+.+...+.  ...      .....+.+. +++.--++++||++.+.
T Consensus       208 ~~g~m~rtvvV~~tsd~p~~~r~~~~~~a~tiAEyfrdd~G~dVLl~~DsltR~A  262 (469)
T 2c61_A          208 KTGALERAVVFLNLADDPAVERIVTPRMALTAAEYLAYEHGMHVLVILTDITNYA  262 (469)
T ss_dssp             HHSGGGGEEEEEEETTSCHHHHHHHHHHHHHHHHHHHHHHCCEEEEEEECHHHHH
T ss_pred             hccCccceEEEEECCCCCHHHHHHHHHHHHHHHHHHHHhcCCeEEEEEeCHHHHH
Confidence              2 1111122222222  222      123344455 35667799999998775

>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=96.98  E-value=0.0017  Score=60.62  Aligned_cols=36  Identities=17%  Similarity=0.247  Sum_probs=33.8

Q ss_pred             cEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEec
Q 021239          121 RIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDV  156 (315)
Q Consensus       121 ~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~  156 (315)
                      .++.+.|..|+||||++.++|..++..|.+|+++|+
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

>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=96.98  E-value=0.00016  Score=62.90  Aligned_cols=29  Identities=24%  Similarity=0.612  Sum_probs=25.5

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHH
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQ  145 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~  145 (315)
                      +++|+++.|.||+|+|||||+..++....
T Consensus        31 i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~   59 (229)
T 2pze_A           31 IERGQLLAVAGSTGAGKTSLLMMIMGELE   59 (229)
T ss_dssp             EETTCEEEEECCTTSSHHHHHHHHTTSSC
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhCCCc
Confidence            67999999999999999999988776554

>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=96.98  E-value=0.00091  Score=60.79  Aligned_cols=43  Identities=30%  Similarity=0.410  Sum_probs=34.6

Q ss_pred             HHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEE
Q 021239          106 LKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAY  153 (315)
Q Consensus       106 ~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~  153 (315)
                      +.|+.+.-  .+++|+++.|.||+|+|||||+..++...   .+.++.
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            34555554  78999999999999999999999988877   456643

>1knq_A Gluconate kinase; ALFA/beta structure, transferase; 2.00A {Escherichia coli} SCOP: c.37.1.17 PDB: 1ko1_A 1ko4_A 1ko5_A* 1ko8_A* 1kof_A*

Probab=96.97  E-value=0.00051  Score=56.43  Aligned_cols=38  Identities=26%  Similarity=0.320  Sum_probs=29.9

Q ss_pred             CCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCC
Q 021239          118 PKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENAL  160 (315)
Q Consensus       118 ~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~  160 (315)
                      .+|.++.|.|+||+||||++..++...   |  ..+++.+.-.
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            468899999999999999999887654   3  4567766543

>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=96.97  E-value=0.00099  Score=67.91  Aligned_cols=26  Identities=27%  Similarity=0.262  Sum_probs=23.8

Q ss_pred             CcEEEEEecCCCChhHHHHHHHHHHH
Q 021239          120 GRIVEIYGREASGKTTLALHVIKEAQ  145 (315)
Q Consensus       120 G~i~~i~G~~GsGKTtlal~la~~~~  145 (315)
                      |+++.|.||+|+||||++.+++....
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

>3asz_A Uridine kinase; cytidine phosphorylation, transferase; HET: C5P; 2.25A {Thermus thermophilus} PDB: 3asy_A*

Probab=96.97  E-value=0.00072  Score=57.29  Aligned_cols=38  Identities=37%  Similarity=0.475  Sum_probs=30.1

Q ss_pred             CCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCC
Q 021239          118 PKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVEN  158 (315)
Q Consensus       118 ~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~  158 (315)
                      ++|.++.|.|++||||||++..++.....   .+.|++.+.
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            57899999999999999999888776532   477777654

>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=96.95  E-value=0.0005  Score=59.45  Aligned_cols=29  Identities=17%  Similarity=0.373  Sum_probs=24.0

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHH
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEA  144 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~  144 (315)
                      -+++|.++.|.||+|+|||||+..++...
T Consensus        12 ~~~~G~ii~l~GpsGsGKSTLlk~L~g~~   40 (219)
T 1s96_A           12 HMAQGTLYIVSAPSGAGKSSLIQALLKTQ   40 (219)
T ss_dssp             ---CCCEEEEECCTTSCHHHHHHHHHHHS
T ss_pred             cCCCCcEEEEECCCCCCHHHHHHHHhccC
Confidence            57899999999999999999998887665

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=96.94  E-value=0.0015  Score=66.63  Aligned_cols=70  Identities=16%  Similarity=0.166  Sum_probs=47.8

Q ss_pred             EEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCChHHHHHcCCCCCCeEEeCCCCHHHHHHHHHHHHHcCCccE
Q 021239          122 IVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTKSGSIDV  201 (315)
Q Consensus       122 i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~~~~~~~g~~~~~l~i~~~~~~e~~~~~i~~l~~~~~~~l  201 (315)
                      .++|+||||+|||++|..++......+.+++++++..-....            ..    ....+..    .+......+
T Consensus       523 ~~Ll~Gp~GtGKT~lA~ala~~l~~~~~~~i~i~~s~~~~~~------------~~----~~~~l~~----~~~~~~~~v  582 (758)
T 3pxi_A          523 SFIFLGPTGVGKTELARALAESIFGDEESMIRIDMSEYMEKH------------ST----SGGQLTE----KVRRKPYSV  582 (758)
T ss_dssp             EEEEESCTTSSHHHHHHHHHHHHHSCTTCEEEEEGGGGCSSC------------CC----C---CHH----HHHHCSSSE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhcCCCcceEEEechhccccc------------cc----ccchhhH----HHHhCCCeE
Confidence            699999999999999999998887777888888864322210            00    0112222    233456789


Q ss_pred             EeehhHhhhc
Q 021239          202 IVVDSVAALI  211 (315)
Q Consensus       202 VVIDsl~~l~  211 (315)
                      |++|.+..+.
T Consensus       583 l~lDEi~~~~  592 (758)
T 3pxi_A          583 VLLDAIEKAH  592 (758)
T ss_dssp             EEEECGGGSC
T ss_pred             EEEeCccccC
Confidence            9999997664

>1ofu_X SULA, hypothetical protein PA3008; bacterial cell division inhibitor, SULA protein; HET: GDP; 2.1A {Pseudomonas aeruginosa} SCOP: c.37.1.22

Probab=96.94  E-value=0.017  Score=44.92  Aligned_cols=112  Identities=13%  Similarity=0.149  Sum_probs=85.9

Q ss_pred             CcEEEEE-ecCCCChhHHHHHHHHHHHh--cCCeEEEEecCCCCChHHHHHcCCCCCCeEEeCCCCHHHHHHHHHHHHHc
Q 021239          120 GRIVEIY-GREASGKTTLALHVIKEAQK--LGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTKS  196 (315)
Q Consensus       120 G~i~~i~-G~~GsGKTtlal~la~~~~~--~g~~v~~i~~E~~~~~~~~~~~g~~~~~l~i~~~~~~e~~~~~i~~l~~~  196 (315)
                      +.++++. -.+|.|-..+..-+......  .++.++||.....+........|++++++.+.++.+..+.++.+++.++.
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            4466664 55788887887777777765  77899999988878888888999999999999999999999999999999


Q ss_pred             CCccEEeehhHhhhccccccCCCccCCChHHHHHHHHHHHHHHHHHHhccCcEEEEE
Q 021239          197 GSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFL  253 (315)
Q Consensus       197 ~~~~lVVIDsl~~l~~~~~~~~~~~~~~~~~q~r~i~~~l~~L~~~~~~~~i~VI~i  253 (315)
                      +.+..||.. +..+-                     ...+++|...+++-++..+++
T Consensus        82 g~~~aVl~w-l~~l~---------------------~~~~RRLqlAA~~g~~~~~l~  116 (119)
T 1ofu_X           82 GRSHTVVSW-LEPLS---------------------RAARKQLSRAAQLGQAQSLNI  116 (119)
T ss_dssp             TCEEEEEEC-CSSCC---------------------HHHHHHHHHHHHHHTCEEEEE
T ss_pred             CCccEEEEC-CCcCC---------------------hHHHHHHHHHHHhCCCeEEEe
Confidence            999988874 11111                     123566666667777776664

>3b85_A Phosphate starvation-inducible protein; PHOH2, ATPase, PFAM: PF02562, ST genomics, PSI-2, protein structure initiative; 2.35A {Corynebacterium glutamicum atcc 13032}

Probab=96.94  E-value=0.00022  Score=61.19  Aligned_cols=35  Identities=26%  Similarity=0.195  Sum_probs=29.1

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeE
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYC  151 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v  151 (315)
                      ++++|+++.|.||+|+|||||+..++.. ....+.+
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            4578999999999999999999998887 5544444

>3pfi_A Holliday junction ATP-dependent DNA helicase RUVB; probable holliday junction DNA helicase; HET: ADP; 2.69A {Campylobacter jejuni subsp}

Probab=96.93  E-value=0.0034  Score=57.11  Aligned_cols=64  Identities=19%  Similarity=0.218  Sum_probs=42.0

Q ss_pred             cEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCChHHHHHcCCCCCCeEEeCCCCHHHHHHHHHHHHHcCCcc
Q 021239          121 RIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTKSGSID  200 (315)
Q Consensus       121 ~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~~~~~~~g~~~~~l~i~~~~~~e~~~~~i~~l~~~~~~~  200 (315)
                      ..++|+||||+|||+++..++...   +.+.+.++....                     ....++...+..   .....
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            458999999999999999986553   455555553221                     122233322222   34678


Q ss_pred             EEeehhHhhhc
Q 021239          201 VIVVDSVAALI  211 (315)
Q Consensus       201 lVVIDsl~~l~  211 (315)
                      +++||.+..+.
T Consensus       109 vl~lDEi~~l~  119 (338)
T 3pfi_A          109 ILFIDEIHRLS  119 (338)
T ss_dssp             EEEEETGGGCC
T ss_pred             EEEEechhhcC
Confidence            99999999775

>1z6g_A Guanylate kinase; structural genomics, SGC, structural genom consortium, transferase; HET: EPE; 2.18A {Plasmodium falciparum}

Probab=96.93  E-value=0.00042  Score=59.62  Aligned_cols=28  Identities=25%  Similarity=0.266  Sum_probs=24.1

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHH
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEA  144 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~  144 (315)
                      +++|+++.|.||+|+|||||+..++...
T Consensus        20 i~~G~~~~lvGpsGsGKSTLl~~L~g~~   47 (218)
T 1z6g_A           20 MNNIYPLVICGPSGVGKGTLIKKLLNEF   47 (218)
T ss_dssp             --CCCCEEEECSTTSSHHHHHHHHHHHS
T ss_pred             cCCCCEEEEECCCCCCHHHHHHHHHhhC
Confidence            5689999999999999999999888765

>1nks_A Adenylate kinase; thermophilic, transferase; HET: AMP ADP; 2.57A {Sulfolobus acidocaldarius} SCOP: c.37.1.1

Probab=96.91  E-value=0.00099  Score=55.17  Aligned_cols=35  Identities=20%  Similarity=0.160  Sum_probs=30.0

Q ss_pred             EEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEec
Q 021239          122 IVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDV  156 (315)
Q Consensus       122 i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~  156 (315)
                      ++.|.|+||+||||++..++......|..+.+++.
T Consensus         3 ~I~i~G~~GsGKsT~~~~L~~~l~~~g~~~~~~~~   37 (194)
T 1nks_A            3 IGIVTGIPGVGKSTVLAKVKEILDNQGINNKIINY   37 (194)
T ss_dssp             EEEEEECTTSCHHHHHHHHHHHHHTTTCCEEEEEH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHhcCceEEEEEC
Confidence            68999999999999999999887666777888853

>1iqp_A RFCS; clamp loader, extended AAA-ATPase domain, complex with ADP, replication; HET: ADP; 2.80A {Pyrococcus furiosus} SCOP: a.80.1.1 c.37.1.20

Probab=96.91  E-value=0.0018  Score=58.17  Aligned_cols=23  Identities=35%  Similarity=0.367  Sum_probs=21.2

Q ss_pred             EEEEecCCCChhHHHHHHHHHHH
Q 021239          123 VEIYGREASGKTTLALHVIKEAQ  145 (315)
Q Consensus       123 ~~i~G~~GsGKTtlal~la~~~~  145 (315)
                      ++|+||||+|||+++..++....
T Consensus        49 ~ll~G~~G~GKT~la~~l~~~l~   71 (327)
T 1iqp_A           49 LLFAGPPGVGKTTAALALARELF   71 (327)
T ss_dssp             EEEESCTTSSHHHHHHHHHHHHH
T ss_pred             EEEECcCCCCHHHHHHHHHHHhc
Confidence            89999999999999999988764

>1z6t_A APAF-1, apoptotic protease activating factor 1; caspase activation, ADP, nucleotide binding, CARD, apoptosis; HET: ADP; 2.21A {Homo sapiens}

Probab=96.90  E-value=0.0027  Score=62.34  Aligned_cols=101  Identities=17%  Similarity=0.194  Sum_probs=60.3

Q ss_pred             HHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHH---Hh-cCCeEEEEecCCCCChHH-------HHHcCCCCCC
Q 021239          106 LKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEA---QK-LGGYCAYLDVENALDPSL-------AEAMGIDAEN  174 (315)
Q Consensus       106 ~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~---~~-~g~~v~~i~~E~~~~~~~-------~~~~g~~~~~  174 (315)
                      ..|...+. .+-....++.|+|++|+|||||+.+++...   .. -...+.|++.........       +..++.... 
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            34555564 222346799999999999999999987543   22 224688988765432211       223331100 


Q ss_pred             eEEeCCCCHHHHHHHHHHHHHcC-CccEEeehhHh
Q 021239          175 LLIAQPDSAENLLSVVDTLTKSG-SIDVIVVDSVA  208 (315)
Q Consensus       175 l~i~~~~~~e~~~~~i~~l~~~~-~~~lVVIDsl~  208 (315)
                      ..-..+.+.+.+...+...+... ++-+||+|.+.
T Consensus       212 ~~~~~~~~~~~~~~~l~~~l~~~~~~~LLVLDdv~  246 (591)
T 1z6t_A          212 FSQRLPLNIEEAKDRLRILMLRKHPRSLLILDDVW  246 (591)
T ss_dssp             SCSSCCCSHHHHHHHHHHHHHHTCTTCEEEEEEEC
T ss_pred             cccCCCCCHHHHHHHHHHHHccCCCCeEEEEeCCC
Confidence            00112345667777777665543 57899999763

>1kht_A Adenylate kinase; phosphotransferase, signaling protein, transferase; HET: AMP; 2.50A {Methanococcus voltae} SCOP: c.37.1.1 PDB: 3h86_B* 1ki9_A

Probab=96.89  E-value=0.00089  Score=55.43  Aligned_cols=37  Identities=19%  Similarity=0.250  Sum_probs=29.4

Q ss_pred             CcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEec
Q 021239          120 GRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDV  156 (315)
Q Consensus       120 G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~  156 (315)
                      |.++.|.|+|||||||++..++......|.+..+++.
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            5789999999999999999998877655543556664

>1jr3_A DNA polymerase III subunit gamma; processivity, processivity clamp, clamp loader, AAA+ ATPase, transferase; HET: DNA; 2.70A {Escherichia coli} SCOP: a.80.1.1 c.37.1.20 PDB: 1xxh_B* 3glh_B* 3glf_B* 3gli_B* 3glg_B* 1xxi_B*

Probab=96.88  E-value=0.0027  Score=58.31  Aligned_cols=25  Identities=24%  Similarity=0.256  Sum_probs=22.1

Q ss_pred             cEEEEEecCCCChhHHHHHHHHHHH
Q 021239          121 RIVEIYGREASGKTTLALHVIKEAQ  145 (315)
Q Consensus       121 ~i~~i~G~~GsGKTtlal~la~~~~  145 (315)
                      ..++|+||+|+|||+++..++....
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            4789999999999999999987764

>3ux8_A Excinuclease ABC, A subunit; UVRA, nucleotide excision repair, DNA repair, ABC ATPase, DN binding protein; HET: ADP; 2.10A {Geobacillus}

Probab=96.86  E-value=0.0058  Score=61.38  Aligned_cols=24  Identities=42%  Similarity=0.646  Sum_probs=21.5

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHH
Q 021239          117 LPKGRIVEIYGREASGKTTLALHV  140 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~l  140 (315)
                      +++|+++.|.||+|+|||||+..+
T Consensus       345 I~~Ge~vaIiGpnGsGKSTLl~~i  368 (670)
T 3ux8_A          345 IPLGTFVAVTGVSGSGKSTLVNEV  368 (670)
T ss_dssp             EETTSEEEEECSTTSSHHHHHTTT
T ss_pred             ecCCCEEEEEeeCCCCHHHHHHHH
Confidence            568999999999999999998644

>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=96.85  E-value=0.003  Score=61.60  Aligned_cols=111  Identities=20%  Similarity=0.217  Sum_probs=72.8

Q ss_pred             CCCCccccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCCh--HHHHHcCC---
Q 021239           96 RRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP--SLAEAMGI---  170 (315)
Q Consensus        96 ~~~~~i~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~--~~~~~~g~---  170 (315)
                      ...+.+.||+..+|.++.   +-+|.-..|.|++|+|||+++.+++...  ....|+|....+....  +..+.+.-   
T Consensus       206 ~~~epl~TGirvID~l~P---igkGqr~~I~g~~g~GKT~L~~~ia~~~--~~~~~V~~~iGER~~Ev~e~~~~~~el~d  280 (588)
T 3mfy_A          206 PPEVPLITGQRVIDTFFP---QAKGGTAAIPGPAGSGKTVTQHQLAKWS--DAQVVIYIGCGERGNEMTDVLEEFPKLKD  280 (588)
T ss_dssp             CSCSEECCSCHHHHHHSC---EETTCEEEECSCCSHHHHHHHHHHHHHS--SCSEEEEEECCSSSSHHHHHHHHTTTCEE
T ss_pred             cCCcccccCcchhhccCC---cccCCeEEeecCCCCCHHHHHHHHHhcc--CCCEEEEEEecccHHHHHHHHHHHHHhcc
Confidence            456789999999999987   7789999999999999999998876542  3457888887776665  33444311   


Q ss_pred             -----C-CCC-eEEeC-CC-C-HHHH------HHHHHHHHHcCCccEEeehhHhhhc
Q 021239          171 -----D-AEN-LLIAQ-PD-S-AENL------LSVVDTLTKSGSIDVIVVDSVAALI  211 (315)
Q Consensus       171 -----~-~~~-l~i~~-~~-~-~e~~------~~~i~~l~~~~~~~lVVIDsl~~l~  211 (315)
                           . .++ +.+.. .+ + ....      ....+.+...+.--++++||++.+.
T Consensus       281 ~~~g~~~m~rtvvV~~tsd~p~~~r~~~~~~a~tiAEyfrd~G~dVLl~~DsltR~A  337 (588)
T 3mfy_A          281 PKTGKPLMERTVLIANTSNMPVAAREASIYTGITIAEYFRDMGYDVALMADSTSRWA  337 (588)
T ss_dssp             TTTTEEGGGGEEEEECCTTSCHHHHHHHHHHHHHHHHHHHHTTCEEEEEEECTTTCC
T ss_pred             cccccccccceEEEEECCCCCHHHHHHHHHHHHHHHHHHHHcCCCEEEeecchHHHH
Confidence                 0 112 22222 22 1 1111      2233444445555678899999776

>3vaa_A Shikimate kinase, SK; structural genomics, center for structural genomics of infec diseases, csgid, metal binding, transferase; 1.70A {Bacteroides thetaiotaomicron}

Probab=96.85  E-value=0.00073  Score=57.00  Aligned_cols=28  Identities=21%  Similarity=0.140  Sum_probs=24.1

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHH
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEA  144 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~  144 (315)
                      +++|.++.|.|+|||||||++..++...
T Consensus        22 ~~~~~~i~l~G~~GsGKsTl~~~La~~l   49 (199)
T 3vaa_A           22 SNAMVRIFLTGYMGAGKTTLGKAFARKL   49 (199)
T ss_dssp             --CCCEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             cCCCCEEEEEcCCCCCHHHHHHHHHHHc
Confidence            4578999999999999999999998766

>1lvg_A Guanylate kinase, GMP kinase; transferase; HET: ADP 5GP; 2.10A {Mus musculus} SCOP: c.37.1.1

Probab=96.84  E-value=0.00058  Score=57.79  Aligned_cols=27  Identities=30%  Similarity=0.394  Sum_probs=22.2

Q ss_pred             CCCcEEEEEecCCCChhHHHHHHHHHH
Q 021239          118 PKGRIVEIYGREASGKTTLALHVIKEA  144 (315)
Q Consensus       118 ~~G~i~~i~G~~GsGKTtlal~la~~~  144 (315)
                      ++|.++.|.||+|+|||||+..++...
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

>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=96.84  E-value=0.00068  Score=57.74  Aligned_cols=27  Identities=26%  Similarity=0.449  Sum_probs=24.1

Q ss_pred             CCCcEEEEEecCCCChhHHHHHHHHHH
Q 021239          118 PKGRIVEIYGREASGKTTLALHVIKEA  144 (315)
Q Consensus       118 ~~G~i~~i~G~~GsGKTtlal~la~~~  144 (315)
                      ++|.++.|.||+|+||||++..++...
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            579999999999999999999887654

>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=96.83  E-value=0.00062  Score=65.26  Aligned_cols=80  Identities=20%  Similarity=0.193  Sum_probs=50.1

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCChHHHHHcCCCCCCeEEeCCCCHHHHHHHHHHHH-
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLT-  194 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~~~~~~~g~~~~~l~i~~~~~~e~~~~~i~~l~-  194 (315)
                      |..++.-++|+||||+|||++|..++..... ..+.++++...-...                .....+.+...+...+ 
T Consensus        59 ~~~~~~~iLl~GppGtGKT~la~ala~~l~~-~~~~~~~~~~~~~~~----------------~~~~~~~~~~~f~~a~~  121 (456)
T 2c9o_A           59 KKMAGRAVLLAGPPGTGKTALALAIAQELGS-KVPFCPMVGSEVYST----------------EIKKTEVLMENFRRAIG  121 (456)
T ss_dssp             TCCTTCEEEEECCTTSSHHHHHHHHHHHHCT-TSCEEEEEGGGGCCS----------------SSCHHHHHHHHHHHTEE
T ss_pred             CCCCCCeEEEECCCcCCHHHHHHHHHHHhCC-CceEEEEeHHHHHHH----------------hhhhhHHHHHHHHHHHh
Confidence            5566677999999999999999998887632 245555553221110                1112233333333321 


Q ss_pred             -HcCCccEEeehhHhhhcc
Q 021239          195 -KSGSIDVIVVDSVAALIP  212 (315)
Q Consensus       195 -~~~~~~lVVIDsl~~l~~  212 (315)
                       +...+.+|+||.+..+.+
T Consensus       122 ~~~~~~~il~iDEid~l~~  140 (456)
T 2c9o_A          122 LRIKETKEVYEGEVTELTP  140 (456)
T ss_dssp             EEEEEEEEEEEEEEEEEEE
T ss_pred             hhhcCCcEEEEechhhccc
Confidence             334689999999998884

>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=96.82  E-value=0.0027  Score=61.80  Aligned_cols=60  Identities=20%  Similarity=0.169  Sum_probs=48.9

Q ss_pred             CCCCccccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCC
Q 021239           96 RRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENAL  160 (315)
Q Consensus        96 ~~~~~i~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~  160 (315)
                      ...+.+.||+..+|.++.   +-+|.-..|.|++|+|||+++.+++.+.  ...-|+|....+..
T Consensus       200 ~~~epl~TGirvID~l~P---igrGqr~~Ifg~~g~GKT~l~~~ia~~~--~~~v~V~~~iGER~  259 (578)
T 3gqb_A          200 DPNTPFLTGMRILDVLFP---VAMGGTAAIPGPFGSGKSVTQQSLAKWS--NADVVVYVGSGERG  259 (578)
T ss_dssp             CSCSEECCSCHHHHTTSC---EETTCEEEECCCTTSCHHHHHHHHHHHS--SCSEEEEEEEEECH
T ss_pred             cCCCcccccchhhhhccc---ccCCCEEeeeCCCCccHHHHHHHHHhcc--CCCEEEEEEecccH
Confidence            456889999999999986   7789999999999999999999887653  34567777665543

>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=96.79  E-value=0.0025  Score=57.85  Aligned_cols=35  Identities=26%  Similarity=0.334  Sum_probs=29.4

Q ss_pred             cEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCC
Q 021239          121 RIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVEN  158 (315)
Q Consensus       121 ~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~  158 (315)
                      .++.|+|++|+|||+|+.+++....   ..++|++...
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            5999999999999999999987753   3578998764

>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=96.78  E-value=0.003  Score=61.89  Aligned_cols=92  Identities=13%  Similarity=0.110  Sum_probs=58.7

Q ss_pred             CCCcEEEEEecCCCChhHHHHHHHH----HHHhcCCeEEEEecCCCC--Ch-----HHHHHcCCCCC--CeEEeCCCCHH
Q 021239          118 PKGRIVEIYGREASGKTTLALHVIK----EAQKLGGYCAYLDVENAL--DP-----SLAEAMGIDAE--NLLIAQPDSAE  184 (315)
Q Consensus       118 ~~G~i~~i~G~~GsGKTtlal~la~----~~~~~g~~v~~i~~E~~~--~~-----~~~~~~g~~~~--~l~i~~~~~~e  184 (315)
                      +...++.|+|.+|+||||||.+++.    .....-..++|++.....  ..     ..++.++...+  .+.-.+..+.+
T Consensus       150 ~~~~vv~I~G~gGvGKTtLA~~v~~~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~~~  229 (549)
T 2a5y_B          150 LDSFFLFLHGRAGSGKSVIASQALSKSDQLIGINYDSIVWLKDSGTAPKSTFDLFTDILLMLKSEDDLLNFPSVEHVTSV  229 (549)
T ss_dssp             SSSEEEEEECSTTSSHHHHHHHHHHHCSSTBTTTBSEEEEEECCCCSTTHHHHHHHHHHHHHTTTSCCTTCCCCTTCCHH
T ss_pred             CCceEEEEEcCCCCCHHHHHHHHHHhhhHHHhccCCcEEEEEECCCCCCCHHHHHHHHHHHHhcCcccccccccccccHH
Confidence            3457999999999999999998875    233334678899876653  22     24555654422  22111223456


Q ss_pred             HHHHHHHHHHHcCCccEEeehhHhh
Q 021239          185 NLLSVVDTLTKSGSIDVIVVDSVAA  209 (315)
Q Consensus       185 ~~~~~i~~l~~~~~~~lVVIDsl~~  209 (315)
                      ++...+.+.+...+.-+||+|.+..
T Consensus       230 ~l~~~l~~~L~~~kr~LlVLDdv~~  254 (549)
T 2a5y_B          230 VLKRMICNALIDRPNTLFVFDDVVQ  254 (549)
T ss_dssp             HHHHHHHHHHTTSTTEEEEEEEECC
T ss_pred             HHHHHHHHHHcCCCcEEEEEECCCC
Confidence            6677777766543367999997653

>2plr_A DTMP kinase, probable thymidylate kinase; TMP-binding, ATP-binding, structural GEN NPPSFA; HET: 1PE PGE EPE PG4; 1.60A {Sulfolobus tokodaii}

Probab=96.77  E-value=0.0014  Score=55.08  Aligned_cols=36  Identities=19%  Similarity=0.187  Sum_probs=28.7

Q ss_pred             CCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEe
Q 021239          119 KGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLD  155 (315)
Q Consensus       119 ~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~  155 (315)
                      +|.++.|.|+|||||||++..++......| .+++..
T Consensus         3 ~~~~I~i~G~~GsGKsT~~~~L~~~l~~~g-~~~~~~   38 (213)
T 2plr_A            3 KGVLIAFEGIDGSGKSSQATLLKDWIELKR-DVYLTE   38 (213)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHHHTTTS-CEEEEE
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHHHhhcC-CEEEec
Confidence            467899999999999999999988776555 554443

>1qvr_A CLPB protein; coiled coil, AAA ATPase, chaperone; HET: ANP; 3.00A {Thermus thermophilus} SCOP: a.174.1.1 c.37.1.20 c.37.1.20

Probab=96.75  E-value=0.0037  Score=64.57  Aligned_cols=84  Identities=14%  Similarity=0.160  Sum_probs=49.7

Q ss_pred             cEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCChHHHHH-cCCCCCCeEEeCCCCHHHHHHHHHHHHHcCCc
Q 021239          121 RIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEA-MGIDAENLLIAQPDSAENLLSVVDTLTKSGSI  199 (315)
Q Consensus       121 ~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~~~~~~-~g~~~~~l~i~~~~~~e~~~~~i~~l~~~~~~  199 (315)
                      ..++|+||||+|||++|..++......+.+.+++++..-........ +|..+.-+   .......+..    .+.....
T Consensus       589 ~~vLl~Gp~GtGKT~lA~~la~~~~~~~~~~i~i~~~~~~~~~~~s~l~g~~~~~~---G~~~~g~l~~----~~~~~~~  661 (854)
T 1qvr_A          589 GSFLFLGPTGVGKTELAKTLAATLFDTEEAMIRIDMTEYMEKHAVSRLIGAPPGYV---GYEEGGQLTE----AVRRRPY  661 (854)
T ss_dssp             EEEEEBSCSSSSHHHHHHHHHHHHHSSGGGEEEECTTTCCSSGGGGGC-----------------CHHH----HHHHCSS
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhcCCCCcEEEEechhccchhHHHHHcCCCCCCc---CccccchHHH----HHHhCCC
Confidence            47899999999999999999988877677888888755443321111 12111100   0000112222    2333457


Q ss_pred             cEEeehhHhhhc
Q 021239          200 DVIVVDSVAALI  211 (315)
Q Consensus       200 ~lVVIDsl~~l~  211 (315)
                      .+|+||.+..+.
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

>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=96.75  E-value=0.0016  Score=56.92  Aligned_cols=41  Identities=27%  Similarity=0.261  Sum_probs=36.7

Q ss_pred             CCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCC
Q 021239          118 PKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENA  159 (315)
Q Consensus       118 ~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~  159 (315)
                      .+..++.+.|.+|+||||++.+++...+ .|.+++.++.+..
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 8999999998765

>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=96.75  E-value=0.0019  Score=53.67  Aligned_cols=41  Identities=17%  Similarity=0.081  Sum_probs=32.3

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecC
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVE  157 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E  157 (315)
                      ...-.++.|.|++|+|||||+..++......+.++..+..+
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            34456899999999999999999998877777777666654

>3g5u_A MCG1178, multidrug resistance protein 1A; P-glycoprotein, PGP, cyclic peptide, membrane protein; 3.80A {Mus musculus} PDB: 3g61_A* 3g60_A*

Probab=96.74  E-value=0.00048  Score=74.21  Aligned_cols=30  Identities=20%  Similarity=0.344  Sum_probs=25.7

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHh
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQK  146 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~  146 (315)
                      +++|+.+.|.||+|+|||||+..++.....
T Consensus      1056 i~~Ge~v~ivG~sGsGKSTl~~~l~g~~~p 1085 (1284)
T 3g5u_A         1056 VKKGQTLALVGSSGCGKSTVVQLLERFYDP 1085 (1284)
T ss_dssp             ECSSSEEEEECSSSTTHHHHHHHHTTSSCC
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhcCcCC
Confidence            679999999999999999999887655433

>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=96.74  E-value=0.00075  Score=60.10  Aligned_cols=27  Identities=30%  Similarity=0.482  Sum_probs=24.7

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHH
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKE  143 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~  143 (315)
                      +++|+++.|.||+|+|||||+..++..
T Consensus        43 i~~Ge~~~l~G~NGsGKSTLlk~l~Gl   69 (267)
T 2zu0_C           43 VHPGEVHAIMGPNGSGKSTLSATLAGR   69 (267)
T ss_dssp             ECTTCEEEEECCTTSSHHHHHHHHHTC
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhCC
Confidence            679999999999999999999888765

>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=96.73  E-value=0.003  Score=62.42  Aligned_cols=53  Identities=17%  Similarity=0.211  Sum_probs=44.2

Q ss_pred             HHHHHhhcCC-CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCC
Q 021239          106 LKLDLALGIG-GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENA  159 (315)
Q Consensus       106 ~~LD~~l~~G-Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~  159 (315)
                      +.||.+++ + +-....++++.|.+|+||||++.++|..+++.|.+|+++|++..
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            66777776 3 23445678889999999999999999999999999999999855

>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=96.73  E-value=0.002  Score=53.39  Aligned_cols=85  Identities=20%  Similarity=0.273  Sum_probs=49.8

Q ss_pred             cEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCC---------CChHHHHHcCCC-----CCC-eEEeC---CCC
Q 021239          121 RIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENA---------LDPSLAEAMGID-----AEN-LLIAQ---PDS  182 (315)
Q Consensus       121 ~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~---------~~~~~~~~~g~~-----~~~-l~i~~---~~~  182 (315)
                      .++.|.|++|+||||++..++.....+|.+|..+..+..         .+..+.+..|.+     ..+ ..+..   ...
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            478999999999999999999988888888888885533         112334444532     122 22222   112


Q ss_pred             HHHHHHHHHHHHHcCCccEEeehhHhh
Q 021239          183 AENLLSVVDTLTKSGSIDVIVVDSVAA  209 (315)
Q Consensus       183 ~e~~~~~i~~l~~~~~~~lVVIDsl~~  209 (315)
                      .+.+.+.+..+    ++++++|.....
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            33333333322    789999987764

>2jeo_A Uridine-cytidine kinase 1; UCK, transferase, ATP-binding, nucleoside kinase, nucleotide-binding; 2.50A {Homo sapiens} PDB: 2uvq_A*

Probab=96.70  E-value=0.0011  Score=57.97  Aligned_cols=43  Identities=16%  Similarity=0.196  Sum_probs=31.2

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHh-----cCCeEEEEecCC
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQK-----LGGYCAYLDVEN  158 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~-----~g~~v~~i~~E~  158 (315)
                      -+++|.++.|.||+||||||++..++...-.     ....+.|++.+.
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            4678999999999999999999888775421     123466777653

>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=96.69  E-value=0.0027  Score=62.33  Aligned_cols=39  Identities=13%  Similarity=0.015  Sum_probs=30.4

Q ss_pred             CcEEEEEecCCCChhHHHHHHHHHHHhcC----CeEEEEecCC
Q 021239          120 GRIVEIYGREASGKTTLALHVIKEAQKLG----GYCAYLDVEN  158 (315)
Q Consensus       120 G~i~~i~G~~GsGKTtlal~la~~~~~~g----~~v~~i~~E~  158 (315)
                      +.-.+|+|.+|+|||+++..++..++...    -+++.+|..+
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            34589999999999999999998887532    3566677654

>3lnc_A Guanylate kinase, GMP kinase; ALS collaborative crystallography, emerald biostructures, ATP-binding, cytoplasm, nucleotide-binding; HET: 5GP; 1.95A {Anaplasma phagocytophilum}

Probab=96.67  E-value=0.00056  Score=59.09  Aligned_cols=28  Identities=29%  Similarity=0.382  Sum_probs=19.1

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHH-HHH
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVI-KEA  144 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la-~~~  144 (315)
                      +++|.++.|.||+|+||||++..++ ...
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            4689999999999999999998887 554

>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=96.66  E-value=0.00035  Score=63.07  Aligned_cols=29  Identities=24%  Similarity=0.612  Sum_probs=25.4

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHH
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQ  145 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~  145 (315)
                      +++|+++.|.||+|+|||||+..++....
T Consensus        61 i~~Ge~~~i~G~NGsGKSTLlk~l~Gl~~   89 (290)
T 2bbs_A           61 IERGQLLAVAGSTGAGKTSLLMMIMGELE   89 (290)
T ss_dssp             ECTTCEEEEEESTTSSHHHHHHHHTTSSC
T ss_pred             EcCCCEEEEECCCCCcHHHHHHHHhcCCC
Confidence            67999999999999999999988776543

>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=96.66  E-value=0.0026  Score=57.32  Aligned_cols=67  Identities=19%  Similarity=0.215  Sum_probs=43.2

Q ss_pred             CCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCChHHHHHcCCCCCCeEEeCCCCHHHHHHHHHHHHHcCC
Q 021239          119 KGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTKSGS  198 (315)
Q Consensus       119 ~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~~~~~~~g~~~~~l~i~~~~~~e~~~~~i~~l~~~~~  198 (315)
                      ....++|+||||+|||+++..++...   +.++.+++.....                     ...++...+..  ....
T Consensus        37 ~~~~vll~G~~GtGKT~la~~i~~~~---~~~~~~~~~~~~~---------------------~~~~l~~~l~~--~~~~   90 (324)
T 1hqc_A           37 PLEHLLLFGPPGLGKTTLAHVIAHEL---GVNLRVTSGPAIE---------------------KPGDLAAILAN--SLEE   90 (324)
T ss_dssp             CCCCCEEECCTTCCCHHHHHHHHHHH---TCCEEEECTTTCC---------------------SHHHHHHHHTT--TCCT
T ss_pred             CCCcEEEECCCCCCHHHHHHHHHHHh---CCCEEEEeccccC---------------------ChHHHHHHHHH--hccC
Confidence            34568999999999999999988765   4566666643221                     12233332221  0245


Q ss_pred             ccEEeehhHhhhc
Q 021239          199 IDVIVVDSVAALI  211 (315)
Q Consensus       199 ~~lVVIDsl~~l~  211 (315)
                      ..+++||.+..+.
T Consensus        91 ~~~l~lDEi~~l~  103 (324)
T 1hqc_A           91 GDILFIDEIHRLS  103 (324)
T ss_dssp             TCEEEETTTTSCC
T ss_pred             CCEEEEECCcccc
Confidence            6799999888664

>1cp2_A CP2, nitrogenase iron protein; oxidoreductase; 1.93A {Clostridium pasteurianum} SCOP: c.37.1.10

Probab=96.66  E-value=0.0021  Score=56.47  Aligned_cols=39  Identities=21%  Similarity=0.334  Sum_probs=34.9

Q ss_pred             EEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCC
Q 021239          122 IVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENAL  160 (315)
Q Consensus       122 i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~  160 (315)
                      ++.|.|..|+||||++.++|..+++.|.+|+++|++...
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            566689999999999999999999999999999998654

>2ghi_A Transport protein; multidrug resistance protein, MDR, structural genomics, structural genomics consortium, SGC; 2.20A {Plasmodium yoelii yoelii str}

Probab=96.66  E-value=0.00078  Score=59.73  Aligned_cols=29  Identities=28%  Similarity=0.407  Sum_probs=25.6

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHH
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEA  144 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~  144 (315)
                      -+++|+++.|.||+|+|||||+..++...
T Consensus        42 ~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   70 (260)
T 2ghi_A           42 FIPSGTTCALVGHTGSGKSTIAKLLYRFY   70 (260)
T ss_dssp             EECTTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             EECCCCEEEEECCCCCCHHHHHHHHhccC
Confidence            36799999999999999999998887654

>2qor_A Guanylate kinase; phosphotransferase, purine metabolism, structural genomics, structural genomics of pathogenic protozoa consortium; HET: 5GP POP; 1.80A {Plasmodium vivax}

Probab=96.66  E-value=0.0011  Score=56.21  Aligned_cols=28  Identities=25%  Similarity=0.313  Sum_probs=25.0

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHH
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEA  144 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~  144 (315)
                      +.+|.+++|+|+||+||||++..++...
T Consensus         9 ~~~~~~i~l~G~sGsGKsTl~~~L~~~~   36 (204)
T 2qor_A            9 MARIPPLVVCGPSGVGKGTLIKKVLSEF   36 (204)
T ss_dssp             CCCCCCEEEECCTTSCHHHHHHHHHHHC
T ss_pred             cccCCEEEEECCCCCCHHHHHHHHHHhC
Confidence            5689999999999999999999887655

>3uk6_A RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding, hydrolase; HET: ADP; 2.95A {Homo sapiens} PDB: 2xsz_D*

Probab=96.65  E-value=0.0016  Score=59.98  Aligned_cols=40  Identities=25%  Similarity=0.320  Sum_probs=30.9

Q ss_pred             CCCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEe
Q 021239          115 GGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLD  155 (315)
Q Consensus       115 GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~  155 (315)
                      .|..+|..++|+||||+|||+++..++..... ..+.+.+.
T Consensus        65 ~~~~~~~~vLl~GppGtGKT~la~~la~~l~~-~~~~~~~~  104 (368)
T 3uk6_A           65 EGKIAGRAVLIAGQPGTGKTAIAMGMAQALGP-DTPFTAIA  104 (368)
T ss_dssp             TTCCTTCEEEEEESTTSSHHHHHHHHHHHHCS-SCCEEEEE
T ss_pred             cCCCCCCEEEEECCCCCCHHHHHHHHHHHhcc-cCCccccc
Confidence            56677899999999999999999999888742 22444444

>2gno_A DNA polymerase III, gamma subunit-related protein; structural genomics, joint center for structural genomics, J protein structure initiative; HET: DNA; 2.00A {Thermotoga maritima} SCOP: a.80.1.1 c.37.1.20

Probab=96.64  E-value=0.016  Score=52.43  Aligned_cols=72  Identities=15%  Similarity=0.194  Sum_probs=44.6

Q ss_pred             CcEEEEEecCCCChhHHHHHHHHHHHhc---CCeEEEEecCCCCChHHHHHcCCCCCCeEEeCCCCHHHHHHHHHHHHH-
Q 021239          120 GRIVEIYGREASGKTTLALHVIKEAQKL---GGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTK-  195 (315)
Q Consensus       120 G~i~~i~G~~GsGKTtlal~la~~~~~~---g~~v~~i~~E~~~~~~~~~~~g~~~~~l~i~~~~~~e~~~~~i~~l~~-  195 (315)
                      ...++++||||+|||+++..++..+..-   ...+.+++.+.                    .....+++.+.+..... 
T Consensus        18 ~~~~Lf~Gp~G~GKtt~a~~la~~~~~~~~~~~d~~~l~~~~--------------------~~~~id~ir~li~~~~~~   77 (305)
T 2gno_A           18 GISILINGEDLSYPREVSLELPEYVEKFPPKASDVLEIDPEG--------------------ENIGIDDIRTIKDFLNYS   77 (305)
T ss_dssp             SEEEEEECSSSSHHHHHHHHHHHHHHTSCCCTTTEEEECCSS--------------------SCBCHHHHHHHHHHHTSC
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHhCchhhccCCCEEEEcCCc--------------------CCCCHHHHHHHHHHHhhc
Confidence            4589999999999999999998754211   11223332211                    01234555555544422 


Q ss_pred             --cCCccEEeehhHhhhc
Q 021239          196 --SGSIDVIVVDSVAALI  211 (315)
Q Consensus       196 --~~~~~lVVIDsl~~l~  211 (315)
                        ..+.++||||....+.
T Consensus        78 p~~~~~kvviIdead~lt   95 (305)
T 2gno_A           78 PELYTRKYVIVHDCERMT   95 (305)
T ss_dssp             CSSSSSEEEEETTGGGBC
T ss_pred             cccCCceEEEeccHHHhC
Confidence              2356899999988775

>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=96.63  E-value=0.0077  Score=61.19  Aligned_cols=80  Identities=15%  Similarity=0.162  Sum_probs=47.8

Q ss_pred             CCcEEEEEecCCCChhHHHHHHHHHHHhc-------CCeEEEEecCCCCChHHHHHcCCCCCCeEEeCCCCHHHHHHHHH
Q 021239          119 KGRIVEIYGREASGKTTLALHVIKEAQKL-------GGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVD  191 (315)
Q Consensus       119 ~G~i~~i~G~~GsGKTtlal~la~~~~~~-------g~~v~~i~~E~~~~~~~~~~~g~~~~~l~i~~~~~~e~~~~~i~  191 (315)
                      .+..++|+||||+|||+++..++......       +..+..++...-..       |       .......++.+..+.
T Consensus       206 ~~~~vlL~G~~GtGKT~la~~la~~l~~~~v~~~~~~~~~~~~~~~~l~~-------~-------~~~~g~~e~~l~~~~  271 (758)
T 1r6b_X          206 RKNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLDIGSLLA-------G-------TKYRGDFEKRFKALL  271 (758)
T ss_dssp             SSCEEEEECCTTSSHHHHHHHHHHHHHHTCSCGGGTTCEEEECCCC---C-------C-------CCCSSCHHHHHHHHH
T ss_pred             CCCCeEEEcCCCCCHHHHHHHHHHHHHhCCCChhhcCCEEEEEcHHHHhc-------c-------ccccchHHHHHHHHH
Confidence            56778999999999999999999877542       22332222111000       0       001123444444333


Q ss_pred             HHHHcCCccEEeehhHhhhcc
Q 021239          192 TLTKSGSIDVIVVDSVAALIP  212 (315)
Q Consensus       192 ~l~~~~~~~lVVIDsl~~l~~  212 (315)
                      ..+...+..+++||.+..+.+
T Consensus       272 ~~~~~~~~~iL~IDEi~~l~~  292 (758)
T 1r6b_X          272 KQLEQDTNSILFIDEIHTIIG  292 (758)
T ss_dssp             HHHSSSSCEEEEETTTTTTTT
T ss_pred             HHHHhcCCeEEEEechHHHhh
Confidence            334444678999999998874

>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=96.63  E-value=0.0024  Score=53.85  Aligned_cols=38  Identities=18%  Similarity=0.351  Sum_probs=31.0

Q ss_pred             CCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEe
Q 021239          118 PKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLD  155 (315)
Q Consensus       118 ~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~  155 (315)
                      .+|.++.|.|++||||||++..++......+-.+..+.
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            35789999999999999999999988766666664443

>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=96.61  E-value=0.0023  Score=55.45  Aligned_cols=37  Identities=24%  Similarity=0.183  Sum_probs=31.2

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEE
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAY  153 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~  153 (315)
                      .+.+|.++.|.|++|+||||++..++..... +..++.
T Consensus        22 ~~~~g~~i~i~G~~GsGKsT~~~~l~~~l~~-~~~~~~   58 (229)
T 4eaq_A           22 SNAMSAFITFEGPEGSGKTTVINEVYHRLVK-DYDVIM   58 (229)
T ss_dssp             CCCCCEEEEEECCTTSCHHHHHHHHHHHHTT-TSCEEE
T ss_pred             ecCCCeEEEEEcCCCCCHHHHHHHHHHHHhc-CCCcee
Confidence            4568999999999999999999999887766 666643

>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=96.61  E-value=0.0053  Score=63.70  Aligned_cols=25  Identities=40%  Similarity=0.658  Sum_probs=22.9

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHH
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVI  141 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la  141 (315)
                      +++|+++.|+|++|+|||||+..++
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

>2pjz_A Hypothetical protein ST1066; ATP binding protein, structural genomics, NPPSFA; 1.90A {Sulfolobus tokodaii}

Probab=96.61  E-value=0.00056  Score=60.86  Aligned_cols=34  Identities=32%  Similarity=0.332  Sum_probs=27.8

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeE
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYC  151 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v  151 (315)
                      -++ |+++.|.||+|+|||||+..++... ...+.+
T Consensus        27 ~i~-Ge~~~i~G~NGsGKSTLlk~l~Gl~-p~~G~I   60 (263)
T 2pjz_A           27 EVN-GEKVIILGPNGSGKTTLLRAISGLL-PYSGNI   60 (263)
T ss_dssp             EEC-SSEEEEECCTTSSHHHHHHHHTTSS-CCEEEE
T ss_pred             EEC-CEEEEEECCCCCCHHHHHHHHhCCC-CCCcEE
Confidence            378 9999999999999999999888766 544444

>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=96.60  E-value=0.0022  Score=58.50  Aligned_cols=43  Identities=16%  Similarity=0.339  Sum_probs=38.3

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCC
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENA  159 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~  159 (315)
                      +..-.++.|+|--|+||||.+.+++...++.|.+|+.+|++-.
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            4456799999999999999999999999999999999999853

>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=96.60  E-value=0.0017  Score=61.64  Aligned_cols=38  Identities=18%  Similarity=0.174  Sum_probs=32.2

Q ss_pred             CCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEe
Q 021239          118 PKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLD  155 (315)
Q Consensus       118 ~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~  155 (315)
                      .+|.+++|.||+|+||||++..++.......+.+.++.
T Consensus       165 ~~ggii~I~GpnGSGKTTlL~allg~l~~~~g~I~~~e  202 (418)
T 1p9r_A          165 RPHGIILVTGPTGSGKSTTLYAGLQELNSSERNILTVE  202 (418)
T ss_dssp             SSSEEEEEECSTTSCHHHHHHHHHHHHCCTTSCEEEEE
T ss_pred             hcCCeEEEECCCCCCHHHHHHHHHhhcCCCCCEEEEec
Confidence            68899999999999999999998877765567777665

>1kag_A SKI, shikimate kinase I; transferase, structural genomics, PSI, protein structure initiative; 2.05A {Escherichia coli} SCOP: c.37.1.2

Probab=96.60  E-value=0.0012  Score=53.99  Aligned_cols=33  Identities=18%  Similarity=0.361  Sum_probs=25.9

Q ss_pred             CCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEec
Q 021239          119 KGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDV  156 (315)
Q Consensus       119 ~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~  156 (315)
                      .|.++.|.|+|||||||++..++...   +  ..|++.
T Consensus         3 ~~~~i~l~G~~GsGKSTl~~~La~~l---~--~~~id~   35 (173)
T 1kag_A            3 EKRNIFLVGPMGAGKSTIGRQLAQQL---N--MEFYDS   35 (173)
T ss_dssp             CCCCEEEECCTTSCHHHHHHHHHHHT---T--CEEEEH
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHHh---C--CCEEec
Confidence            46789999999999999998887654   2  346664

>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=96.59  E-value=0.0055  Score=62.26  Aligned_cols=81  Identities=12%  Similarity=0.149  Sum_probs=48.3

Q ss_pred             cEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCCh-HHHHHcCCCCCCeEEeCCCCHHHHHHHHHHHHHcCCc
Q 021239          121 RIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP-SLAEAMGIDAENLLIAQPDSAENLLSVVDTLTKSGSI  199 (315)
Q Consensus       121 ~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~-~~~~~~g~~~~~l~i~~~~~~e~~~~~i~~l~~~~~~  199 (315)
                      ..++|+||||+|||++|..++...   +.+++.+++.+-... ...+-+|..+.       ....+....+...++....
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            368999999999999999988776   567888886443321 01111121110       0011111122333444567


Q ss_pred             cEEeehhHhhhc
Q 021239          200 DVIVVDSVAALI  211 (315)
Q Consensus       200 ~lVVIDsl~~l~  211 (315)
                      .+|+||.+..+.
T Consensus       559 ~vl~lDEi~~~~  570 (758)
T 1r6b_X          559 AVLLLDEIEKAH  570 (758)
T ss_dssp             EEEEEETGGGSC
T ss_pred             cEEEEeCccccC
Confidence            899999998664

>1gvn_B Zeta; postsegregational killing system, plasmid; 1.95A {Streptococcus pyogenes} SCOP: c.37.1.21 PDB: 3q8x_B*

Probab=96.58  E-value=0.0021  Score=57.76  Aligned_cols=37  Identities=24%  Similarity=0.339  Sum_probs=28.6

Q ss_pred             CCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecC
Q 021239          118 PKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVE  157 (315)
Q Consensus       118 ~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E  157 (315)
                      ..+.+++|+|+||+||||++..++...   +....+++.+
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            357899999999999999999887654   2345677763

>2npi_A Protein CLP1; CLP1-PCF11 complex, ATP binding, ternary complex, transcript; HET: ATP; 2.95A {Saccharomyces cerevisiae}

Probab=96.57  E-value=0.00091  Score=64.27  Aligned_cols=40  Identities=28%  Similarity=0.328  Sum_probs=32.1

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHhcCC-eEEEEec
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGG-YCAYLDV  156 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~-~v~~i~~  156 (315)
                      +++|+++.|.||+|+|||||+..++......++ .+++++.
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            458999999999999999999988877665556 5355554

>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=96.57  E-value=0.015  Score=53.15  Aligned_cols=86  Identities=14%  Similarity=0.122  Sum_probs=47.9

Q ss_pred             CcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCCh-HHHHH--cCCCCCCeEEeCC------CCHHHHHHHH
Q 021239          120 GRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP-SLAEA--MGIDAENLLIAQP------DSAENLLSVV  190 (315)
Q Consensus       120 G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~-~~~~~--~g~~~~~l~i~~~------~~~e~~~~~i  190 (315)
                      ...++|+||+|+|||+++..++..........     ..+-.. .-++.  -|..+ ++....+      ...+++.+.+
T Consensus        24 ~~a~L~~G~~G~GKt~~a~~la~~l~~~~~~~-----~~~c~~c~~c~~~~~~~~~-d~~~~~~~~~~~~~~i~~ir~l~   97 (334)
T 1a5t_A           24 HHALLIQALPGMGDDALIYALSRYLLCQQPQG-----HKSCGHCRGCQLMQAGTHP-DYYTLAPEKGKNTLGVDAVREVT   97 (334)
T ss_dssp             CSEEEEECCTTSCHHHHHHHHHHHHTCSSCBT-----TBCCSCSHHHHHHHHTCCT-TEEEECCCTTCSSBCHHHHHHHH
T ss_pred             ceeEEEECCCCchHHHHHHHHHHHHhCCCCCC-----CCCCCCCHHHHHHhcCCCC-CEEEEeccccCCCCCHHHHHHHH
Confidence            34799999999999999999998875332110     000000 11111  12222 2333322      2355555554


Q ss_pred             HHHHH---cCCccEEeehhHhhhc
Q 021239          191 DTLTK---SGSIDVIVVDSVAALI  211 (315)
Q Consensus       191 ~~l~~---~~~~~lVVIDsl~~l~  211 (315)
                      ..+..   ..+.+++|||....+.
T Consensus        98 ~~~~~~~~~~~~kvviIdead~l~  121 (334)
T 1a5t_A           98 EKLNEHARLGGAKVVWVTDAALLT  121 (334)
T ss_dssp             HHTTSCCTTSSCEEEEESCGGGBC
T ss_pred             HHHhhccccCCcEEEEECchhhcC
Confidence            44321   2457999999988765

>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=96.56  E-value=0.0027  Score=56.68  Aligned_cols=40  Identities=20%  Similarity=0.382  Sum_probs=35.5

Q ss_pred             cEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCC
Q 021239          121 RIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENAL  160 (315)
Q Consensus       121 ~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~  160 (315)
                      .++.|+|..|+||||++.++|..+++.|.+|+++|++...
T Consensus         3 kvIavs~KGGvGKTT~a~nLA~~La~~G~rVlliD~D~q~   42 (289)
T 2afh_E            3 RQCAIYGKGGIGKSTTTQNLVAALAEMGKKVMIVGCDPKA   42 (289)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHHHHHTTCCEEEEEECSSS
T ss_pred             eEEEEeCCCcCcHHHHHHHHHHHHHHCCCeEEEEecCCCC
Confidence            3566689999999999999999999999999999998654

>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=96.56  E-value=0.01  Score=57.77  Aligned_cols=40  Identities=18%  Similarity=0.242  Sum_probs=32.4

Q ss_pred             CCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCC
Q 021239          119 KGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVEN  158 (315)
Q Consensus       119 ~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~  158 (315)
                      ...+++++|.||+||||++..++...-..+..+..|+.+.
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            3468999999999999999999987765666777777543

>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=96.56  E-value=0.0011  Score=55.07  Aligned_cols=23  Identities=22%  Similarity=0.291  Sum_probs=21.0

Q ss_pred             CcEEEEEecCCCChhHHHHHHHH
Q 021239          120 GRIVEIYGREASGKTTLALHVIK  142 (315)
Q Consensus       120 G~i~~i~G~~GsGKTtlal~la~  142 (315)
                      |.++.|.|+||+||||++..++.
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            67899999999999999998864

>3cm0_A Adenylate kinase; ATP-binding, cytoplasm, nucleotide biosynthesis, nucleotide-binding, transferase, structural genomics; 1.80A {Thermus thermophilus}

Probab=96.55  E-value=0.0014  Score=54.22  Aligned_cols=27  Identities=30%  Similarity=0.357  Sum_probs=23.2

Q ss_pred             CCCcEEEEEecCCCChhHHHHHHHHHH
Q 021239          118 PKGRIVEIYGREASGKTTLALHVIKEA  144 (315)
Q Consensus       118 ~~G~i~~i~G~~GsGKTtlal~la~~~  144 (315)
                      .+|.++.|.|+|||||||++..++...
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            357899999999999999999987654

>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=96.55  E-value=0.0016  Score=53.50  Aligned_cols=25  Identities=16%  Similarity=0.300  Sum_probs=22.1

Q ss_pred             CcEEEEEecCCCChhHHHHHHHHHH
Q 021239          120 GRIVEIYGREASGKTTLALHVIKEA  144 (315)
Q Consensus       120 G~i~~i~G~~GsGKTtlal~la~~~  144 (315)
                      |.++.|.|+||+||||++..++...
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            5789999999999999999887654

>4b3f_X DNA-binding protein smubp-2; hydrolase, helicase; 2.50A {Homo sapiens} PDB: 4b3g_A

Probab=96.55  E-value=0.0015  Score=65.37  Aligned_cols=48  Identities=27%  Similarity=0.257  Sum_probs=38.8

Q ss_pred             CCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCChHHHH
Q 021239          119 KGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAE  166 (315)
Q Consensus       119 ~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~~~~~  166 (315)
                      ...+.+|.||||+|||+.+..++....+++.+++..+.-+..-..+++
T Consensus       204 ~~~~~lI~GPPGTGKT~ti~~~I~~l~~~~~~ILv~a~TN~AvD~i~e  251 (646)
T 4b3f_X          204 QKELAIIHGPPGTGKTTTVVEIILQAVKQGLKVLCCAPSNIAVDNLVE  251 (646)
T ss_dssp             CSSEEEEECCTTSCHHHHHHHHHHHHHHTTCCEEEEESSHHHHHHHHH
T ss_pred             CCCceEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEcCchHHHHHHHH
Confidence            456999999999999999999999999999999988865544333333

>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=96.52  E-value=0.0015  Score=55.19  Aligned_cols=40  Identities=33%  Similarity=0.381  Sum_probs=30.8

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCC
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENA  159 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~  159 (315)
                      -+++|.++.|.|++|+||||++..++....    .+.|++.+.-
T Consensus        17 ~~~~~~~i~i~G~~GsGKSTl~~~L~~~~~----~~~~i~~D~~   56 (207)
T 2qt1_A           17 RGSKTFIIGISGVTNSGKTTLAKNLQKHLP----NCSVISQDDF   56 (207)
T ss_dssp             CSCCCEEEEEEESTTSSHHHHHHHHHTTST----TEEEEEGGGG
T ss_pred             cCCCCeEEEEECCCCCCHHHHHHHHHHhcC----CcEEEeCCcc
Confidence            466899999999999999999988764321    4677776643

>2wwf_A Thymidilate kinase, putative; transferase, malaria; HET: TMP ADP; 1.89A {Plasmodium falciparum} PDB: 2wwg_A* 2wwh_A* 2wwi_A*

Probab=96.49  E-value=0.0036  Score=52.70  Aligned_cols=40  Identities=20%  Similarity=0.193  Sum_probs=31.7

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEe
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLD  155 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~  155 (315)
                      ...+|.++.|.|++||||||++..++......+-.+..+.
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            3457889999999999999999999887765565664443

>2bjv_A PSP operon transcriptional activator; AAA, transcription activation, gene regulation, sigma54 activator, enhancer binding protein, PSPF; 1.7A {Escherichia coli} PDB: 2bjw_A 2c96_A* 2c98_A* 2c99_A* 2c9c_A* 2vii_A*

Probab=96.47  E-value=0.0016  Score=57.21  Aligned_cols=41  Identities=20%  Similarity=0.199  Sum_probs=33.1

Q ss_pred             CcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCC
Q 021239          120 GRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENAL  160 (315)
Q Consensus       120 G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~  160 (315)
                      +..++|+|+||+|||++|..++......+.+++++++....
T Consensus        29 ~~~vll~G~~GtGKt~la~~i~~~~~~~~~~~~~v~~~~~~   69 (265)
T 2bjv_A           29 DKPVLIIGERGTGKELIASRLHYLSSRWQGPFISLNCAALN   69 (265)
T ss_dssp             CSCEEEECCTTSCHHHHHHHHHHTSTTTTSCEEEEEGGGSC
T ss_pred             CCCEEEECCCCCcHHHHHHHHHHhcCccCCCeEEEecCCCC
Confidence            45689999999999999999887766566788888876543

>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=96.43  E-value=0.0041  Score=63.91  Aligned_cols=122  Identities=17%  Similarity=0.182  Sum_probs=0.0

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHh---------------------------cC-----CeEEEEecCCCCChHH
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQK---------------------------LG-----GYCAYLDVENALDPSL  164 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~---------------------------~g-----~~v~~i~~E~~~~~~~  164 (315)
                      +++|+++.|+|++|+|||||+..+......                           .|     .++++++-.......+
T Consensus       520 i~~Geiv~I~G~nGSGKSTLl~~~L~g~l~~~~g~~~~~~g~~~~~~~~~~~~~~~~~G~~~~~~~~i~vdq~~i~~~~r  599 (842)
T 2vf7_A          520 FPLGVMTSVTGVSGSGKSTLVSQALVDALAAHFGQPVNPDPEDDEDPADHTAGSARLGGDLAQITRLVRVDQKPIGRTPR  599 (842)
T ss_dssp             EESSSEEEEECCTTSSHHHHCCCCCHHHHHHHTTC-----------------CCCEEEESGGGCCEEEEECSSCSCSSTT
T ss_pred             EcCCCEEEEEcCCCcCHHHHHHHHHHHHHHHHhcCCCCccccccccccccccccccccCcccccceEEEECCeeCCCCcc


Q ss_pred             --------------------------------------------------------------------------------
Q 021239          165 --------------------------------------------------------------------------------  164 (315)
Q Consensus       165 --------------------------------------------------------------------------------  164 (315)
                                                                                                      
T Consensus       600 s~~at~~~~~~~ir~~fa~~~~~r~~g~~~~~fs~n~~~g~c~~c~g~G~~~~~~~f~~~v~~~c~~c~G~r~~~e~l~v  679 (842)
T 2vf7_A          600 SNMATYTGLFDQVRKLFAATPLAKKRGYNAGRFSFNVKGGRCEHCQGEGWVMVELLFLPSVYAPCPVCHGTRYNAETLEV  679 (842)
T ss_dssp             CCHHHHSSTHHHHHHHHHTSHHHHHTTCCGGGGCSSSTTTBCTTTTTCSEEEETTCSSSCEEEECTTTTTCCBCTTGGGC
T ss_pred             ccchhhhhHHHHHHHHHhcChHHHhcCCccccccccccccccccccCCCccchhhhcCCccceecccccCcccchhhHhh


Q ss_pred             ----------------------------------HHHcCCCCC--CeEEeCCCCHHHHHHHHHHHHHcC--CccEEeehh
Q 021239          165 ----------------------------------AEAMGIDAE--NLLIAQPDSAENLLSVVDTLTKSG--SIDVIVVDS  206 (315)
Q Consensus       165 ----------------------------------~~~~g~~~~--~l~i~~~~~~e~~~~~i~~l~~~~--~~~lVVIDs  206 (315)
                                                        .+.+|+...  +-....-.-.+...-.+...+...  +++++++|.
T Consensus       680 ~~~~~si~e~l~ltv~e~l~~~~~~~~~~~~~~~L~~~gL~~~~l~~~~~~LSGGekQRv~LAraL~~~p~~p~lLILDE  759 (842)
T 2vf7_A          680 EYRGKNIADVLALTVDEAHDFFADESAIFRALDTLREVGLGYLRLGQPATELSGGEAQRIKLATELRRSGRGGTVYVLDE  759 (842)
T ss_dssp             CBTTBCHHHHHTCBHHHHHHHTTTSHHHHHHHHHHHHTTCTTSBTTCCGGGCCHHHHHHHHHHHTTSSCCSSCEEEEEEC
T ss_pred             hhcCCCHHHHHhccHHHHHHHhhcchHHHHHHHHHHHcCCCcccccCCcccCCHHHHHHHHHHHHHHhCCCCCCEEEEEC


Q ss_pred             HhhhccccccCCCccCCChHHHHHHHHHHHHHHHHHHhccCcEEEEEec
Q 021239          207 VAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQ  255 (315)
Q Consensus       207 l~~l~~~~~~~~~~~~~~~~~q~r~i~~~l~~L~~~~~~~~i~VI~inq  255 (315)
                      .+.-...             .....+.+.++++    .+.|.+||+++|
T Consensus       760 PTsGLD~-------------~~~~~l~~lL~~L----~~~G~tVIvisH  791 (842)
T 2vf7_A          760 PTTGLHP-------------ADVERLQRQLVKL----VDAGNTVIAVEH  791 (842)
T ss_dssp             TTTTCCH-------------HHHHHHHHHHHHH----HHTTCEEEEECC
T ss_pred             CCCCCCH-------------HHHHHHHHHHHHH----HhCCCEEEEEcC

>1svm_A Large T antigen; AAA+ fold, viral protein; HET: ATP; 1.94A {Simian virus 40} SCOP: c.37.1.20 PDB: 1svl_A* 1svo_A 1n25_A 2h1l_A

Probab=96.42  E-value=0.0025  Score=59.61  Aligned_cols=29  Identities=38%  Similarity=0.438  Sum_probs=26.4

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHH
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEA  144 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~  144 (315)
                      ++++|.++.|+||||+|||||+..++...
T Consensus       165 ~i~~~~~i~l~G~~GsGKSTl~~~l~~~~  193 (377)
T 1svm_A          165 NIPKKRYWLFKGPIDSGKTTLAAALLELC  193 (377)
T ss_dssp             CCTTCCEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             ccCCCCEEEEECCCCCCHHHHHHHHHhhc
Confidence            78999999999999999999999888643

>2pbr_A DTMP kinase, thymidylate kinase; transferase, nucleotide biosynthesis, TMP-binding, A binding, structural genomics, NPPSFA; 1.96A {Aquifex aeolicus}

Probab=96.37  E-value=0.0039  Score=51.59  Aligned_cols=34  Identities=24%  Similarity=0.351  Sum_probs=27.6

Q ss_pred             EEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEe
Q 021239          122 IVEIYGREASGKTTLALHVIKEAQKLGGYCAYLD  155 (315)
Q Consensus       122 i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~  155 (315)
                      ++.|.|++||||||++..++......|-.++..+
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            6889999999999999999887765566665444

>3kb2_A SPBC2 prophage-derived uncharacterized protein YORR; alpha-beta protein., structural genomics, PSI-2, protein structure initiative; HET: G3D; 2.20A {Bacillus subtilis} SCOP: c.37.1.1 PDB: 2axp_A*

Probab=96.37  E-value=0.0022  Score=52.01  Aligned_cols=24  Identities=25%  Similarity=0.325  Sum_probs=21.1

Q ss_pred             cEEEEEecCCCChhHHHHHHHHHH
Q 021239          121 RIVEIYGREASGKTTLALHVIKEA  144 (315)
Q Consensus       121 ~i~~i~G~~GsGKTtlal~la~~~  144 (315)
                      .++.|.|+|||||||++..++...
T Consensus         2 ~~i~l~G~~GsGKsT~~~~L~~~l   25 (173)
T 3kb2_A            2 TLIILEGPDCCFKSTVAAKLSKEL   25 (173)
T ss_dssp             CEEEEECSSSSSHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh
Confidence            378999999999999999887665

>2p5t_B PEZT; postsegregational killing system, phosphoryltransferase, HEL helix motif, transcription regulator; 3.20A {Streptococcus pneumoniae}

Probab=96.37  E-value=0.0017  Score=57.10  Aligned_cols=38  Identities=24%  Similarity=0.253  Sum_probs=29.6

Q ss_pred             CCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCC
Q 021239          118 PKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVEN  158 (315)
Q Consensus       118 ~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~  158 (315)
                      ..+.++.|.|+|||||||++..++...   +..+.+++.+.
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            456799999999999999999887654   33456777654

>1a7j_A Phosphoribulokinase; transferase, calvin cycle; 2.50A {Rhodobacter sphaeroides} SCOP: c.37.1.6

Probab=96.36  E-value=0.0024  Score=57.51  Aligned_cols=42  Identities=14%  Similarity=0.177  Sum_probs=31.0

Q ss_pred             CCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCC
Q 021239          119 KGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENAL  160 (315)
Q Consensus       119 ~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~  160 (315)
                      ++-++.|+|++||||||++..++......+..+.+++.+.-.
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            356899999999999999999887665556668889977654

>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=96.36  E-value=0.0025  Score=52.93  Aligned_cols=37  Identities=32%  Similarity=0.389  Sum_probs=28.1

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecC
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVE  157 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E  157 (315)
                      .++|..+.|+|+|||||||++..++....    ...+++.+
T Consensus         7 ~~~~~~I~l~G~~GsGKSTv~~~La~~l~----g~~~id~d   43 (184)
T 1y63_A            7 QPKGINILITGTPGTGKTSMAEMIAAELD----GFQHLEVG   43 (184)
T ss_dssp             CCSSCEEEEECSTTSSHHHHHHHHHHHST----TEEEEEHH
T ss_pred             CCCCCEEEEECCCCCCHHHHHHHHHHhcC----CCEEeeHH
Confidence            34688999999999999999988876521    24566654

>3tqc_A Pantothenate kinase; biosynthesis of cofactors, prosthetic groups, carriers, TRAN; HET: ADP; 2.30A {Coxiella burnetii}

Probab=96.34  E-value=0.0031  Score=57.68  Aligned_cols=40  Identities=20%  Similarity=0.151  Sum_probs=31.7

Q ss_pred             cEEEEEecCCCChhHHHHHHHHHHHh--cCCeEEEEecCCCC
Q 021239          121 RIVEIYGREASGKTTLALHVIKEAQK--LGGYCAYLDVENAL  160 (315)
Q Consensus       121 ~i~~i~G~~GsGKTtlal~la~~~~~--~g~~v~~i~~E~~~  160 (315)
                      -++.|.|++||||||++..++.....  .++.+.+++.+.-.
T Consensus        93 ~iigI~GpsGSGKSTl~~~L~~ll~~~~~~~~v~~i~~D~f~  134 (321)
T 3tqc_A           93 YIIGIAGSVAVGKSTTSRVLKALLSRWPDHPNVEVITTDGFL  134 (321)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHHTTSTTCCCEEEEEGGGGB
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHhcccCCCCeEEEEeecccc
Confidence            48999999999999999888766543  35678888877643

>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=96.34  E-value=0.0034  Score=55.99  Aligned_cols=36  Identities=19%  Similarity=0.229  Sum_probs=28.8

Q ss_pred             CcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCC
Q 021239          120 GRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVEN  158 (315)
Q Consensus       120 G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~  158 (315)
                      +..++|+||||+|||+++..++...   +.++++++...
T Consensus        50 ~~~vll~G~~GtGKT~la~~la~~l---~~~~~~i~~~~   85 (310)
T 1ofh_A           50 PKNILMIGPTGVGKTEIARRLAKLA---NAPFIKVEATK   85 (310)
T ss_dssp             CCCEEEECCTTSSHHHHHHHHHHHH---TCCEEEEEGGG
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHh---CCCEEEEcchh
Confidence            4568899999999999999988766   55677777543

>2r2a_A Uncharacterized protein; zonular occludens toxin, structural genomics, APC84050.2, PS protein structure initiative; HET: MSE; 1.82A {Neisseria meningitidis MC58}

Probab=96.33  E-value=0.0026  Score=54.10  Aligned_cols=124  Identities=17%  Similarity=0.189  Sum_probs=61.2

Q ss_pred             CcEEEEEecCCCChhHHHHHHHHHHH-----hcC-CeEEEEecCCCCChHHHHHcCCCCCCe-EEeCCC-CHHHHHHHHH
Q 021239          120 GRIVEIYGREASGKTTLALHVIKEAQ-----KLG-GYCAYLDVENALDPSLAEAMGIDAENL-LIAQPD-SAENLLSVVD  191 (315)
Q Consensus       120 G~i~~i~G~~GsGKTtlal~la~~~~-----~~g-~~v~~i~~E~~~~~~~~~~~g~~~~~l-~i~~~~-~~e~~~~~i~  191 (315)
                      ..+++++|+||+|||++|..++...+     +.| .++.|...++-..... ..... ..++ ...+.. ..+...+++.
T Consensus         5 ~mi~l~tG~pGsGKT~~a~~~~~~~~~~~~~~~g~r~v~~~~~~gL~~~~~-~~~~~-k~~~~~~~~~~~~~~~~~~~~~   82 (199)
T 2r2a_A            5 AEICLITGTPGSGKTLKMVSMMANDEMFKPDENGIRRKVFTNIKGLKIPHT-YIETD-AKKLPKSTDEQLSAHDMYEWIK   82 (199)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHCGGGSCCTTSCCCCEEECCTTBCSCCE-EEECC-TTTCSSCCSSCEEGGGHHHHTT
T ss_pred             eeEEEEEeCCCCCHHHHHHHHHHHHHhhcccccCceEEEEecCCCcccccc-ccchh-hhhccccCcccccHHHHHHHhh
Confidence            34899999999999999988776654     455 4443444332111000 00000 0000 000000 1122222211


Q ss_pred             HHHHcCCccEEeehhHhhhccccccCCCccCCChHHHHHHHHHHHHHHHHHHhccCcEEEEEecccccc
Q 021239          192 TLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVRFSA  260 (315)
Q Consensus       192 ~l~~~~~~~lVVIDsl~~l~~~~~~~~~~~~~~~~~q~r~i~~~l~~L~~~~~~~~i~VI~inq~~~~~  260 (315)
                        ...+...+||||..+.+++......+.        .    +.+..+. .-+..+..+|++.|....+
T Consensus        83 --~~~~~~~vliIDEAq~l~~~~~~~~e~--------~----rll~~l~-~~r~~~~~iil~tq~~~~l  136 (199)
T 2r2a_A           83 --KPENIGSIVIVDEAQDVWPARSAGSKI--------P----ENVQWLN-THRHQGIDIFVLTQGPKLL  136 (199)
T ss_dssp             --SGGGTTCEEEETTGGGTSBCCCTTCCC--------C----HHHHGGG-GTTTTTCEEEEEESCGGGB
T ss_pred             --ccccCceEEEEEChhhhccCccccchh--------H----HHHHHHH-hcCcCCeEEEEECCCHHHH
Confidence              123457899999999987421111110        1    1222232 1245688899999886554

>2c95_A Adenylate kinase 1; transferase, AP4A, nucleotide kinase, transferase ATP-bindi; HET: B4P; 1.71A {Homo sapiens} PDB: 1z83_A* 3adk_A

Probab=96.31  E-value=0.0026  Score=52.85  Aligned_cols=26  Identities=27%  Similarity=0.386  Sum_probs=23.2

Q ss_pred             CCcEEEEEecCCCChhHHHHHHHHHH
Q 021239          119 KGRIVEIYGREASGKTTLALHVIKEA  144 (315)
Q Consensus       119 ~G~i~~i~G~~GsGKTtlal~la~~~  144 (315)
                      ++.++.|.|+|||||||++..++...
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            57799999999999999999987665

>1ly1_A Polynucleotide kinase; PNK, phosphatase, transferase; 2.00A {Enterobacteria phage T4} SCOP: c.37.1.1

Probab=96.30  E-value=0.0022  Score=52.43  Aligned_cols=32  Identities=25%  Similarity=0.255  Sum_probs=24.9

Q ss_pred             cEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEec
Q 021239          121 RIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDV  156 (315)
Q Consensus       121 ~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~  156 (315)
                      .++.|.|+|||||||++..++..    .....+++.
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    123566765

>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=96.30  E-value=0.0026  Score=54.07  Aligned_cols=27  Identities=7%  Similarity=0.282  Sum_probs=23.8

Q ss_pred             CCCcEEEEEecCCCChhHHHHHHHHHH
Q 021239          118 PKGRIVEIYGREASGKTTLALHVIKEA  144 (315)
Q Consensus       118 ~~G~i~~i~G~~GsGKTtlal~la~~~  144 (315)
                      .+|.++.|.||+|+|||||+..++...
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            368999999999999999999887654

>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=96.26  E-value=0.0028  Score=55.15  Aligned_cols=26  Identities=27%  Similarity=0.248  Sum_probs=22.9

Q ss_pred             CCcEEEEEecCCCChhHHHHHHHHHH
Q 021239          119 KGRIVEIYGREASGKTTLALHVIKEA  144 (315)
Q Consensus       119 ~G~i~~i~G~~GsGKTtlal~la~~~  144 (315)
                      ++.++.|.|+|||||||++..++...
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            46899999999999999999988554

>3umf_A Adenylate kinase; rossmann fold, transferase; 2.05A {Schistosoma mansoni}

Probab=96.25  E-value=0.0031  Score=54.41  Aligned_cols=37  Identities=22%  Similarity=0.299  Sum_probs=29.8

Q ss_pred             CCCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEec
Q 021239          115 GGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDV  156 (315)
Q Consensus       115 GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~  156 (315)
                      .-+.+..++.|.|||||||+|.|..++...     ...++++
T Consensus        24 ~~~~k~kiI~llGpPGsGKgTqa~~L~~~~-----g~~hIst   60 (217)
T 3umf_A           24 QKLAKAKVIFVLGGPGSGKGTQCEKLVQKF-----HFNHLSS   60 (217)
T ss_dssp             CCTTSCEEEEEECCTTCCHHHHHHHHHHHH-----CCEEECH
T ss_pred             hhccCCcEEEEECCCCCCHHHHHHHHHHHH-----CCceEcH
Confidence            355678899999999999999999988776     3456665

>3trf_A Shikimate kinase, SK; amino acid biosynthesis, transferase; 2.60A {Coxiella burnetii}

Probab=96.25  E-value=0.003  Score=52.17  Aligned_cols=26  Identities=19%  Similarity=0.221  Sum_probs=22.4

Q ss_pred             CCcEEEEEecCCCChhHHHHHHHHHH
Q 021239          119 KGRIVEIYGREASGKTTLALHVIKEA  144 (315)
Q Consensus       119 ~G~i~~i~G~~GsGKTtlal~la~~~  144 (315)
                      .+..+.|.|++||||||++..++...
T Consensus         4 ~~~~i~l~G~~GsGKst~a~~La~~l   29 (185)
T 3trf_A            4 NLTNIYLIGLMGAGKTSVGSQLAKLT   29 (185)
T ss_dssp             -CCEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHh
Confidence            35689999999999999999988765

>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=96.25  E-value=0.0029  Score=52.08  Aligned_cols=27  Identities=22%  Similarity=0.187  Sum_probs=23.5

Q ss_pred             CCCcEEEEEecCCCChhHHHHHHHHHH
Q 021239          118 PKGRIVEIYGREASGKTTLALHVIKEA  144 (315)
Q Consensus       118 ~~G~i~~i~G~~GsGKTtlal~la~~~  144 (315)
                      ..+.++.|.|+||+||||++..++...
T Consensus         9 ~~~~~i~i~G~~GsGKst~~~~l~~~~   35 (180)
T 3iij_A            9 MLLPNILLTGTPGVGKTTLGKELASKS   35 (180)
T ss_dssp             CCCCCEEEECSTTSSHHHHHHHHHHHH
T ss_pred             ccCCeEEEEeCCCCCHHHHHHHHHHHh
Confidence            456789999999999999999888665

>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=96.24  E-value=0.0021  Score=55.55  Aligned_cols=36  Identities=31%  Similarity=0.134  Sum_probs=29.0

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEe
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLD  155 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~  155 (315)
                      ..++|.++.|.|++|+||||++..++..    ++.+.+..
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            4578999999999999999999877654    55666554

>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=96.24  E-value=0.0054  Score=57.26  Aligned_cols=42  Identities=17%  Similarity=0.165  Sum_probs=35.7

Q ss_pred             CCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCC
Q 021239          118 PKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENA  159 (315)
Q Consensus       118 ~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~  159 (315)
                      ..+..+.|.|++|+|||+++..++......|.+++++|.+..
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

>1tev_A UMP-CMP kinase; ploop, NMP binding region, LID region, conformational changes, transferase; 2.10A {Homo sapiens} SCOP: c.37.1.1

Probab=96.22  E-value=0.003  Score=52.28  Aligned_cols=25  Identities=20%  Similarity=0.328  Sum_probs=22.0

Q ss_pred             CcEEEEEecCCCChhHHHHHHHHHH
Q 021239          120 GRIVEIYGREASGKTTLALHVIKEA  144 (315)
Q Consensus       120 G~i~~i~G~~GsGKTtlal~la~~~  144 (315)
                      +.++.|.|+|||||||++..++...
T Consensus         3 ~~~I~l~G~~GsGKsT~a~~L~~~~   27 (196)
T 1tev_A            3 PLVVFVLGGPGAGKGTQCARIVEKY   27 (196)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHHh
Confidence            5689999999999999999887654

>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=96.20  E-value=0.0049  Score=52.93  Aligned_cols=39  Identities=26%  Similarity=0.342  Sum_probs=33.1

Q ss_pred             cEEEE-EecCCCChhHHHHHHHHHHHhcCCeEEEEecCCC
Q 021239          121 RIVEI-YGREASGKTTLALHVIKEAQKLGGYCAYLDVENA  159 (315)
Q Consensus       121 ~i~~i-~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~  159 (315)
                      .++.| .+..|+||||++.++|..+++.|.+|+++|++..
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            34445 4568999999999999999999999999999864

>2oze_A ORF delta'; para, walker type atpases, DNA segregation, PSM19035, plasmid, DNA binding protein; HET: AGS EPE; 1.83A {Streptococcus pyogenes}

Probab=96.20  E-value=0.005  Score=55.03  Aligned_cols=43  Identities=19%  Similarity=0.186  Sum_probs=36.8

Q ss_pred             CCcEEEEEe---cCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCC
Q 021239          119 KGRIVEIYG---REASGKTTLALHVIKEAQKLGGYCAYLDVENALD  161 (315)
Q Consensus       119 ~G~i~~i~G---~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~  161 (315)
                      .+.++.|++   ..|+||||++.++|..++..|.+|+++|++....
T Consensus        33 ~~~~i~v~~~s~KGGvGKTT~a~nLA~~la~~G~rVlliD~D~q~~   78 (298)
T 2oze_A           33 KNEAIVILNNYFKGGVGKSKLSTMFAYLTDKLNLKVLMIDKDLQAT   78 (298)
T ss_dssp             HCSCEEEEECCSSSSSSHHHHHHHHHHHHHHTTCCEEEEEECTTCH
T ss_pred             CCcEEEEEeccCCCCchHHHHHHHHHHHHHhCCCeEEEEeCCCCCC
Confidence            355677776   8999999999999999999999999999987643

>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=96.20  E-value=0.0039  Score=50.38  Aligned_cols=20  Identities=30%  Similarity=0.479  Sum_probs=18.3

Q ss_pred             cEEEEEecCCCChhHHHHHH
Q 021239          121 RIVEIYGREASGKTTLALHV  140 (315)
Q Consensus       121 ~i~~i~G~~GsGKTtlal~l  140 (315)
                      .++.|.|+|||||||++..+
T Consensus         2 ~~I~l~G~~GsGKsT~a~~L   21 (179)
T 3lw7_A            2 KVILITGMPGSGKSEFAKLL   21 (179)
T ss_dssp             CEEEEECCTTSCHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHH
Confidence            37899999999999999888

>2gza_A Type IV secretion system protein VIRB11; ATPase, hydrolase; 2.60A {Brucella suis}

Probab=96.19  E-value=0.0016  Score=60.54  Aligned_cols=38  Identities=24%  Similarity=0.298  Sum_probs=29.1

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEe
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLD  155 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~  155 (315)
                      +++|.++.|.||+|+|||||+..++.......+ .+.++
T Consensus       172 i~~G~~i~ivG~sGsGKSTll~~l~~~~~~~~g-~I~ie  209 (361)
T 2gza_A          172 VQLERVIVVAGETGSGKTTLMKALMQEIPFDQR-LITIE  209 (361)
T ss_dssp             HHTTCCEEEEESSSSCHHHHHHHHHTTSCTTSC-EEEEE
T ss_pred             HhcCCEEEEECCCCCCHHHHHHHHHhcCCCCce-EEEEC
Confidence            458999999999999999999888766544444 44444

>3t61_A Gluconokinase; PSI-biology, structural genomics, protein structure initiati YORK structural genomics research consortium, nysgrc; 2.20A {Sinorhizobium meliloti}

Probab=96.17  E-value=0.0031  Score=52.98  Aligned_cols=37  Identities=14%  Similarity=0.317  Sum_probs=28.7

Q ss_pred             CcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCC
Q 021239          120 GRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALD  161 (315)
Q Consensus       120 G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~  161 (315)
                      ..++.|.|++|+||||++..++...   |  ..+++.+.-..
T Consensus        18 ~~~I~l~G~~GsGKSTla~~L~~~l---g--~~~i~~d~~~~   54 (202)
T 3t61_A           18 PGSIVVMGVSGSGKSSVGEAIAEAC---G--YPFIEGDALHP   54 (202)
T ss_dssp             SSCEEEECSTTSCHHHHHHHHHHHH---T--CCEEEGGGGCC
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHh---C--CEEEeCCcCcc
Confidence            5689999999999999999888765   2  44677665443

>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=96.16  E-value=0.0061  Score=53.58  Aligned_cols=42  Identities=17%  Similarity=0.203  Sum_probs=35.2

Q ss_pred             CcEEEE-EecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCC
Q 021239          120 GRIVEI-YGREASGKTTLALHVIKEAQKLGGYCAYLDVENALD  161 (315)
Q Consensus       120 G~i~~i-~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~  161 (315)
                      +.++.| .+..|+||||++.++|..+++.|.+|+++|++....
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 566899999999999999999999999999987654

>2i3b_A HCR-ntpase, human cancer-related ntpase; AAA, rossmann, hydrolase; NMR {Homo sapiens} SCOP: c.37.1.11

Probab=96.15  E-value=0.0034  Score=52.83  Aligned_cols=26  Identities=31%  Similarity=0.293  Sum_probs=23.7

Q ss_pred             CcEEEEEecCCCChhHHHHHHHHHHH
Q 021239          120 GRIVEIYGREASGKTTLALHVIKEAQ  145 (315)
Q Consensus       120 G~i~~i~G~~GsGKTtlal~la~~~~  145 (315)
                      |+.+.|.|++|+||||++..++....
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

>3pxg_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 3.65A {Bacillus subtilis}

Probab=96.15  E-value=0.0052  Score=59.02  Aligned_cols=28  Identities=18%  Similarity=0.205  Sum_probs=23.8

Q ss_pred             CCcEEEEEecCCCChhHHHHHHHHHHHh
Q 021239          119 KGRIVEIYGREASGKTTLALHVIKEAQK  146 (315)
Q Consensus       119 ~G~i~~i~G~~GsGKTtlal~la~~~~~  146 (315)
                      ...-++|+||||+|||+++..++.....
T Consensus       200 ~~~~~LL~G~pG~GKT~la~~la~~l~~  227 (468)
T 3pxg_A          200 TKNNPVLIGEPGVGKTAIAEGLAQQIIN  227 (468)
T ss_dssp             SSCEEEEESCTTTTTHHHHHHHHHHHHS
T ss_pred             CCCCeEEECCCCCCHHHHHHHHHHHHHh
Confidence            4456799999999999999999888754

>3cr8_A Sulfate adenylyltranferase, adenylylsulfate kinase; APS kinase, transferase, sulfate metabolism, nucleotide 2 kinase; 2.95A {Thiobacillus denitrificans}

Probab=96.15  E-value=0.0027  Score=62.36  Aligned_cols=41  Identities=29%  Similarity=0.382  Sum_probs=33.5

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHhcCC-eEEEEecC
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGG-YCAYLDVE  157 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~-~v~~i~~E  157 (315)
                      +++|.++.|.|++||||||++..++......++ .+.|++.+
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            457999999999999999999999888765554 57677753

>2ze6_A Isopentenyl transferase; crown GALL tumor, cytokinin biosynthesis; HET: DST AMP; 2.10A {Agrobacterium tumefaciens} PDB: 2ze5_A* 2ze7_A* 2ze8_A

Probab=96.08  E-value=0.0035  Score=55.10  Aligned_cols=24  Identities=38%  Similarity=0.631  Sum_probs=21.3

Q ss_pred             cEEEEEecCCCChhHHHHHHHHHH
Q 021239          121 RIVEIYGREASGKTTLALHVIKEA  144 (315)
Q Consensus       121 ~i~~i~G~~GsGKTtlal~la~~~  144 (315)
                      .+++|+|+|||||||++..++...
T Consensus         2 ~li~I~G~~GSGKSTla~~La~~~   25 (253)
T 2ze6_A            2 LLHLIYGPTCSGKTDMAIQIAQET   25 (253)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             eEEEEECCCCcCHHHHHHHHHhcC
Confidence            378999999999999999998765

>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=96.08  E-value=0.0022  Score=54.22  Aligned_cols=34  Identities=26%  Similarity=0.340  Sum_probs=28.0

Q ss_pred             EEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEe
Q 021239          122 IVEIYGREASGKTTLALHVIKEAQKLGGYCAYLD  155 (315)
Q Consensus       122 i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~  155 (315)
                      ++.|.|++||||||++..++......|..+.++.
T Consensus         2 ~I~i~G~~GsGKsTl~~~L~~~l~~~g~~v~~~~   35 (214)
T 1gtv_A            2 LIAIEGVDGAGKRTLVEKLSGAFRAAGRSVATLA   35 (214)
T ss_dssp             EEEEEEEEEEEHHHHHHHHHHHHHEEEEEEEEEE
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHhcCCeEEEEe
Confidence            6899999999999999999888766666666554

>3cwq_A Para family chromosome partitioning protein; alpha-beta protein, structural genomics, PSI-2, protein STRU initiative; HET: ADP; 2.47A {Synechocystis SP}

Probab=96.08  E-value=0.0066  Score=51.63  Aligned_cols=75  Identities=17%  Similarity=0.132  Sum_probs=48.1

Q ss_pred             EEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCCh-HHHHHcCCCCCCeEEeCCCCHHHHHHHHHHHHHcCCcc
Q 021239          122 IVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP-SLAEAMGIDAENLLIAQPDSAENLLSVVDTLTKSGSID  200 (315)
Q Consensus       122 i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~-~~~~~~g~~~~~l~i~~~~~~e~~~~~i~~l~~~~~~~  200 (315)
                      +.+..+..|+||||++.++|..+++.| +|+++|++..... .+...-.++.   .+....       .+..+  ....+
T Consensus         3 I~v~s~KGGvGKTT~a~~LA~~la~~g-~VlliD~D~q~~~~~~~~~~~l~~---~vi~~~-------~l~~l--~~~yD   69 (209)
T 3cwq_A            3 ITVASFKGGVGKTTTAVHLSAYLALQG-ETLLIDGDPNRSATGWGKRGSLPF---KVVDER-------QAAKY--APKYQ   69 (209)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHHHHTTS-CEEEEEECTTCHHHHHHHHSCCSS---EEEEGG-------GHHHH--GGGCS
T ss_pred             EEEEcCCCCCcHHHHHHHHHHHHHhcC-CEEEEECCCCCCHHHHhcCCCCCc---ceeCHH-------HHHHh--hhcCC
Confidence            344467789999999999999999999 9999999876433 1222100111   111111       23333  23679


Q ss_pred             EEeehhHhh
Q 021239          201 VIVVDSVAA  209 (315)
Q Consensus       201 lVVIDsl~~  209 (315)
                      +||||.-..
T Consensus        70 ~viiD~p~~   78 (209)
T 3cwq_A           70 NIVIDTQAR   78 (209)
T ss_dssp             EEEEEEECC
T ss_pred             EEEEeCCCC
Confidence            999997665

>2vli_A Antibiotic resistance protein; transferase, tunicamycin, phosphotransferase; 1.95A {Deinococcus radiodurans}

Probab=96.07  E-value=0.0031  Score=51.83  Aligned_cols=26  Identities=27%  Similarity=0.256  Sum_probs=18.0

Q ss_pred             CCcEEEEEecCCCChhHHHHHHHHHH
Q 021239          119 KGRIVEIYGREASGKTTLALHVIKEA  144 (315)
Q Consensus       119 ~G~i~~i~G~~GsGKTtlal~la~~~  144 (315)
                      ++.++.|.|+|||||||++..++...
T Consensus         4 ~~~~I~l~G~~GsGKST~a~~La~~l   29 (183)
T 2vli_A            4 RSPIIWINGPFGVGKTHTAHTLHERL   29 (183)
T ss_dssp             -CCEEEEECCC----CHHHHHHHHHS
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHhc
Confidence            56799999999999999998886543

>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=96.06  E-value=0.002  Score=56.69  Aligned_cols=72  Identities=24%  Similarity=0.259  Sum_probs=41.4

Q ss_pred             EEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCChHHHHHcCCCCCCeEEeCCCCHHHHHHHHHHHHHcCCccE
Q 021239          122 IVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTKSGSIDV  201 (315)
Q Consensus       122 i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~~~~~~~g~~~~~l~i~~~~~~e~~~~~i~~l~~~~~~~l  201 (315)
                      -++|+||||+|||+++..++...   +.++++++...-...    ..|...        .....++...    ....+.+
T Consensus        46 ~vll~G~~GtGKT~la~~la~~~---~~~~~~v~~~~~~~~----~~~~~~--------~~~~~~~~~a----~~~~~~v  106 (268)
T 2r62_A           46 GVLLVGPPGTGKTLLAKAVAGEA---HVPFFSMGGSSFIEM----FVGLGA--------SRVRDLFETA----KKQAPSI  106 (268)
T ss_dssp             CCCCBCSSCSSHHHHHHHHHHHH---TCCCCCCCSCTTTTS----CSSSCS--------SSSSTTHHHH----HHSCSCE
T ss_pred             eEEEECCCCCcHHHHHHHHHHHh---CCCEEEechHHHHHh----hcchHH--------HHHHHHHHHH----HhcCCeE
Confidence            38899999999999999998765   334444433221110    001100        0111222222    2346899


Q ss_pred             EeehhHhhhcc
Q 021239          202 IVVDSVAALIP  212 (315)
Q Consensus       202 VVIDsl~~l~~  212 (315)
                      ++||.+..+..
T Consensus       107 l~iDEid~l~~  117 (268)
T 2r62_A          107 IFIDEIDAIGK  117 (268)
T ss_dssp             EEESCGGGTTC
T ss_pred             EEEeChhhhcc
Confidence            99999998864

>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=96.06  E-value=0.0042  Score=52.96  Aligned_cols=33  Identities=21%  Similarity=0.189  Sum_probs=26.5

Q ss_pred             CCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEec
Q 021239          119 KGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDV  156 (315)
Q Consensus       119 ~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~  156 (315)
                      +|.++.|.|+|||||||++..++...   +  ..++++
T Consensus         3 ~~~~I~l~G~~GsGKsT~a~~La~~l---~--~~~i~~   35 (220)
T 1aky_A            3 ESIRMVLIGPPGAGKGTQAPNLQERF---H--AAHLAT   35 (220)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHHHH---C--CEEEEH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHc---C--ceEEeh
Confidence            56789999999999999999988765   2  345665

>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=96.06  E-value=0.025  Score=49.47  Aligned_cols=36  Identities=25%  Similarity=0.241  Sum_probs=31.8

Q ss_pred             CcEEEEEec-CCCChhHHHHHHHHHHHhcCCeEEEEe
Q 021239          120 GRIVEIYGR-EASGKTTLALHVIKEAQKLGGYCAYLD  155 (315)
Q Consensus       120 G~i~~i~G~-~GsGKTtlal~la~~~~~~g~~v~~i~  155 (315)
                      ...+.|+|. +|+|||+++..++..+.++|.+|.||-
T Consensus        21 ~k~i~ItgT~t~vGKT~vs~gL~~~L~~~G~~V~~fK   57 (242)
T 3qxc_A           21 GHMLFISATNTNAGKTTCARLLAQYCNACGVKTILLK   57 (242)
T ss_dssp             CEEEEEEESSTTSSHHHHHHHHHHHHHHTTCCEEEEC
T ss_pred             CcEEEEEeCCCCCcHHHHHHHHHHHHHhCCCceEEEe
Confidence            456777776 999999999999999999999999986

>1zd8_A GTP:AMP phosphotransferase mitochondrial; ATP:AMP phosphotransferase, myokinase, structural genomics, structural genomics consortium, SGC; 1.48A {Homo sapiens} PDB: 2ak3_A*

Probab=96.06  E-value=0.0039  Score=53.52  Aligned_cols=29  Identities=21%  Similarity=0.185  Sum_probs=22.3

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHH
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEA  144 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~  144 (315)
                      +..++.++.|.|+|||||||++..++...
T Consensus         3 ~~~~~~~I~l~G~~GsGKsT~a~~La~~l   31 (227)
T 1zd8_A            3 ASARLLRAVIMGAPGSGKGTVSSRITTHF   31 (227)
T ss_dssp             ----CCEEEEEECTTSSHHHHHHHHHHHS
T ss_pred             ccccCcEEEEECCCCCCHHHHHHHHHHHc
Confidence            34567899999999999999999887654

>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=96.06  E-value=0.0042  Score=52.00  Aligned_cols=36  Identities=25%  Similarity=0.495  Sum_probs=27.3

Q ss_pred             CCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEe
Q 021239          118 PKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLD  155 (315)
Q Consensus       118 ~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~  155 (315)
                      .+|.++.|.|++||||||++..++...  .|-+++.++
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            357899999999999999998887654  233454444

>4e22_A Cytidylate kinase; P-loop, CMP/ATP binding, transferase; 2.32A {Yersinia pseudotuberculosis}

Probab=96.04  E-value=0.0037  Score=54.86  Aligned_cols=27  Identities=19%  Similarity=0.319  Sum_probs=23.7

Q ss_pred             CCCcEEEEEecCCCChhHHHHHHHHHH
Q 021239          118 PKGRIVEIYGREASGKTTLALHVIKEA  144 (315)
Q Consensus       118 ~~G~i~~i~G~~GsGKTtlal~la~~~  144 (315)
                      ++|.++.|.|++||||||++..++...
T Consensus        25 ~~g~~I~I~G~~GsGKSTl~k~La~~L   51 (252)
T 4e22_A           25 AIAPVITVDGPSGAGKGTLCKALAESL   51 (252)
T ss_dssp             TTSCEEEEECCTTSSHHHHHHHHHHHT
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHhc
Confidence            578999999999999999999887443

>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=96.04  E-value=0.0035  Score=56.47  Aligned_cols=43  Identities=12%  Similarity=0.142  Sum_probs=31.4

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHhcC--C-eEEEEecCCC
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLG--G-YCAYLDVENA  159 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~~g--~-~v~~i~~E~~  159 (315)
                      -.++.++.|+|++|+|||||+..++......+  . .+.+++.+.-
T Consensus        28 ~~~~~ii~I~G~sGsGKSTla~~L~~~l~~~g~~~~~~~iv~~D~f   73 (290)
T 1odf_A           28 NKCPLFIFFSGPQGSGKSFTSIQIYNHLMEKYGGEKSIGYASIDDF   73 (290)
T ss_dssp             CCSCEEEEEECCTTSSHHHHHHHHHHHHHHHHGGGSCEEEEEGGGG
T ss_pred             CCCCeEEEEECCCCCCHHHHHHHHHHHhhhcCCCCceEEEeccccc
Confidence            35678999999999999999998887775432  2 3334366543

>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=96.04  E-value=0.0036  Score=57.28  Aligned_cols=24  Identities=38%  Similarity=0.338  Sum_probs=21.9

Q ss_pred             cEEEEEecCCCChhHHHHHHHHHH
Q 021239          121 RIVEIYGREASGKTTLALHVIKEA  144 (315)
Q Consensus       121 ~i~~i~G~~GsGKTtlal~la~~~  144 (315)
                      ..++|+||||+||||++..++...
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            679999999999999999998776

>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=96.03  E-value=0.0042  Score=54.34  Aligned_cols=40  Identities=15%  Similarity=0.248  Sum_probs=30.8

Q ss_pred             cEEEEEecCCCChhHHHHHHHHHHHh-----cCCeEEEEecCCCC
Q 021239          121 RIVEIYGREASGKTTLALHVIKEAQK-----LGGYCAYLDVENAL  160 (315)
Q Consensus       121 ~i~~i~G~~GsGKTtlal~la~~~~~-----~g~~v~~i~~E~~~  160 (315)
                      -++.|.|++||||||++..++.....     .+..+++++++.-.
T Consensus        23 ~iI~I~G~~GSGKST~a~~L~~~lg~~~~d~~~~~~~~i~~D~~~   67 (252)
T 1uj2_A           23 FLIGVSGGTASGKSSVCAKIVQLLGQNEVDYRQKQVVILSQDSFY   67 (252)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHTTGGGSCGGGCSEEEEEGGGGB
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHhhhhcccccCCceEEEecCccc
Confidence            58999999999999999988775432     24567788877544

>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=96.02  E-value=0.0048  Score=51.81  Aligned_cols=27  Identities=22%  Similarity=0.246  Sum_probs=23.3

Q ss_pred             CCCcEEEEEecCCCChhHHHHHHHHHH
Q 021239          118 PKGRIVEIYGREASGKTTLALHVIKEA  144 (315)
Q Consensus       118 ~~G~i~~i~G~~GsGKTtlal~la~~~  144 (315)
                      ..+.++.|.|+|||||||++..++...
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            345689999999999999999888765

>2bwj_A Adenylate kinase 5; phosphoryl transfer reaction, transferase; HET: AMP; 2.3A {Homo sapiens}

Probab=96.01  E-value=0.0048  Score=51.35  Aligned_cols=26  Identities=31%  Similarity=0.401  Sum_probs=23.1

Q ss_pred             CCcEEEEEecCCCChhHHHHHHHHHH
Q 021239          119 KGRIVEIYGREASGKTTLALHVIKEA  144 (315)
Q Consensus       119 ~G~i~~i~G~~GsGKTtlal~la~~~  144 (315)
                      .+.++.|.|+|||||||++..++...
T Consensus        11 ~~~~I~l~G~~GsGKsT~a~~L~~~l   36 (199)
T 2bwj_A           11 KCKIIFIIGGPGSGKGTQCEKLVEKY   36 (199)
T ss_dssp             HSCEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHh
Confidence            46799999999999999999888765

>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=96.00  E-value=0.0068  Score=53.88  Aligned_cols=37  Identities=16%  Similarity=0.163  Sum_probs=29.6

Q ss_pred             HHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHH
Q 021239          107 KLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEA  144 (315)
Q Consensus       107 ~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~  144 (315)
                      .|...+. |..++-..++|+||||+|||.|+..+|...
T Consensus        92 ~l~~~l~-~~~~~~n~~~l~GppgtGKt~~a~ala~~~  128 (267)
T 1u0j_A           92 VFLGWAT-KKFGKRNTIWLFGPATTGKTNIAEAIAHTV  128 (267)
T ss_dssp             HHHHHHT-TCSTTCCEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             HHHHHHh-CCCCCCcEEEEECCCCCCHHHHHHHHHhhh
Confidence            3666676 544767789999999999999999887754

>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=95.99  E-value=0.0047  Score=50.83  Aligned_cols=27  Identities=26%  Similarity=0.439  Sum_probs=22.5

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHH
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEA  144 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~  144 (315)
                      +.+| +++|+|++|+||||++..+....
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 99999999999999998876643

>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=95.99  E-value=0.0051  Score=52.46  Aligned_cols=25  Identities=24%  Similarity=0.375  Sum_probs=22.0

Q ss_pred             CcEEEEEecCCCChhHHHHHHHHHH
Q 021239          120 GRIVEIYGREASGKTTLALHVIKEA  144 (315)
Q Consensus       120 G~i~~i~G~~GsGKTtlal~la~~~  144 (315)
                      +.++.|.|++||||||++..++...
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            4689999999999999999887655

>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=95.96  E-value=0.008  Score=51.52  Aligned_cols=38  Identities=21%  Similarity=0.185  Sum_probs=31.9

Q ss_pred             CCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEe
Q 021239          118 PKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLD  155 (315)
Q Consensus       118 ~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~  155 (315)
                      -+|.++.|.|++|+||||++..++......|.+|+...
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            36889999999999999999999888877777775544

>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=95.91  E-value=0.0048  Score=59.01  Aligned_cols=37  Identities=24%  Similarity=0.242  Sum_probs=31.3

Q ss_pred             EEEEEecCCCChhHHHHHHHHHHHhcCC-eEEEEecCC
Q 021239          122 IVEIYGREASGKTTLALHVIKEAQKLGG-YCAYLDVEN  158 (315)
Q Consensus       122 i~~i~G~~GsGKTtlal~la~~~~~~g~-~v~~i~~E~  158 (315)
                      .++|.|+||+|||+++..++..+...+. .++.+.+-.
T Consensus        47 ~~li~G~aGTGKT~ll~~~~~~l~~~~~~~il~~a~T~   84 (459)
T 3upu_A           47 HVTINGPAGTGATTLTKFIIEALISTGETGIILAAPTH   84 (459)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHHHTTCCCEEEEESSH
T ss_pred             EEEEEeCCCCCHHHHHHHHHHHHHhcCCceEEEecCcH
Confidence            9999999999999999999998887776 676666543

>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=95.87  E-value=0.0055  Score=56.79  Aligned_cols=37  Identities=24%  Similarity=0.162  Sum_probs=29.2

Q ss_pred             CCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecC
Q 021239          118 PKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVE  157 (315)
Q Consensus       118 ~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E  157 (315)
                      .+...++|+||||+|||++|..++...   +.++++++..
T Consensus        70 ~~~~~ill~Gp~GtGKT~la~~la~~l---~~~~~~~~~~  106 (376)
T 1um8_A           70 LSKSNILLIGPTGSGKTLMAQTLAKHL---DIPIAISDAT  106 (376)
T ss_dssp             CCCCCEEEECCTTSSHHHHHHHHHHHT---TCCEEEEEGG
T ss_pred             cCCCCEEEECCCCCCHHHHHHHHHHHh---CCCEEEecch
Confidence            345678999999999999999888765   5567777643

>3be4_A Adenylate kinase; malaria, cryptosporidium parvum nonprotein inhibitors, nucleotide-binding, transferase; HET: AP5; 1.60A {Cryptosporidium parvum iowa II}

Probab=95.84  E-value=0.0057  Score=52.16  Aligned_cols=27  Identities=30%  Similarity=0.279  Sum_probs=23.5

Q ss_pred             CCCcEEEEEecCCCChhHHHHHHHHHH
Q 021239          118 PKGRIVEIYGREASGKTTLALHVIKEA  144 (315)
Q Consensus       118 ~~G~i~~i~G~~GsGKTtlal~la~~~  144 (315)
                      .+|..+.|.|+|||||||++..++...
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            356789999999999999999988766

>1ojl_A Transcriptional regulatory protein ZRAR; response regulator, two component system, AAA domain, NTRC family, DNA-binding; HET: ATP; 3.0A {Salmonella typhimurium}

Probab=95.83  E-value=0.0039  Score=56.43  Aligned_cols=42  Identities=17%  Similarity=0.094  Sum_probs=33.8

Q ss_pred             CCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCC
Q 021239          119 KGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENAL  160 (315)
Q Consensus       119 ~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~  160 (315)
                      .+..++|+|+||+|||++|..++......+.+.+++++....
T Consensus        24 ~~~~vLi~Ge~GtGKt~lAr~i~~~~~~~~~~~v~v~~~~~~   65 (304)
T 1ojl_A           24 SDATVLIHGDSGTGKELVARALHACSARSDRPLVTLNCAALN   65 (304)
T ss_dssp             TTSCEEEESCTTSCHHHHHHHHHHHSSCSSSCCCEEECSSCC
T ss_pred             CCCcEEEECCCCchHHHHHHHHHHhCcccCCCeEEEeCCCCC
Confidence            455789999999999999999887665667788888876543

>1zak_A Adenylate kinase; ATP:AMP-phosphotransferase, transferase; HET: AP5; 3.50A {Zea mays} SCOP: c.37.1.1 g.41.2.1

Probab=95.82  E-value=0.0059  Score=52.12  Aligned_cols=26  Identities=31%  Similarity=0.178  Sum_probs=22.9

Q ss_pred             CCcEEEEEecCCCChhHHHHHHHHHH
Q 021239          119 KGRIVEIYGREASGKTTLALHVIKEA  144 (315)
Q Consensus       119 ~G~i~~i~G~~GsGKTtlal~la~~~  144 (315)
                      .+.++.|.|+|||||||++..++...
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            45689999999999999999988765

>1via_A Shikimate kinase; structural genomics, transferase; HET: MSE; 1.57A {Campylobacter jejuni} SCOP: c.37.1.2

Probab=95.81  E-value=0.005  Score=50.45  Aligned_cols=31  Identities=32%  Similarity=0.430  Sum_probs=24.7

Q ss_pred             EEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecC
Q 021239          122 IVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVE  157 (315)
Q Consensus       122 i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E  157 (315)
                      .+.|.|+|||||||++..++...   +  +.|++.+
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            58899999999999999988765   2  4466643

>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=95.81  E-value=0.0051  Score=50.72  Aligned_cols=24  Identities=25%  Similarity=0.307  Sum_probs=21.1

Q ss_pred             cEEEEEecCCCChhHHHHHHHHHH
Q 021239          121 RIVEIYGREASGKTTLALHVIKEA  144 (315)
Q Consensus       121 ~i~~i~G~~GsGKTtlal~la~~~  144 (315)
                      .++.|.|+|||||||++..++...
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            468999999999999999887765

>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=95.78  E-value=0.006  Score=52.07  Aligned_cols=31  Identities=26%  Similarity=0.273  Sum_probs=25.5

Q ss_pred             EEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecC
Q 021239          122 IVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVE  157 (315)
Q Consensus       122 i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E  157 (315)
                      +++|.|||||||+|.|..++...     .+.++++.
T Consensus         2 ~Iil~GpPGsGKgTqa~~La~~~-----g~~~istG   32 (206)
T 3sr0_A            2 ILVFLGPPGAGKGTQAKRLAKEK-----GFVHISTG   32 (206)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH-----CCEEEEHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH-----CCeEEcHH
Confidence            57899999999999999998776     35577753

>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=95.77  E-value=0.0062  Score=53.48  Aligned_cols=41  Identities=20%  Similarity=0.234  Sum_probs=34.6

Q ss_pred             CCcEEEE-EecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCC
Q 021239          119 KGRIVEI-YGREASGKTTLALHVIKEAQKLGGYCAYLDVENAL  160 (315)
Q Consensus       119 ~G~i~~i-~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~  160 (315)
                      .+.++.| .+..|+||||++.++|..++ +|.+|+++|++...
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            4556666 55689999999999999999 89999999998764

>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=95.76  E-value=0.0073  Score=59.57  Aligned_cols=37  Identities=27%  Similarity=0.278  Sum_probs=33.2

Q ss_pred             CcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEec
Q 021239          120 GRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDV  156 (315)
Q Consensus       120 G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~  156 (315)
                      +.+++|.|+||+||||++..++..+...+.++++...
T Consensus       204 ~~~~~I~G~pGTGKTt~i~~l~~~l~~~g~~Vl~~Ap  240 (574)
T 3e1s_A          204 HRLVVLTGGPGTGKSTTTKAVADLAESLGLEVGLCAP  240 (574)
T ss_dssp             CSEEEEECCTTSCHHHHHHHHHHHHHHTTCCEEEEES
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHHHHhcCCeEEEecC
Confidence            5799999999999999999999888888889988764

>3v9p_A DTMP kinase, thymidylate kinase; ssgcid, STRU genomics, seattle structural genomics center for infectious transferase; 1.90A {Burkholderia thailandensis}

Probab=95.74  E-value=0.0094  Score=51.69  Aligned_cols=41  Identities=22%  Similarity=0.354  Sum_probs=29.5

Q ss_pred             CCCCCCcEEEEEecCCCChhHHHHHHHHHHHhc----CCeEEEEe
Q 021239          115 GGLPKGRIVEIYGREASGKTTLALHVIKEAQKL----GGYCAYLD  155 (315)
Q Consensus       115 GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~~----g~~v~~i~  155 (315)
                      |-+.+|.++.|.|++|+||||++..++......    |..|.+..
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            445689999999999999999999998887766    77776544

>3hws_A ATP-dependent CLP protease ATP-binding subunit CL; CLPXP, AAA+ molecular machine, hexamer, asymmetric,, ATP-BIN chaperone, metal-binding; HET: ADP; 3.25A {Escherichia coli} PDB: 3hte_A

Probab=95.74  E-value=0.0069  Score=55.88  Aligned_cols=35  Identities=23%  Similarity=0.158  Sum_probs=27.5

Q ss_pred             CCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEec
Q 021239          119 KGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDV  156 (315)
Q Consensus       119 ~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~  156 (315)
                      ++..++|+||||+|||++|..++...   +.+.+.++.
T Consensus        50 ~~~~vll~GppGtGKT~la~~ia~~~---~~~~~~~~~   84 (363)
T 3hws_A           50 GKSNILLIGPTGSGKTLLAETLARLL---DVPFTMADA   84 (363)
T ss_dssp             CCCCEEEECCTTSSHHHHHHHHHHHT---TCCEEEEEH
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHHc---CCCEEEech
Confidence            45678999999999999999988765   455555553

>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=95.72  E-value=0.0071  Score=49.84  Aligned_cols=25  Identities=24%  Similarity=0.422  Sum_probs=21.9

Q ss_pred             CcEEEEEecCCCChhHHHHHHHHHH
Q 021239          120 GRIVEIYGREASGKTTLALHVIKEA  144 (315)
Q Consensus       120 G~i~~i~G~~GsGKTtlal~la~~~  144 (315)
                      +.++.|.|+|||||||++..++...
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            4589999999999999999887654

>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=95.71  E-value=0.0072  Score=52.66  Aligned_cols=27  Identities=26%  Similarity=0.238  Sum_probs=23.7

Q ss_pred             CCCcEEEEEecCCCChhHHHHHHHHHH
Q 021239          118 PKGRIVEIYGREASGKTTLALHVIKEA  144 (315)
Q Consensus       118 ~~G~i~~i~G~~GsGKTtlal~la~~~  144 (315)
                      .++..+.|.|+|||||||++..++...
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            466789999999999999999988665

>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=95.70  E-value=0.01  Score=56.13  Aligned_cols=37  Identities=19%  Similarity=0.248  Sum_probs=28.0

Q ss_pred             CCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCC
Q 021239          118 PKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENA  159 (315)
Q Consensus       118 ~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~  159 (315)
                      +...+++|+|+|||||||++..++...     ...+++.+.-
T Consensus       256 ~~~~lIil~G~pGSGKSTla~~L~~~~-----~~~~i~~D~~  292 (416)
T 3zvl_A          256 PNPEVVVAVGFPGAGKSTFIQEHLVSA-----GYVHVNRDTL  292 (416)
T ss_dssp             SSCCEEEEESCTTSSHHHHHHHHTGGG-----TCEECCGGGS
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHhc-----CcEEEccchH
Confidence            356899999999999999998876533     3456666553

>2jaq_A Deoxyguanosine kinase; transferase, deoxyribonucleoside kinase; HET: DCP; 2.3A {Mycoplasma mycoides subsp} PDB: 2jat_A* 2jas_A*

Probab=95.66  E-value=0.0071  Score=50.40  Aligned_cols=23  Identities=26%  Similarity=0.546  Sum_probs=20.8

Q ss_pred             EEEEEecCCCChhHHHHHHHHHH
Q 021239          122 IVEIYGREASGKTTLALHVIKEA  144 (315)
Q Consensus       122 i~~i~G~~GsGKTtlal~la~~~  144 (315)
                      ++.|.|++||||||++..++...
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            68899999999999999988765

>2f1r_A Molybdopterin-guanine dinucleotide biosynthesis protein B (MOBB); structural genomics, PSI, protein structure initiative; 2.10A {Archaeoglobus fulgidus}

Probab=95.64  E-value=0.0075  Score=49.90  Aligned_cols=30  Identities=33%  Similarity=0.368  Sum_probs=25.6

Q ss_pred             cEEEEEecCCCChhHHHHHHHHHHHhcCCe
Q 021239          121 RIVEIYGREASGKTTLALHVIKEAQKLGGY  150 (315)
Q Consensus       121 ~i~~i~G~~GsGKTtlal~la~~~~~~g~~  150 (315)
                      .++.|.|++|+|||||+..++......|.+
T Consensus         3 ~~v~IvG~SGsGKSTL~~~L~~~~~~~g~~   32 (171)
T 2f1r_A            3 LILSIVGTSDSGKTTLITRMMPILRERGLR   32 (171)
T ss_dssp             CEEEEEESCHHHHHHHHHHHHHHHHHTTCC
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhhhcCCc
Confidence            478999999999999999999888776533

>3fb4_A Adenylate kinase; psychrophIle, phosphotransferase, ATP-binding, nucleotide-binding, transferase; HET: AP5; 2.00A {Marinibacillus marinus}

Probab=95.63  E-value=0.0073  Score=51.12  Aligned_cols=23  Identities=26%  Similarity=0.352  Sum_probs=20.2

Q ss_pred             EEEEEecCCCChhHHHHHHHHHH
Q 021239          122 IVEIYGREASGKTTLALHVIKEA  144 (315)
Q Consensus       122 i~~i~G~~GsGKTtlal~la~~~  144 (315)
                      .+.|.|+|||||||++..++...
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            47899999999999999887665

>1ukz_A Uridylate kinase; transferase; HET: ADP AMP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1uky_A*

Probab=95.63  E-value=0.0078  Score=50.41  Aligned_cols=26  Identities=19%  Similarity=0.342  Sum_probs=22.0

Q ss_pred             CCcEEEEEecCCCChhHHHHHHHHHH
Q 021239          119 KGRIVEIYGREASGKTTLALHVIKEA  144 (315)
Q Consensus       119 ~G~i~~i~G~~GsGKTtlal~la~~~  144 (315)
                      ...++.|.|++||||||++..++...
T Consensus        14 ~~~~I~l~G~~GsGKsT~~~~L~~~~   39 (203)
T 1ukz_A           14 QVSVIFVLGGPGAGKGTQCEKLVKDY   39 (203)
T ss_dssp             TCEEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHc
Confidence            34689999999999999998887653

>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=95.61  E-value=0.015  Score=50.60  Aligned_cols=40  Identities=23%  Similarity=0.217  Sum_probs=30.9

Q ss_pred             CCCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCe-EEEE
Q 021239          115 GGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGY-CAYL  154 (315)
Q Consensus       115 GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~-v~~i  154 (315)
                      +.--+|.++.|.|++|+||||++..++......|.+ +.+.
T Consensus        22 ~~~~~~~~i~~eG~~GsGKsT~~~~l~~~l~~~~~~~~~~~   62 (236)
T 3lv8_A           22 SNAMNAKFIVIEGLEGAGKSTAIQVVVETLQQNGIDHITRT   62 (236)
T ss_dssp             ----CCCEEEEEESTTSCHHHHHHHHHHHHHHTTCCCEEEE
T ss_pred             cCCCCCeEEEEECCCCCCHHHHHHHHHHHHHhcCCCeeeee
Confidence            344468899999999999999999999888777777 4444

>1bif_A 6-phosphofructo-2-kinase/ fructose-2,6-bisphospha; transferase (phospho), phosphatase, hydrolase (phosp glycolysis, bifunctional enzyme; HET: AGS; 2.00A {Rattus norvegicus} SCOP: c.37.1.7 c.60.1.4 PDB: 3bif_A* 2bif_A* 1k6m_A* 1c80_A* 1c7z_A* 1c81_A* 1tip_A* 1fbt_A

Probab=95.60  E-value=0.038  Score=52.95  Aligned_cols=38  Identities=18%  Similarity=0.211  Sum_probs=29.4

Q ss_pred             CCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEec
Q 021239          119 KGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDV  156 (315)
Q Consensus       119 ~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~  156 (315)
                      ...++++.|.||+||||++..++......+..+..++.
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            34589999999999999999998876655555555553

>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=95.58  E-value=0.036  Score=50.32  Aligned_cols=34  Identities=29%  Similarity=0.386  Sum_probs=26.1

Q ss_pred             CCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecC
Q 021239          119 KGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVE  157 (315)
Q Consensus       119 ~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E  157 (315)
                      ...+++|+||+|+|||+|+..++...   +  +.+++.+
T Consensus         9 ~~~~i~i~GptgsGKt~la~~La~~~---~--~~iis~D   42 (316)
T 3foz_A            9 LPKAIFLMGPTASGKTALAIELRKIL---P--VELISVD   42 (316)
T ss_dssp             CCEEEEEECCTTSCHHHHHHHHHHHS---C--EEEEECC
T ss_pred             CCcEEEEECCCccCHHHHHHHHHHhC---C--CcEEecc
Confidence            34689999999999999999997664   2  3456653

>3szr_A Interferon-induced GTP-binding protein MX1; interferon-induced antiviral GTPase, membrane associated, PR binding; 3.50A {Homo sapiens} PDB: 3zys_B

Probab=95.57  E-value=0.0013  Score=65.43  Aligned_cols=22  Identities=23%  Similarity=0.395  Sum_probs=19.8

Q ss_pred             EEEEecCCCChhHHHHHHHHHH
Q 021239          123 VEIYGREASGKTTLALHVIKEA  144 (315)
Q Consensus       123 ~~i~G~~GsGKTtlal~la~~~  144 (315)
                      +.|.|++|+|||||+..++...
T Consensus        48 iaIvG~nGsGKSTLL~~I~Gl~   69 (608)
T 3szr_A           48 IAVIGDQSSGKSSVLEALSGVA   69 (608)
T ss_dssp             EECCCCTTSCHHHHHHHHHSCC
T ss_pred             EEEECCCCChHHHHHHHHhCCC
Confidence            8999999999999998887654

>2qmh_A HPR kinase/phosphorylase; V267F mutation, ATP-binding, carbohydrate metabolism, magnesium, metal-binding, multifunctional enzyme; 2.60A {Lactobacillus casei} PDB: 1jb1_A 1kkl_A 1kkm_A*

Probab=95.57  E-value=0.007  Score=51.49  Aligned_cols=25  Identities=32%  Similarity=0.401  Sum_probs=21.7

Q ss_pred             CCcEEEEEecCCCChhHHHHHHHHH
Q 021239          119 KGRIVEIYGREASGKTTLALHVIKE  143 (315)
Q Consensus       119 ~G~i~~i~G~~GsGKTtlal~la~~  143 (315)
                      .|..++|.||+|+|||++++.++..
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            3677999999999999999988654

>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=95.55  E-value=0.014  Score=57.19  Aligned_cols=26  Identities=38%  Similarity=0.506  Sum_probs=24.2

Q ss_pred             CCcEEEEEecCCCChhHHHHHHHHHH
Q 021239          119 KGRIVEIYGREASGKTTLALHVIKEA  144 (315)
Q Consensus       119 ~G~i~~i~G~~GsGKTtlal~la~~~  144 (315)
                      +|..++|+||||+|||+++..++...
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            78999999999999999999988776

>2xj4_A MIPZ; replication, cell division, ATPase, WACA; 1.60A {Caulobacter vibrioides} PDB: 2xj9_A* 2xit_A

Probab=95.54  E-value=0.011  Score=52.80  Aligned_cols=37  Identities=22%  Similarity=0.397  Sum_probs=32.8

Q ss_pred             EEEEE-ecCCCChhHHHHHHHHHHHhcCCeEEEEecCC
Q 021239          122 IVEIY-GREASGKTTLALHVIKEAQKLGGYCAYLDVEN  158 (315)
Q Consensus       122 i~~i~-G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~  158 (315)
                      ++.|+ +..|+||||++.++|..++..|.+|+++|++.
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 66899999999999999999999999999988

>1jjv_A Dephospho-COA kinase; P-loop nucleotide-binding fold, structure 2 function project, S2F, structural genomics, transferase; HET: ATP; 2.00A {Haemophilus influenzae} SCOP: c.37.1.1

Probab=95.54  E-value=0.0069  Score=50.96  Aligned_cols=21  Identities=43%  Similarity=0.449  Sum_probs=19.0

Q ss_pred             EEEEEecCCCChhHHHHHHHH
Q 021239          122 IVEIYGREASGKTTLALHVIK  142 (315)
Q Consensus       122 i~~i~G~~GsGKTtlal~la~  142 (315)
                      ++.|.|++||||||++..++.
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            689999999999999988865

>2if2_A Dephospho-COA kinase; alpha-beta protein, structural genomics, PSI-2, protein STRU initiative, northeast structural genomics consortium, NESG; 3.00A {Aquifex aeolicus}

Probab=95.51  E-value=0.008  Score=50.40  Aligned_cols=21  Identities=24%  Similarity=0.313  Sum_probs=19.3

Q ss_pred             EEEEEecCCCChhHHHHHHHH
Q 021239          122 IVEIYGREASGKTTLALHVIK  142 (315)
Q Consensus       122 i~~i~G~~GsGKTtlal~la~  142 (315)
                      ++.|.|++||||||++..++.
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            689999999999999988876

>3con_A GTPase NRAS; structural genomics consortium, SGC, GDP, oncogene, disease mutation, golgi apparatus, GTP-binding, lipoprotein membrane, methylation; HET: GDP; 1.65A {Homo sapiens} PDB: 2pmx_A* 3gft_A* 4q21_A*

Probab=95.50  E-value=0.0087  Score=49.16  Aligned_cols=22  Identities=23%  Similarity=0.504  Sum_probs=19.4

Q ss_pred             EEEEEecCCCChhHHHHHHHHH
Q 021239          122 IVEIYGREASGKTTLALHVIKE  143 (315)
Q Consensus       122 i~~i~G~~GsGKTtlal~la~~  143 (315)
                      -+++.|++|+|||||+..++..
T Consensus        23 ki~vvG~~~~GKSsli~~l~~~   44 (190)
T 3con_A           23 KLVVVGAGGVGKSALTIQLIQN   44 (190)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECcCCCCHHHHHHHHHcC
Confidence            5789999999999999998754

>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=95.50  E-value=0.0076  Score=47.88  Aligned_cols=22  Identities=23%  Similarity=0.449  Sum_probs=18.9

Q ss_pred             EEEEEecCCCChhHHHHHHHHH
Q 021239          122 IVEIYGREASGKTTLALHVIKE  143 (315)
Q Consensus       122 i~~i~G~~GsGKTtlal~la~~  143 (315)
                      -+.+.|++|+|||||+..+...
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            4789999999999999887653

>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=95.50  E-value=0.0074  Score=57.25  Aligned_cols=28  Identities=21%  Similarity=0.312  Sum_probs=24.0

Q ss_pred             CCCCCcE--EEEEecCCCChhHHHHHHHHH
Q 021239          116 GLPKGRI--VEIYGREASGKTTLALHVIKE  143 (315)
Q Consensus       116 Gl~~G~i--~~i~G~~GsGKTtlal~la~~  143 (315)
                      -+++|.+  +.|.|++|+|||||+..++..
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            4779999  999999999999999888754

>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=95.49  E-value=0.0077  Score=48.89  Aligned_cols=24  Identities=17%  Similarity=0.260  Sum_probs=21.1

Q ss_pred             cEEEEEecCCCChhHHHHHHHHHH
Q 021239          121 RIVEIYGREASGKTTLALHVIKEA  144 (315)
Q Consensus       121 ~i~~i~G~~GsGKTtlal~la~~~  144 (315)
                      .++.|.|++||||||++..++...
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            468999999999999999887765

>1zuh_A Shikimate kinase; alpha-beta protein, transferase; 1.80A {Helicobacter pylori} PDB: 1zui_A* 3hr7_A 3muf_A* 3mrs_A 3n2e_A*

Probab=95.48  E-value=0.0095  Score=48.33  Aligned_cols=25  Identities=24%  Similarity=0.187  Sum_probs=21.4

Q ss_pred             CcEEEEEecCCCChhHHHHHHHHHH
Q 021239          120 GRIVEIYGREASGKTTLALHVIKEA  144 (315)
Q Consensus       120 G~i~~i~G~~GsGKTtlal~la~~~  144 (315)
                      -.++.|.|++||||||++..++...
T Consensus         7 ~~~i~l~G~~GsGKSTva~~La~~l   31 (168)
T 1zuh_A            7 MQHLVLIGFMGSGKSSLAQELGLAL   31 (168)
T ss_dssp             -CEEEEESCTTSSHHHHHHHHHHHH
T ss_pred             cceEEEECCCCCCHHHHHHHHHHHh
Confidence            4589999999999999999887665

>3a8t_A Adenylate isopentenyltransferase; rossmann fold protein; HET: ATP; 2.37A {Humulus lupulus}

Probab=95.48  E-value=0.008  Score=55.23  Aligned_cols=36  Identities=14%  Similarity=0.347  Sum_probs=28.0

Q ss_pred             CCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCC
Q 021239          118 PKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVEN  158 (315)
Q Consensus       118 ~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~  158 (315)
                      .++.+++|.||+|+|||+|+..+|...     ..-+|+.+.
T Consensus        38 ~~~~lIvI~GPTgsGKTtLa~~LA~~l-----~~eiIs~Ds   73 (339)
T 3a8t_A           38 RKEKLLVLMGATGTGKSRLSIDLAAHF-----PLEVINSDK   73 (339)
T ss_dssp             CCCEEEEEECSTTSSHHHHHHHHHTTS-----CEEEEECCS
T ss_pred             cCCceEEEECCCCCCHHHHHHHHHHHC-----CCcEEcccc
Confidence            456799999999999999999987644     244666554

>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=95.47  E-value=0.015  Score=49.39  Aligned_cols=34  Identities=21%  Similarity=0.164  Sum_probs=29.5

Q ss_pred             EEEEEe-cCCCChhHHHHHHHHHHHhcCCeEEEEe
Q 021239          122 IVEIYG-REASGKTTLALHVIKEAQKLGGYCAYLD  155 (315)
Q Consensus       122 i~~i~G-~~GsGKTtlal~la~~~~~~g~~v~~i~  155 (315)
                      .+.|++ .+|+||||++.++|...+++|.+|++++
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            345555 5899999999999999999999999987

>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=95.44  E-value=0.011  Score=54.90  Aligned_cols=37  Identities=30%  Similarity=0.392  Sum_probs=29.5

Q ss_pred             cCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHH
Q 021239          103 TGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQ  145 (315)
Q Consensus       103 TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~  145 (315)
                      .|+.+|...+      +|.++.|.|+||+|||||+..++....
T Consensus       204 ~gl~~L~~~~------~G~~~~lvG~sG~GKSTLln~L~g~~~  240 (358)
T 2rcn_A          204 DGLKPLEEAL------TGRISIFAGQSGVGKSSLLNALLGLQN  240 (358)
T ss_dssp             BTHHHHHHHH------TTSEEEEECCTTSSHHHHHHHHHCCSS
T ss_pred             cCHHHHHHhc------CCCEEEEECCCCccHHHHHHHHhcccc
Confidence            4677776655      478999999999999999988875543

>2oap_1 GSPE-2, type II secretion system protein; hexameric ATPase, hydrolase; HET: ANP; 2.95A {Archaeoglobus fulgidus} PDB: 2oaq_1

Probab=95.44  E-value=0.0057  Score=59.51  Aligned_cols=37  Identities=19%  Similarity=0.112  Sum_probs=28.0

Q ss_pred             CCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEe
Q 021239          118 PKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLD  155 (315)
Q Consensus       118 ~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~  155 (315)
                      ++|..++|+||+||||||++..++... ....+++.+.
T Consensus       258 ~~g~~i~I~GptGSGKTTlL~aL~~~i-~~~~giitie  294 (511)
T 2oap_1          258 EHKFSAIVVGETASGKTTTLNAIMMFI-PPDAKVVSIE  294 (511)
T ss_dssp             HTTCCEEEEESTTSSHHHHHHHHGGGS-CTTCCEEEEE
T ss_pred             hCCCEEEEECCCCCCHHHHHHHHHhhC-CCCCCEEEEc
Confidence            578899999999999999998776554 3344454443

>3nwj_A ATSK2; P loop, shikimate, nucleoside monophosphate kinase, shikimat ATP binding, chloroplast, transferase; 2.35A {Arabidopsis thaliana}

Probab=95.43  E-value=0.006  Score=53.69  Aligned_cols=29  Identities=28%  Similarity=0.355  Sum_probs=25.1

Q ss_pred             CCCC---CcEEEEEecCCCChhHHHHHHHHHH
Q 021239          116 GLPK---GRIVEIYGREASGKTTLALHVIKEA  144 (315)
Q Consensus       116 Gl~~---G~i~~i~G~~GsGKTtlal~la~~~  144 (315)
                      -+.+   |..+.|.|++|+||||++..++...
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            3456   8999999999999999999888765

>3ld9_A DTMP kinase, thymidylate kinase; ssgcid, NIH, niaid, SBRI, UW, emerald biostructures, ehrlich chaffeensis; 2.15A {Ehrlichia chaffeensis}

Probab=95.42  E-value=0.013  Score=50.69  Aligned_cols=42  Identities=24%  Similarity=0.253  Sum_probs=34.4

Q ss_pred             CCCcEEEEEecCCCChhHHHHHHHHHHHh-cCCeEEEEecCCC
Q 021239          118 PKGRIVEIYGREASGKTTLALHVIKEAQK-LGGYCAYLDVENA  159 (315)
Q Consensus       118 ~~G~i~~i~G~~GsGKTtlal~la~~~~~-~g~~v~~i~~E~~  159 (315)
                      .+|.++.|.|++|+||||++..++..... .|.+|.++.-|..
T Consensus        19 ~~~~~i~~~G~~g~GKst~~~~l~~~l~~~~g~~v~~~treP~   61 (223)
T 3ld9_A           19 PGSMFITFEGIDGSGKTTQSHLLAEYLSEIYGVNNVVLTREPG   61 (223)
T ss_dssp             CCCEEEEEECSTTSSHHHHHHHHHHHHHHHHCGGGEEEEESSC
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHhhccCceeeEeeeCCC
Confidence            46889999999999999999999988877 7777776454443

>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=95.42  E-value=0.0091  Score=50.59  Aligned_cols=23  Identities=17%  Similarity=0.284  Sum_probs=19.7

Q ss_pred             EEEEEecCCCChhHHHHHHHHHH
Q 021239          122 IVEIYGREASGKTTLALHVIKEA  144 (315)
Q Consensus       122 i~~i~G~~GsGKTtlal~la~~~  144 (315)
                      .+.|.|+|||||||++..++...
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~~   24 (216)
T 3dl0_A            2 NLVLMGLPGAGKGTQGERIVEKY   24 (216)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            47899999999999998887554

>2wsm_A Hydrogenase expression/formation protein (HYPB); metal binding protein; 2.30A {Archaeoglobus fulgidus}

Probab=95.42  E-value=0.017  Score=48.89  Aligned_cols=38  Identities=24%  Similarity=0.116  Sum_probs=30.9

Q ss_pred             cEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCC
Q 021239          121 RIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENA  159 (315)
Q Consensus       121 ~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~  159 (315)
                      ..+.|.|++|+|||||+..++...... .++..++.+..
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            378999999999999999999886544 67777776654

>4tmk_A Protein (thymidylate kinase); ATP:DTMP phosphotransferase, transferase; HET: T5A; 1.98A {Escherichia coli} SCOP: c.37.1.1 PDB: 5tmp_A*

Probab=95.41  E-value=0.019  Score=49.13  Aligned_cols=35  Identities=29%  Similarity=0.405  Sum_probs=29.4

Q ss_pred             CCcEEEEEecCCCChhHHHHHHHHHHHhcCC-eEEE
Q 021239          119 KGRIVEIYGREASGKTTLALHVIKEAQKLGG-YCAY  153 (315)
Q Consensus       119 ~G~i~~i~G~~GsGKTtlal~la~~~~~~g~-~v~~  153 (315)
                      +|.++.|.|++|+||||.+..++......|. .+++
T Consensus         2 ~g~~i~~eG~~gsGKsT~~~~l~~~l~~~~~~~v~~   37 (213)
T 4tmk_A            2 RSKYIVIEGLEGAGKTTARNVVVETLEQLGIRDMVF   37 (213)
T ss_dssp             CCCEEEEEECTTSCHHHHHHHHHHHHHHTTCCCEEE
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHcCCCccee
Confidence            4789999999999999999999888877776 5543

>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=95.41  E-value=0.03  Score=59.28  Aligned_cols=101  Identities=16%  Similarity=0.182  Sum_probs=61.2

Q ss_pred             HHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHh----cCCeEEEEecCCCCChH-------HHHHcCCCCCC
Q 021239          106 LKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQK----LGGYCAYLDVENALDPS-------LAEAMGIDAEN  174 (315)
Q Consensus       106 ~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~----~g~~v~~i~~E~~~~~~-------~~~~~g~~~~~  174 (315)
                      ..|..+|. .+-....++.|+|++|+||||||.+++.....    ....+.|++........       .+..++.....
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 22234568999999999999999998766422    34578899986654321       22333322110


Q ss_pred             eEEeCCCCHHHHHHHHHHHHHcC-CccEEeehhHh
Q 021239          175 LLIAQPDSAENLLSVVDTLTKSG-SIDVIVVDSVA  208 (315)
Q Consensus       175 l~i~~~~~~e~~~~~i~~l~~~~-~~~lVVIDsl~  208 (315)
                       .-..+...+++.+.++..+... +.-+||+|.+.
T Consensus       213 -~~~~~~~~~~~~~~l~~~l~~~~~~~LlvlDd~~  246 (1249)
T 3sfz_A          213 -SQRLPLNIEEAKDRLRVLMLRKHPRSLLILDDVW  246 (1249)
T ss_dssp             -CSSCCSSHHHHHHHHHHHTSSSSCSCEEEEESCC
T ss_pred             -ccCCCCCHHHHHHHHHHHHhccCCCEEEEEecCC
Confidence             0112345677777777665432 35699999764

>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=95.37  E-value=0.012  Score=50.73  Aligned_cols=33  Identities=27%  Similarity=0.267  Sum_probs=26.7

Q ss_pred             CCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEec
Q 021239          119 KGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDV  156 (315)
Q Consensus       119 ~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~  156 (315)
                      .+..+.|.|+|||||||++..++...   +  +.++++
T Consensus        15 ~~~~I~l~G~~GsGKsT~a~~La~~l---~--~~~i~~   47 (233)
T 1ak2_A           15 KGVRAVLLGPPGAGKGTQAPKLAKNF---C--VCHLAT   47 (233)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHHHH---T--CEEEEH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHh---C--CceecH
Confidence            45689999999999999999998776   2  446665

>3d3q_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2; 2.70A {Staphylococcus epidermidis atcc 12228}

Probab=95.36  E-value=0.013  Score=53.89  Aligned_cols=33  Identities=30%  Similarity=0.412  Sum_probs=26.7

Q ss_pred             cEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCC
Q 021239          121 RIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVEN  158 (315)
Q Consensus       121 ~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~  158 (315)
                      .++.|+||+||||||++..++...-     +.+++.+.
T Consensus         8 ~lI~I~GptgSGKTtla~~La~~l~-----~~iis~Ds   40 (340)
T 3d3q_A            8 FLIVIVGPTASGKTELSIEVAKKFN-----GEIISGDS   40 (340)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHTT-----EEEEECCS
T ss_pred             ceEEEECCCcCcHHHHHHHHHHHcC-----Cceecccc
Confidence            4899999999999999999887652     56677654

>3pg5_A Uncharacterized protein; structural genomics, PSI-biology, protein structure initiati northeast structural genomics consortium, NESG; 3.30A {Corynebacterium diphtheriae}

Probab=95.35  E-value=0.0086  Score=55.46  Aligned_cols=39  Identities=23%  Similarity=0.256  Sum_probs=33.7

Q ss_pred             EEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCC
Q 021239          123 VEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALD  161 (315)
Q Consensus       123 ~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~  161 (315)
                      .+..+..|+||||++.++|..++..|.+|+++|++....
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            334477899999999999999999999999999987644

>3sop_A Neuronal-specific septin-3; hydrolase; HET: GDP; 2.88A {Homo sapiens}

Probab=95.35  E-value=0.0094  Score=53.01  Aligned_cols=31  Identities=19%  Similarity=0.195  Sum_probs=21.2

Q ss_pred             EEEEEecCCCChhHHHHHHHHHHHhcCCeEE
Q 021239          122 IVEIYGREASGKTTLALHVIKEAQKLGGYCA  152 (315)
Q Consensus       122 i~~i~G~~GsGKTtlal~la~~~~~~g~~v~  152 (315)
                      .+.|.||+|+|||||+..++.......+.+.
T Consensus         4 ~v~lvG~nGaGKSTLln~L~g~~~~~~G~i~   34 (270)
T 3sop_A            4 NIMVVGQSGLGKSTLVNTLFKSQVSRKASSW   34 (270)
T ss_dssp             EEEEEESSSSSHHHHHHHHHHHHC-------
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCCCCCccc
Confidence            4789999999999999998877655444443

>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=95.33  E-value=0.028  Score=56.37  Aligned_cols=90  Identities=13%  Similarity=0.148  Sum_probs=50.1

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHh--cCCeEEEEecC---CCCChHHHHHcCCCCCC---------eEEeCCCC
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQK--LGGYCAYLDVE---NALDPSLAEAMGIDAEN---------LLIAQPDS  182 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~--~g~~v~~i~~E---~~~~~~~~~~~g~~~~~---------l~i~~~~~  182 (315)
                      ++++..+.|.|++|+|||||+..++.....  ..+.+  .+..   .....++.+.+.+..+.         +.+.+...
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            467889999999999999999998865432  12222  1110   00111233333433321         22333222


Q ss_pred             HHHHHHHHHHHHHcCCccEEeehhHh
Q 021239          183 AENLLSVVDTLTKSGSIDVIVVDSVA  208 (315)
Q Consensus       183 ~e~~~~~i~~l~~~~~~~lVVIDsl~  208 (315)
                      .+++...+...+...+..++|+|...
T Consensus        84 ~~~f~~~~~~~l~~ad~~ilVvD~~~  109 (665)
T 2dy1_A           84 YGDFVGEIRGALEAADAALVAVSAEA  109 (665)
T ss_dssp             SGGGHHHHHHHHHHCSEEEEEEETTT
T ss_pred             ccchHHHHHHHHhhcCcEEEEEcCCc
Confidence            34444555555556678899999543

>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=95.29  E-value=0.046  Score=51.37  Aligned_cols=32  Identities=16%  Similarity=0.425  Sum_probs=25.5

Q ss_pred             cEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecC
Q 021239          121 RIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVE  157 (315)
Q Consensus       121 ~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E  157 (315)
                      .++.|.||+|+|||+++..++...-     ..+++.+
T Consensus         3 ~~i~i~GptgsGKttla~~La~~~~-----~~iis~D   34 (409)
T 3eph_A            3 KVIVIAGTTGVGKSQLSIQLAQKFN-----GEVINSD   34 (409)
T ss_dssp             EEEEEEECSSSSHHHHHHHHHHHHT-----EEEEECC
T ss_pred             cEEEEECcchhhHHHHHHHHHHHCC-----CeEeecC
Confidence            4789999999999999999987762     2356654

>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=95.29  E-value=0.013  Score=52.93  Aligned_cols=43  Identities=19%  Similarity=0.155  Sum_probs=30.2

Q ss_pred             cCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEE
Q 021239          103 TGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCA  152 (315)
Q Consensus       103 TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~  152 (315)
                      .|+++|=..+      .|.++.|.|++|+|||||+..++ ......+.+.
T Consensus       154 ~gi~~L~~~l------~G~i~~l~G~sG~GKSTLln~l~-~~~~~~G~i~  196 (302)
T 2yv5_A          154 EGIDELVDYL------EGFICILAGPSGVGKSSILSRLT-GEELRTQEVS  196 (302)
T ss_dssp             TTHHHHHHHT------TTCEEEEECSTTSSHHHHHHHHH-SCCCCCSCC-
T ss_pred             CCHHHHHhhc------cCcEEEEECCCCCCHHHHHHHHH-HhhCcccccc
Confidence            3555554443      57899999999999999999988 4433344443

>3crm_A TRNA delta(2)-isopentenylpyrophosphate transferase; ATP-binding, nucleotide-binding, nucleotidyltransferase, tRNA processing; 1.90A {Pseudomonas aeruginosa} PDB: 3crq_A 3crr_A

Probab=95.26  E-value=0.013  Score=53.59  Aligned_cols=32  Identities=28%  Similarity=0.501  Sum_probs=25.8

Q ss_pred             cEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecC
Q 021239          121 RIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVE  157 (315)
Q Consensus       121 ~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E  157 (315)
                      .+++|+||+|+||||++..++...     .+.+++.+
T Consensus         6 ~~i~i~GptGsGKTtla~~La~~l-----~~~iis~D   37 (323)
T 3crm_A            6 PAIFLMGPTAAGKTDLAMALADAL-----PCELISVD   37 (323)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHHS-----CEEEEEEC
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHc-----CCcEEecc
Confidence            489999999999999999987654     25566664

>2pt5_A Shikimate kinase, SK; aromatic amino acid biosynthesis, P-loop kinase, SHI kinase, shikimate pathway; 2.10A {Aquifex aeolicus}

Probab=95.25  E-value=0.012  Score=47.50  Aligned_cols=23  Identities=22%  Similarity=0.263  Sum_probs=20.4

Q ss_pred             EEEEEecCCCChhHHHHHHHHHH
Q 021239          122 IVEIYGREASGKTTLALHVIKEA  144 (315)
Q Consensus       122 i~~i~G~~GsGKTtlal~la~~~  144 (315)
                      .+.|.|++||||||++..++...
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            58899999999999999887755

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A*

Probab=95.24  E-value=0.025  Score=59.39  Aligned_cols=44  Identities=32%  Similarity=0.296  Sum_probs=33.6

Q ss_pred             CCcEEEEEecCCCChhHHHHHHHHH--HHh-cCCeEEEEecCCCCCh
Q 021239          119 KGRIVEIYGREASGKTTLALHVIKE--AQK-LGGYCAYLDVENALDP  162 (315)
Q Consensus       119 ~G~i~~i~G~~GsGKTtlal~la~~--~~~-~g~~v~~i~~E~~~~~  162 (315)
                      ...++.|+|++|+||||||.+++..  ... -...++|++.......
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            3579999999999999999998753  222 2446899998776654

>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=95.24  E-value=0.01  Score=49.85  Aligned_cols=23  Identities=30%  Similarity=0.400  Sum_probs=19.8

Q ss_pred             EEEEEecCCCChhHHHHHHHHHH
Q 021239          122 IVEIYGREASGKTTLALHVIKEA  144 (315)
Q Consensus       122 i~~i~G~~GsGKTtlal~la~~~  144 (315)
                      .++|+||+|+||||++..+....
T Consensus         3 pIVi~GPSG~GK~Tl~~~L~~~~   25 (186)
T 1ex7_A            3 PIVISGPSGTGKSTLLKKLFAEY   25 (186)
T ss_dssp             CEEEECCTTSSHHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHHhC
Confidence            58899999999999998876654

>2v6i_A RNA helicase; membrane, hydrolase, transmembrane, RNA replication, viral replication, nucleotide-binding; 2.10A {Kokobera virus} PDB: 2v6j_A

Probab=95.22  E-value=0.065  Score=50.67  Aligned_cols=38  Identities=21%  Similarity=0.147  Sum_probs=30.2

Q ss_pred             CCcEEEEEecCCCChhHHH-HHHHHHHHhcCCeEEEEec
Q 021239          119 KGRIVEIYGREASGKTTLA-LHVIKEAQKLGGYCAYLDV  156 (315)
Q Consensus       119 ~G~i~~i~G~~GsGKTtla-l~la~~~~~~g~~v~~i~~  156 (315)
                      +|..+++.||+|+|||..+ ..++..+...|.+++|+..
T Consensus         1 kg~~~lv~a~TGsGKT~~~l~~~l~~~~~~g~~~lvl~P   39 (431)
T 2v6i_A            1 KRELTVLDLHPGAGKTRRVLPQLVREAVKKRLRTVILAP   39 (431)
T ss_dssp             -CCEEEEECCTTSCTTTTHHHHHHHHHHHTTCCEEEEES
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHHHHHHHhCCCCEEEECc
Confidence            4788999999999999986 4455566677888999884

>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=95.18  E-value=0.0082  Score=57.88  Aligned_cols=33  Identities=12%  Similarity=0.119  Sum_probs=26.6

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCe
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGY  150 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~  150 (315)
                      +++ +++.|.||+|+|||||+..++.......+.
T Consensus        27 i~~-e~~~liG~nGsGKSTLl~~l~Gl~~p~~G~   59 (483)
T 3euj_A           27 FDE-LVTTLSGGNGAGKSTTMAGFVTALIPDLTL   59 (483)
T ss_dssp             CCS-SEEEEECCTTSSHHHHHHHHHHHHCCCTTT
T ss_pred             Ecc-ceEEEECCCCCcHHHHHHHHhcCCCCCCCE
Confidence            567 999999999999999998888766543333

>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=95.18  E-value=0.013  Score=48.74  Aligned_cols=32  Identities=34%  Similarity=0.417  Sum_probs=24.9

Q ss_pred             CcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecC
Q 021239          120 GRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVE  157 (315)
Q Consensus       120 G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E  157 (315)
                      ..++.|.|++||||||++..++..    |  +.+++.+
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            458999999999999999888763    3  3456654

>3r20_A Cytidylate kinase; structural genomics, seattle structural genomics center for infectious disease, ssgcid, ADP, DCMP, D transferase; 2.00A {Mycobacterium smegmatis} SCOP: c.37.1.0 PDB: 3r8c_A 4die_A*

Probab=95.16  E-value=0.013  Score=51.04  Aligned_cols=25  Identities=16%  Similarity=0.365  Sum_probs=22.0

Q ss_pred             CcEEEEEecCCCChhHHHHHHHHHH
Q 021239          120 GRIVEIYGREASGKTTLALHVIKEA  144 (315)
Q Consensus       120 G~i~~i~G~~GsGKTtlal~la~~~  144 (315)
                      .-++.|.||+|+||||++..++...
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            4589999999999999999887665

>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=95.16  E-value=0.013  Score=53.22  Aligned_cols=34  Identities=29%  Similarity=0.336  Sum_probs=25.7

Q ss_pred             CcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEe
Q 021239          120 GRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLD  155 (315)
Q Consensus       120 G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~  155 (315)
                      -.+++|.|++|+||||++..++...  .+.+++.+.
T Consensus         4 i~v~~i~G~~GaGKTTll~~l~~~~--~~~~~aVi~   37 (318)
T 1nij_A            4 IAVTLLTGFLGAGKTTLLRHILNEQ--HGYKIAVIE   37 (318)
T ss_dssp             EEEEEEEESSSSSCHHHHHHHHHSC--CCCCEEEEC
T ss_pred             ccEEEEEecCCCCHHHHHHHHHhhc--CCCcEEEEE
Confidence            3589999999999999998887653  344444444

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=95.15  E-value=0.02  Score=58.27  Aligned_cols=29  Identities=17%  Similarity=0.188  Sum_probs=24.3

Q ss_pred             CCCcEEEEEecCCCChhHHHHHHHHHHHh
Q 021239          118 PKGRIVEIYGREASGKTTLALHVIKEAQK  146 (315)
Q Consensus       118 ~~G~i~~i~G~~GsGKTtlal~la~~~~~  146 (315)
                      +...-++|+||||+|||+++..++.....
T Consensus       199 ~~~~~vLL~G~pGtGKT~la~~la~~l~~  227 (758)
T 3pxi_A          199 RTKNNPVLIGEPGVGKTAIAEGLAQQIIN  227 (758)
T ss_dssp             SSSCEEEEESCTTTTTHHHHHHHHHHHHS
T ss_pred             CCCCCeEEECCCCCCHHHHHHHHHHHHhc
Confidence            34456899999999999999999888754

>1q3t_A Cytidylate kinase; nucleotide monophosphate kinase, CMP kinase, transferase; NMR {Streptococcus pneumoniae} SCOP: c.37.1.1

Probab=95.15  E-value=0.015  Score=50.13  Aligned_cols=29  Identities=31%  Similarity=0.304  Sum_probs=24.0

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHH
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEA  144 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~  144 (315)
                      ..++|.++.|.|++|+||||++..++...
T Consensus        12 ~~~~~~~i~i~G~~gsGKst~~~~l~~~l   40 (236)
T 1q3t_A           12 DKMKTIQIAIDGPASSGKSTVAKIIAKDF   40 (236)
T ss_dssp             --CCCCEEEEECSSCSSHHHHHHHHHHHH
T ss_pred             cccCCcEEEEECCCCCCHHHHHHHHHHHc
Confidence            35678899999999999999998887654

>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=95.15  E-value=0.0089  Score=47.75  Aligned_cols=19  Identities=32%  Similarity=0.316  Sum_probs=17.2

Q ss_pred             EEEEecCCCChhHHHHHHH
Q 021239          123 VEIYGREASGKTTLALHVI  141 (315)
Q Consensus       123 ~~i~G~~GsGKTtlal~la  141 (315)
                      +.|.|++|+|||+|+..++
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            7899999999999998774

>1vht_A Dephospho-COA kinase; structural genomics, transferase; HET: BA3; 1.59A {Escherichia coli} SCOP: c.37.1.1 PDB: 1vhl_A* 1viy_A 1t3h_A 1n3b_A

Probab=95.13  E-value=0.013  Score=49.68  Aligned_cols=24  Identities=33%  Similarity=0.321  Sum_probs=20.9

Q ss_pred             CCcEEEEEecCCCChhHHHHHHHH
Q 021239          119 KGRIVEIYGREASGKTTLALHVIK  142 (315)
Q Consensus       119 ~G~i~~i~G~~GsGKTtlal~la~  142 (315)
                      .+.++.|.|++||||||++..++.
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            356899999999999999988865

>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=95.13  E-value=0.022  Score=53.74  Aligned_cols=40  Identities=18%  Similarity=0.204  Sum_probs=34.4

Q ss_pred             CcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCC
Q 021239          120 GRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENA  159 (315)
Q Consensus       120 G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~  159 (315)
                      ..-++|.|++|+|||+++..++.++...|..++++|....
T Consensus        53 ~~h~~i~G~tGsGKs~~~~~li~~~~~~g~~viv~Dpkge   92 (437)
T 1e9r_A           53 PRHLLVNGATGTGKSVLLRELAYTGLLRGDRMVIVDPNGD   92 (437)
T ss_dssp             GGCEEEEECTTSSHHHHHHHHHHHHHHTTCEEEEEEETTH
T ss_pred             cceEEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEeCCCc
Confidence            3468999999999999998899998888999999996543

>2xb4_A Adenylate kinase; ATP-binding, nucleotide-binding, transferase; HET: SRT; 1.80A {Desulfovibrio gigas} PDB: 3l0s_A* 3l0p_A*

Probab=95.07  E-value=0.014  Score=49.99  Aligned_cols=23  Identities=30%  Similarity=0.319  Sum_probs=20.6

Q ss_pred             EEEEEecCCCChhHHHHHHHHHH
Q 021239          122 IVEIYGREASGKTTLALHVIKEA  144 (315)
Q Consensus       122 i~~i~G~~GsGKTtlal~la~~~  144 (315)
                      ++.|.|+|||||||++..++...
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            58899999999999999887765

>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=95.05  E-value=0.014  Score=57.99  Aligned_cols=41  Identities=17%  Similarity=0.153  Sum_probs=33.1

Q ss_pred             CcEEEEEecCCCChhHHHHHHHHHHHh-cCCeEEEEecCCCC
Q 021239          120 GRIVEIYGREASGKTTLALHVIKEAQK-LGGYCAYLDVENAL  160 (315)
Q Consensus       120 G~i~~i~G~~GsGKTtlal~la~~~~~-~g~~v~~i~~E~~~  160 (315)
                      +.+++|.||||+|||+++..++..... .+.++++...-+..
T Consensus       195 ~~~~li~GppGTGKT~~~~~~i~~l~~~~~~~ilv~a~tn~A  236 (624)
T 2gk6_A          195 RPLSLIQGPPGTGKTVTSATIVYHLARQGNGPVLVCAPSNIA  236 (624)
T ss_dssp             CSEEEEECCTTSCHHHHHHHHHHHHHTSSSCCEEEEESSHHH
T ss_pred             CCCeEEECCCCCCHHHHHHHHHHHHHHcCCCeEEEEeCcHHH
Confidence            458999999999999999998888776 57788877754433

>2r44_A Uncharacterized protein; putative ATPase, structural genomics, joint center for struc genomics, JCSG; HET: MSE PG4; 2.00A {Cytophaga hutchinsonii atcc 33406}

Probab=95.05  E-value=0.011  Score=53.60  Aligned_cols=34  Identities=15%  Similarity=0.028  Sum_probs=26.2

Q ss_pred             CcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEec
Q 021239          120 GRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDV  156 (315)
Q Consensus       120 G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~  156 (315)
                      |.-++|+||||+|||+++..++...   +.++..+.+
T Consensus        46 ~~~vll~G~pGtGKT~la~~la~~~---~~~~~~i~~   79 (331)
T 2r44_A           46 GGHILLEGVPGLAKTLSVNTLAKTM---DLDFHRIQF   79 (331)
T ss_dssp             TCCEEEESCCCHHHHHHHHHHHHHT---TCCEEEEEC
T ss_pred             CCeEEEECCCCCcHHHHHHHHHHHh---CCCeEEEec
Confidence            4579999999999999999887654   445555554

>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=95.04  E-value=0.017  Score=51.46  Aligned_cols=34  Identities=15%  Similarity=0.197  Sum_probs=25.4

Q ss_pred             EEEEecCCCChhHHHHHHHHHHHhcC--CeEEEEec
Q 021239          123 VEIYGREASGKTTLALHVIKEAQKLG--GYCAYLDV  156 (315)
Q Consensus       123 ~~i~G~~GsGKTtlal~la~~~~~~g--~~v~~i~~  156 (315)
                      ++|+||||+|||+++..++......+  ..+++++.
T Consensus        41 ~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~   76 (319)
T 2chq_A           41 LLFSGPPGTGKTATAIALARDLFGENWRDNFIEMNA   76 (319)
T ss_dssp             EEEESSSSSSHHHHHHHHHHHHHTTCHHHHCEEEET
T ss_pred             EEEECcCCcCHHHHHHHHHHHhcCCcccCCeEEEeC
Confidence            89999999999999999988764322  23444553

>1z06_A RAS-related protein RAB-33B; RAB GTPase, RAB33B GTPase, vesicular trafficking, protein transport; HET: GNP; 1.81A {Mus musculus} SCOP: c.37.1.8 PDB: 2g77_B*

Probab=95.03  E-value=0.029  Score=46.04  Aligned_cols=22  Identities=23%  Similarity=0.315  Sum_probs=19.2

Q ss_pred             EEEEEecCCCChhHHHHHHHHH
Q 021239          122 IVEIYGREASGKTTLALHVIKE  143 (315)
Q Consensus       122 i~~i~G~~GsGKTtlal~la~~  143 (315)
                      -++|.|++|+|||+|+..+...
T Consensus        22 ki~v~G~~~~GKSsli~~l~~~   43 (189)
T 1z06_A           22 KIIVIGDSNVGKTCLTYRFCAG   43 (189)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHcC
Confidence            5899999999999999887653

>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=94.98  E-value=0.016  Score=49.06  Aligned_cols=23  Identities=22%  Similarity=0.343  Sum_probs=20.3

Q ss_pred             EEEEEecCCCChhHHHHHHHHHH
Q 021239          122 IVEIYGREASGKTTLALHVIKEA  144 (315)
Q Consensus       122 i~~i~G~~GsGKTtlal~la~~~  144 (315)
                      .+.|.|+|||||||++..++...
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            47899999999999999988765

>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=94.97  E-value=0.007  Score=50.68  Aligned_cols=26  Identities=23%  Similarity=0.289  Sum_probs=23.1

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHH
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIK  142 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~  142 (315)
                      +++|..+.|.|++|+|||||...++.
T Consensus        23 ~~~~~~v~lvG~~g~GKSTLl~~l~g   48 (210)
T 1pui_A           23 SDTGIEVAFAGRSNAGKSSALNTLTN   48 (210)
T ss_dssp             CSCSEEEEEEECTTSSHHHHHTTTCC
T ss_pred             CCCCcEEEEECCCCCCHHHHHHHHhC
Confidence            57899999999999999999987754

>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=94.93  E-value=0.011  Score=54.82  Aligned_cols=32  Identities=25%  Similarity=0.294  Sum_probs=27.0

Q ss_pred             CCCCC--CcEEEEEecCCCChhHHHHHHHHHHHh
Q 021239          115 GGLPK--GRIVEIYGREASGKTTLALHVIKEAQK  146 (315)
Q Consensus       115 GGl~~--G~i~~i~G~~GsGKTtlal~la~~~~~  146 (315)
                      --+++  |+.+.|.|++|+|||||+..++.....
T Consensus       163 ~~v~~~lg~k~~IvG~nGsGKSTLlk~L~gl~~~  196 (365)
T 1lw7_A          163 KEARPFFAKTVAILGGESSGKSVLVNKLAAVFNT  196 (365)
T ss_dssp             TTTGGGTCEEEEEECCTTSHHHHHHHHHHHHTTC
T ss_pred             HHHHHhhhCeEEEECCCCCCHHHHHHHHHHHhCC
Confidence            34566  999999999999999999988876543

>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=94.91  E-value=0.019  Score=56.54  Aligned_cols=39  Identities=21%  Similarity=0.202  Sum_probs=32.9

Q ss_pred             CCcEEEEEecCCCChhHHHHHHHHHHHhcC-CeEEEEecC
Q 021239          119 KGRIVEIYGREASGKTTLALHVIKEAQKLG-GYCAYLDVE  157 (315)
Q Consensus       119 ~G~i~~i~G~~GsGKTtlal~la~~~~~~g-~~v~~i~~E  157 (315)
                      .|.++.|.|.+||||||++..++......| .++.+++.+
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            567999999999999999999988877666 677888754

>3k1j_A LON protease, ATP-dependent protease LON; ATP-binding, nucleotide-binding, Pro hydrolase; HET: ADP PE8; 2.00A {Thermococcus onnurineus}

Probab=94.88  E-value=0.012  Score=58.19  Aligned_cols=38  Identities=16%  Similarity=0.057  Sum_probs=28.5

Q ss_pred             CCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEe
Q 021239          118 PKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLD  155 (315)
Q Consensus       118 ~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~  155 (315)
                      ..|..++|+||||+||||++..++..........+++.
T Consensus        58 ~~g~~vll~Gp~GtGKTtlar~ia~~l~~~~~~~~~~~   95 (604)
T 3k1j_A           58 NQKRHVLLIGEPGTGKSMLGQAMAELLPTETLEDILVF   95 (604)
T ss_dssp             HTTCCEEEECCTTSSHHHHHHHHHHTSCCSSCEEEEEE
T ss_pred             cCCCEEEEEeCCCCCHHHHHHHHhccCCcccCCeEEEe
Confidence            46689999999999999999998876644433444443

>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=94.86  E-value=0.027  Score=56.02  Aligned_cols=38  Identities=29%  Similarity=0.303  Sum_probs=32.7

Q ss_pred             CCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEec
Q 021239          119 KGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDV  156 (315)
Q Consensus       119 ~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~  156 (315)
                      +|.++.|.|.+||||||++..++......|.++++++.
T Consensus        51 ~g~lIvLtGlsGSGKSTlAr~La~~L~~~G~~~v~lDg   88 (630)
T 1x6v_B           51 RGCTVWLTGLSGAGKTTVSMALEEYLVCHGIPCYTLDG   88 (630)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEESH
T ss_pred             CCCEEEEEeCCCCCHHHHHHHHHHHHHhcCCeEEEech
Confidence            68899999999999999999998887666777777763

>2gks_A Bifunctional SAT/APS kinase; transferase, sulfurylase; HET: ADP; 2.31A {Aquifex aeolicus}

Probab=94.82  E-value=0.021  Score=55.92  Aligned_cols=38  Identities=29%  Similarity=0.282  Sum_probs=33.4

Q ss_pred             CcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecC
Q 021239          120 GRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVE  157 (315)
Q Consensus       120 G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E  157 (315)
                      +.++.|.|.+|+||||++..++......|.++.+++.+
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            77899999999999999999988877778888888854

>3tqf_A HPR(Ser) kinase; transferase, hydrolase; 2.80A {Coxiella burnetii}

Probab=94.81  E-value=0.018  Score=47.82  Aligned_cols=24  Identities=33%  Similarity=0.371  Sum_probs=21.2

Q ss_pred             CCcEEEEEecCCCChhHHHHHHHH
Q 021239          119 KGRIVEIYGREASGKTTLALHVIK  142 (315)
Q Consensus       119 ~G~i~~i~G~~GsGKTtlal~la~  142 (315)
                      .|.-++|.|++|+||||+++.++.
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            366799999999999999998875

>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=94.75  E-value=0.0067  Score=54.74  Aligned_cols=34  Identities=21%  Similarity=0.184  Sum_probs=24.2

Q ss_pred             CCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeE
Q 021239          118 PKGRIVEIYGREASGKTTLALHVIKEAQKLGGYC  151 (315)
Q Consensus       118 ~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v  151 (315)
                      ..|.++.|.||||+|||||+..++.......+.+
T Consensus       167 l~geiv~l~G~sG~GKSTll~~l~g~~~~~~G~i  200 (301)
T 1u0l_A          167 LKGKISTMAGLSGVGKSSLLNAINPGLKLRVSEV  200 (301)
T ss_dssp             HSSSEEEEECSTTSSHHHHHHHHSTTCCCC----
T ss_pred             hcCCeEEEECCCCCcHHHHHHHhcccccccccce
Confidence            3578999999999999999988865443333344

>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=94.72  E-value=0.02  Score=47.75  Aligned_cols=31  Identities=42%  Similarity=0.568  Sum_probs=24.5

Q ss_pred             EEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecC
Q 021239          122 IVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVE  157 (315)
Q Consensus       122 i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E  157 (315)
                      ++.|.|++||||||++..++...   |  +.|++.+
T Consensus         4 ~i~i~G~~GsGKst~~~~la~~l---g--~~~~d~d   34 (208)
T 3ake_A            4 IVTIDGPSASGKSSVARRVAAAL---G--VPYLSSG   34 (208)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH---T--CCEEEHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHhc---C--Cceeccc
Confidence            78999999999999999887655   2  3456643

>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=94.71  E-value=0.029  Score=53.51  Aligned_cols=20  Identities=35%  Similarity=0.552  Sum_probs=18.3

Q ss_pred             EEEEEecCCCChhHHHHHHH
Q 021239          122 IVEIYGREASGKTTLALHVI  141 (315)
Q Consensus       122 i~~i~G~~GsGKTtlal~la  141 (315)
                      .++|.|+||+|||||...++
T Consensus        25 ~V~lvG~~nvGKSTL~n~l~   44 (456)
T 4dcu_A           25 VVAIVGRPNVGKSTIFNRIA   44 (456)
T ss_dssp             EEEEECSSSSSHHHHHHHHE
T ss_pred             EEEEECCCCCcHHHHHHHHh
Confidence            68999999999999998874

>2hf9_A Probable hydrogenase nickel incorporation protein HYPB; alpha and beta protein; HET: GSP; 1.90A {Methanocaldococcus jannaschii} PDB: 2hf8_A*

Probab=94.67  E-value=0.029  Score=47.47  Aligned_cols=37  Identities=22%  Similarity=0.174  Sum_probs=28.5

Q ss_pred             cEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCC
Q 021239          121 RIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVEN  158 (315)
Q Consensus       121 ~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~  158 (315)
                      -.+.|.|.+|+|||||+..++...... .++..+..+.
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            468888999999999999999886544 5565565544

>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=94.65  E-value=0.018  Score=51.35  Aligned_cols=23  Identities=35%  Similarity=0.449  Sum_probs=20.4

Q ss_pred             cEEEEEecCCCChhHHHHHHHHH
Q 021239          121 RIVEIYGREASGKTTLALHVIKE  143 (315)
Q Consensus       121 ~i~~i~G~~GsGKTtlal~la~~  143 (315)
                      .++.|.|+|||||||++..++..
T Consensus         3 ~~I~l~G~~GsGKST~a~~L~~~   25 (301)
T 1ltq_A            3 KIILTIGCPGSGKSTWAREFIAK   25 (301)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHh
Confidence            47899999999999999988763

>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=94.53  E-value=0.0052  Score=55.83  Aligned_cols=35  Identities=14%  Similarity=0.077  Sum_probs=23.3

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeE
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYC  151 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v  151 (315)
                      +.+|.++.|.|+||+|||||+..++.......+.+
T Consensus       170 ~~~G~~~~lvG~sG~GKSTLln~L~g~~~~~~G~I  204 (307)
T 1t9h_A          170 HFQDKTTVFAGQSGVGKSSLLNAISPELGLRTNEI  204 (307)
T ss_dssp             GGTTSEEEEEESHHHHHHHHHHHHCC---------
T ss_pred             hcCCCEEEEECCCCCCHHHHHHHhcccccccccce
Confidence            45689999999999999999988876544333333

>3qf7_A RAD50; ABC-ATPase, ATPase, hydrolase; HET: ANP; 1.90A {Thermotoga maritima} PDB: 3qg5_A 3tho_A*

Probab=94.53  E-value=0.023  Score=52.70  Aligned_cols=27  Identities=22%  Similarity=0.334  Sum_probs=21.9

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHH
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEA  144 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~  144 (315)
                      +++| +++|+||+|+||||+.-.++...
T Consensus        21 ~~~g-~~~i~G~NGaGKTTll~ai~~al   47 (365)
T 3qf7_A           21 FQSG-ITVVEGPNGAGKSSLFEAISFAL   47 (365)
T ss_dssp             CCSE-EEEEECCTTSSHHHHHHHHHHHH
T ss_pred             cCCC-eEEEECCCCCCHHHHHHHHHHHh
Confidence            3456 89999999999999987776553

>1g8p_A Magnesium-chelatase 38 kDa subunit; parallel beta sheet, P-loop, rossman fold, AAA+, photosynthesis, metal transport; 2.10A {Rhodobacter capsulatus} SCOP: c.37.1.20 PDB: 2x31_G

Probab=94.52  E-value=0.014  Score=53.04  Aligned_cols=23  Identities=22%  Similarity=0.281  Sum_probs=20.4

Q ss_pred             EEEEEecCCCChhHHHHHHHHHH
Q 021239          122 IVEIYGREASGKTTLALHVIKEA  144 (315)
Q Consensus       122 i~~i~G~~GsGKTtlal~la~~~  144 (315)
                      -++|+||||+|||+++..++...
T Consensus        47 ~vLl~G~~GtGKT~la~~la~~~   69 (350)
T 1g8p_A           47 GVLVFGDRGTGKSTAVRALAALL   69 (350)
T ss_dssp             CEEEECCGGGCTTHHHHHHHHHS
T ss_pred             eEEEECCCCccHHHHHHHHHHhC
Confidence            39999999999999999888755

>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=94.49  E-value=0.022  Score=51.79  Aligned_cols=25  Identities=32%  Similarity=0.456  Sum_probs=21.8

Q ss_pred             CcEEEEEecCCCChhHHHHHHHHHH
Q 021239          120 GRIVEIYGREASGKTTLALHVIKEA  144 (315)
Q Consensus       120 G~i~~i~G~~GsGKTtlal~la~~~  144 (315)
                      +.+++|.||+|+|||+++..++...
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            4589999999999999999987654

>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=94.47  E-value=0.024  Score=47.67  Aligned_cols=35  Identities=17%  Similarity=0.372  Sum_probs=26.6

Q ss_pred             CCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCC
Q 021239          119 KGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVEN  158 (315)
Q Consensus       119 ~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~  158 (315)
                      ...++.|+|.+||||||++..++...   |  +.+++.+.
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            45689999999999999998887653   3  44566543

>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=94.46  E-value=0.013  Score=55.34  Aligned_cols=23  Identities=22%  Similarity=0.218  Sum_probs=20.5

Q ss_pred             CcEEEEEecCCCChhHHHHHHHH
Q 021239          120 GRIVEIYGREASGKTTLALHVIK  142 (315)
Q Consensus       120 G~i~~i~G~~GsGKTtlal~la~  142 (315)
                      +.++.|.||+|+|||||+..++.
T Consensus        69 ~~~valvG~nGaGKSTLln~L~G   91 (413)
T 1tq4_A           69 VLNVAVTGETGSGKSSFINTLRG   91 (413)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHT
T ss_pred             CeEEEEECCCCCcHHHHHHHHhC
Confidence            33999999999999999988876

>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=94.45  E-value=0.0056  Score=63.81  Aligned_cols=35  Identities=20%  Similarity=0.227  Sum_probs=28.4

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeE
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYC  151 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v  151 (315)
                      +++|+++.|.||+|+|||||+..++.......|.+
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            67899999999999999999988876654444444

>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=94.44  E-value=0.029  Score=52.42  Aligned_cols=42  Identities=10%  Similarity=0.042  Sum_probs=34.2

Q ss_pred             CCcEEEEE-ecCCCChhHHHHHHHHHHH------hcCCeEEEEecCCCC
Q 021239          119 KGRIVEIY-GREASGKTTLALHVIKEAQ------KLGGYCAYLDVENAL  160 (315)
Q Consensus       119 ~G~i~~i~-G~~GsGKTtlal~la~~~~------~~g~~v~~i~~E~~~  160 (315)
                      .+.++.|+ |-.|+||||++.++|...+      ..|.+|+++|++...
T Consensus       107 ~~~vIav~s~KGGvGKTT~a~nLA~~La~~~~~~~~g~rVlliD~D~q~  155 (398)
T 3ez2_A          107 EAYVIFISNLKGGVSKTVSTVSLAHAMRAHPHLLMEDLRILVIDLDPQS  155 (398)
T ss_dssp             SCEEEEECCSSSSSSHHHHHHHHHHHHHHCTTTGGGCCCEEEEEECTTC
T ss_pred             CCeEEEEEeCCCCccHHHHHHHHHHHHHhcchhhcCCCeEEEEeCCCCC
Confidence            45555555 7799999999999999988      468999999998643

>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=94.43  E-value=0.018  Score=60.11  Aligned_cols=26  Identities=31%  Similarity=0.448  Sum_probs=24.1

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHH
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIK  142 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~  142 (315)
                      +++|+++.|.||+|+|||||+..++.
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            67999999999999999999998874

>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=94.42  E-value=0.031  Score=44.88  Aligned_cols=24  Identities=29%  Similarity=0.362  Sum_probs=20.4

Q ss_pred             cEEEEEecCCCChhHHHHHHHHHH
Q 021239          121 RIVEIYGREASGKTTLALHVIKEA  144 (315)
Q Consensus       121 ~i~~i~G~~GsGKTtlal~la~~~  144 (315)
                      .+++|+||+|+|||++.-.+....
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            389999999999999987776544

>2f6r_A COA synthase, bifunctional coenzyme A synthase; 18044849, bifunctional coenzyme A synthase (COA synthase), S genomics; HET: ACO UNL; 1.70A {Mus musculus}

Probab=94.37  E-value=0.025  Score=50.44  Aligned_cols=22  Identities=23%  Similarity=0.329  Sum_probs=20.1

Q ss_pred             CcEEEEEecCCCChhHHHHHHH
Q 021239          120 GRIVEIYGREASGKTTLALHVI  141 (315)
Q Consensus       120 G~i~~i~G~~GsGKTtlal~la  141 (315)
                      ..++.|+|++||||||++..++
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

>3ez9_A Para; DNA binding, winged-HTH, partition, biosynthetic protein; 2.80A {Salmonella enterica subsp} PDB: 3ezf_A

Probab=94.35  E-value=0.024  Score=53.03  Aligned_cols=42  Identities=7%  Similarity=0.058  Sum_probs=26.7

Q ss_pred             CCcEEEEE-ecCCCChhHHHHHHHHHHH------hcCCeEEEEecCCCC
Q 021239          119 KGRIVEIY-GREASGKTTLALHVIKEAQ------KLGGYCAYLDVENAL  160 (315)
Q Consensus       119 ~G~i~~i~-G~~GsGKTtlal~la~~~~------~~g~~v~~i~~E~~~  160 (315)
                      .+.++.|+ |-.|+||||++.++|..++      ..|.+|+++|++...
T Consensus       110 ~~~vIav~s~KGGvGKTT~a~nLA~~LA~~g~~~~~g~rVlliD~D~~~  158 (403)
T 3ez9_A          110 SPYVIFVVNLKGGVSKTVSTVTLAHALRVHQDLLRHDLRILVIDLDPQA  158 (403)
T ss_dssp             SCEEEEECCC--------CHHHHHHHHHSCGGGGGGCCCEEEEEESSSS
T ss_pred             CceEEEEEcCCCCchHHHHHHHHHHHHHhcchhhcCCCeEEEEeCCCCC
Confidence            45555555 7799999999999999988      579999999998543

>2ga8_A Hypothetical 39.9 kDa protein; YFR007W, YFH7, unknown function; HET: CME; 1.77A {Saccharomyces cerevisiae} PDB: 2gaa_A*

Probab=94.31  E-value=0.028  Score=52.02  Aligned_cols=28  Identities=25%  Similarity=0.278  Sum_probs=22.8

Q ss_pred             CCCcE--EEEEecCCCChhHHHHHHHHHHH
Q 021239          118 PKGRI--VEIYGREASGKTTLALHVIKEAQ  145 (315)
Q Consensus       118 ~~G~i--~~i~G~~GsGKTtlal~la~~~~  145 (315)
                      ++|..  +.|.|++|+||||++..++....
T Consensus        20 ~~g~~~~i~l~G~~G~GKTTl~~~la~~l~   49 (359)
T 2ga8_A           20 EDNYRVCVILVGSPGSGKSTIAEELCQIIN   49 (359)
T ss_dssp             TTCSCEEEEEECCTTSSHHHHHHHHHHHHH
T ss_pred             ccCCeeEEEEECCCCCcHHHHHHHHHHHhC
Confidence            34555  99999999999999998887653

>2xzl_A ATP-dependent helicase NAM7; hydrolase-RNA complex, NMD, RNA degradation, allosteric REGU; HET: ADP 1PE; 2.40A {Saccharomyces cerevisiae}

Probab=94.28  E-value=0.027  Score=57.77  Aligned_cols=43  Identities=16%  Similarity=0.091  Sum_probs=34.0

Q ss_pred             CcEEEEEecCCCChhHHHHHHHHHHHh-cCCeEEEEecCCCCCh
Q 021239          120 GRIVEIYGREASGKTTLALHVIKEAQK-LGGYCAYLDVENALDP  162 (315)
Q Consensus       120 G~i~~i~G~~GsGKTtlal~la~~~~~-~g~~v~~i~~E~~~~~  162 (315)
                      +.+++|.||||+|||+++..++..+.. .+.++++...-+....
T Consensus       375 ~~~~lI~GppGTGKT~~i~~~i~~l~~~~~~~ILv~a~tn~A~d  418 (802)
T 2xzl_A          375 RPLSLIQGPPGTGKTVTSATIVYHLSKIHKDRILVCAPSNVAVD  418 (802)
T ss_dssp             CSEEEEECSTTSSHHHHHHHHHHHHHHHHCCCEEEEESSHHHHH
T ss_pred             CCCEEEECCCCCCHHHHHHHHHHHHHhCCCCeEEEEcCcHHHHH
Confidence            458999999999999999888877765 5778888876554433

>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=94.24  E-value=0.029  Score=57.49  Aligned_cols=41  Identities=17%  Similarity=0.153  Sum_probs=32.8

Q ss_pred             CcEEEEEecCCCChhHHHHHHHHHHHh-cCCeEEEEecCCCC
Q 021239          120 GRIVEIYGREASGKTTLALHVIKEAQK-LGGYCAYLDVENAL  160 (315)
Q Consensus       120 G~i~~i~G~~GsGKTtlal~la~~~~~-~g~~v~~i~~E~~~  160 (315)
                      +.+++|.||||+|||+++..++..... .+.+++....-+..
T Consensus       371 ~~~~lI~GppGTGKT~ti~~~i~~l~~~~~~~ilv~a~tn~A  412 (800)
T 2wjy_A          371 RPLSLIQGPPGTGKTVTSATIVYHLARQGNGPVLVCAPSNIA  412 (800)
T ss_dssp             SSEEEEECCTTSCHHHHHHHHHHHHHTTCSSCEEEEESSHHH
T ss_pred             CCeEEEEcCCCCCHHHHHHHHHHHHHHcCCCcEEEEcCcHHH
Confidence            458999999999999999998888776 56788777654433

>2gj8_A MNME, tRNA modification GTPase TRME; G-domain dimer, alpha-beta-sandwich, hydrolase; HET: GDP; 1.70A {Escherichia coli BL21} SCOP: c.37.1.8 PDB: 2gj9_A* 2gja_A* 1rfl_A

Probab=94.20  E-value=0.029  Score=45.65  Aligned_cols=24  Identities=33%  Similarity=0.418  Sum_probs=20.6

Q ss_pred             CCcEEEEEecCCCChhHHHHHHHH
Q 021239          119 KGRIVEIYGREASGKTTLALHVIK  142 (315)
Q Consensus       119 ~G~i~~i~G~~GsGKTtlal~la~  142 (315)
                      +|.-+.|.|++|+|||||...++.
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            567899999999999999988864

>2ocp_A DGK, deoxyguanosine kinase; protein-nucleotide complex, transferase; HET: DTP; 2.80A {Homo sapiens} SCOP: c.37.1.1

Probab=94.11  E-value=0.034  Score=47.99  Aligned_cols=26  Identities=31%  Similarity=0.290  Sum_probs=22.6

Q ss_pred             CCcEEEEEecCCCChhHHHHHHHHHH
Q 021239          119 KGRIVEIYGREASGKTTLALHVIKEA  144 (315)
Q Consensus       119 ~G~i~~i~G~~GsGKTtlal~la~~~  144 (315)
                      +|.++.|.|.+|+||||++..++...
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            36789999999999999998887664

>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=94.10  E-value=0.17  Score=51.62  Aligned_cols=38  Identities=21%  Similarity=0.190  Sum_probs=27.6

Q ss_pred             CCCcEEEEEecCCCChhHHHHHHHHHHHh-c--CCeEEEEe
Q 021239          118 PKGRIVEIYGREASGKTTLALHVIKEAQK-L--GGYCAYLD  155 (315)
Q Consensus       118 ~~G~i~~i~G~~GsGKTtlal~la~~~~~-~--g~~v~~i~  155 (315)
                      ..|+.+++.||+|+|||+++-.++..... .  +..++++.
T Consensus       107 ~~~~~vii~gpTGSGKTtllp~ll~~~~~~~~~g~~ilvl~  147 (773)
T 2xau_A          107 QNNQIMVFVGETGSGKTTQIPQFVLFDEMPHLENTQVACTQ  147 (773)
T ss_dssp             HHCSEEEEECCTTSSHHHHHHHHHHHHHCGGGGTCEEEEEE
T ss_pred             hCCCeEEEECCCCCCHHHHHHHHHHHhccccCCCceEEecC
Confidence            35789999999999999977776554432 2  45577665

>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=94.09  E-value=0.062  Score=46.16  Aligned_cols=86  Identities=19%  Similarity=0.175  Sum_probs=49.1

Q ss_pred             CCcEEEEEecCCCChhHHHHHHHHHHHh-cC----CeEEEEecCCCCChHH----HHHcCCCCC----------------
Q 021239          119 KGRIVEIYGREASGKTTLALHVIKEAQK-LG----GYCAYLDVENALDPSL----AEAMGIDAE----------------  173 (315)
Q Consensus       119 ~G~i~~i~G~~GsGKTtlal~la~~~~~-~g----~~v~~i~~E~~~~~~~----~~~~g~~~~----------------  173 (315)
                      .|+.+++.|++|+|||++...++..... .+    ..+++...........    ++.++....                
T Consensus        75 ~g~~~~i~g~TGsGKTt~~~~~~~~~~~~~~~~~~~~~l~~~p~~~la~q~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~  154 (235)
T 3llm_A           75 QNSVVIIRGATGCGKTTQVPQFILDDFIQNDRAAECNIVVTQPRRISAVSVAERVAFERGEEPGKSCGYSVRFESILPRP  154 (235)
T ss_dssp             HCSEEEEECCTTSSHHHHHHHHHHHHHHHTTCGGGCEEEEEESSHHHHHHHHHHHHHTTTCCTTSSEEEEETTEEECCCS
T ss_pred             cCCEEEEEeCCCCCcHHhHHHHHhcchhhcCCCCceEEEEeccchHHHHHHHHHHHHHhccccCceEEEeechhhccCCC
Confidence            4789999999999999887776655432 22    2666665422221112    222232211                


Q ss_pred             --CeEEeCCCCHHHHHHHHHHHHHcCCccEEeehhHhh
Q 021239          174 --NLLIAQPDSAENLLSVVDTLTKSGSIDVIVVDSVAA  209 (315)
Q Consensus       174 --~l~i~~~~~~e~~~~~i~~l~~~~~~~lVVIDsl~~  209 (315)
                        ++.+   .+...+...+...  -.++++||||....
T Consensus       155 ~~~Ivv---~Tpg~l~~~l~~~--l~~~~~lVlDEah~  187 (235)
T 3llm_A          155 HASIMF---CTVGVLLRKLEAG--IRGISHVIVDEIHE  187 (235)
T ss_dssp             SSEEEE---EEHHHHHHHHHHC--CTTCCEEEECCTTS
T ss_pred             CCeEEE---ECHHHHHHHHHhh--hcCCcEEEEECCcc
Confidence              1222   1345555555442  35789999998875

>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=94.09  E-value=0.029  Score=46.46  Aligned_cols=23  Identities=22%  Similarity=0.345  Sum_probs=20.1

Q ss_pred             EEEEEecCCCChhHHHHHHHHHH
Q 021239          122 IVEIYGREASGKTTLALHVIKEA  144 (315)
Q Consensus       122 i~~i~G~~GsGKTtlal~la~~~  144 (315)
                      .+.|.|++|+|||||+..++...
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            58999999999999999887643

>3tmk_A Thymidylate kinase; phosphotransferase; HET: T5A; 2.00A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 2tmk_A* 1tmk_A*

Probab=94.09  E-value=0.042  Score=47.13  Aligned_cols=29  Identities=31%  Similarity=0.434  Sum_probs=25.2

Q ss_pred             CCCcEEEEEecCCCChhHHHHHHHHHHHh
Q 021239          118 PKGRIVEIYGREASGKTTLALHVIKEAQK  146 (315)
Q Consensus       118 ~~G~i~~i~G~~GsGKTtlal~la~~~~~  146 (315)
                      .+|.++.|.|++|+||||.+..++.....
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            46899999999999999999888877643

>1e69_A Chromosome segregation SMC protein; structural maintenance of chromosomes, coiled coil; 3.1A {Thermotoga maritima} SCOP: c.37.1.12

Probab=94.08  E-value=0.029  Score=50.88  Aligned_cols=25  Identities=20%  Similarity=0.318  Sum_probs=21.4

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHH
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIK  142 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~  142 (315)
                      +.+| ++.|+|++|+|||+++-.+..
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            3456 999999999999999988764

>2f9l_A RAB11B, member RAS oncogene family; RAB11B GTPase, vesicle transport, hydrolase; HET: GDP; 1.55A {Homo sapiens} SCOP: c.37.1.8 PDB: 2f9m_A* 1yzk_A* 2hv8_A* 2gzd_A* 2gzh_A* 2d7c_A* 3bfk_A*

Probab=93.93  E-value=0.031  Score=46.47  Aligned_cols=22  Identities=23%  Similarity=0.360  Sum_probs=19.5

Q ss_pred             EEEEEecCCCChhHHHHHHHHH
Q 021239          122 IVEIYGREASGKTTLALHVIKE  143 (315)
Q Consensus       122 i~~i~G~~GsGKTtlal~la~~  143 (315)
                      -+.|.|++|+|||||+..++..
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            4789999999999999998765

>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=93.93  E-value=0.074  Score=49.81  Aligned_cols=26  Identities=31%  Similarity=0.229  Sum_probs=21.9

Q ss_pred             cEEEEEecCCCChhHHHHHHHHHHHh
Q 021239          121 RIVEIYGREASGKTTLALHVIKEAQK  146 (315)
Q Consensus       121 ~i~~i~G~~GsGKTtlal~la~~~~~  146 (315)
                      -.+.+.|.+++|||||+..+......
T Consensus        12 ~~I~iiG~~~~GKSTLi~~L~~~~~~   37 (405)
T 2c78_A           12 VNVGTIGHVDHGKTTLTAALTYVAAA   37 (405)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHHHH
T ss_pred             EEEEEEcCCCCCHHHHHHHHHhhhhh
Confidence            45899999999999999999876443

>3hjn_A DTMP kinase, thymidylate kinase; ATP-binding, nucleotide biosynth nucleotide-binding, transferase, structural genomics; HET: ADP TYD; 2.10A {Thermotoga maritima}

Probab=93.93  E-value=0.084  Score=44.39  Aligned_cols=35  Identities=20%  Similarity=0.187  Sum_probs=30.2

Q ss_pred             EEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEec
Q 021239          122 IVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDV  156 (315)
Q Consensus       122 i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~  156 (315)
                      ++.|-|..||||||.+..++......|.+|++...
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            57889999999999999998888888888876654

>4hlc_A DTMP kinase, thymidylate kinase; TMK, MRSA, pipiridine, transfera transferase inhibitor complex; HET: T05; 1.55A {Staphylococcus aureus subsp} PDB: 2cck_A 4gfd_A* 4gsy_A* 4hdc_A* 4hej_A* 2ccj_A* 4hld_A* 2ccg_A*

Probab=93.92  E-value=0.057  Score=45.81  Aligned_cols=35  Identities=23%  Similarity=0.163  Sum_probs=27.9

Q ss_pred             CcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEe
Q 021239          120 GRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLD  155 (315)
Q Consensus       120 G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~  155 (315)
                      |.++.|-|..||||||.+..++.... .|.+|++..
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            56899999999999999988877664 566776544

>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=93.88  E-value=0.18  Score=44.17  Aligned_cols=89  Identities=16%  Similarity=0.238  Sum_probs=55.4

Q ss_pred             cEEEEEec-CCCChhHHHHHHHHHHHhcCCeEEEEec-----C-CCCChH-HHHHcCCCC-CCeEEeCC-----------
Q 021239          121 RIVEIYGR-EASGKTTLALHVIKEAQKLGGYCAYLDV-----E-NALDPS-LAEAMGIDA-ENLLIAQP-----------  180 (315)
Q Consensus       121 ~i~~i~G~-~GsGKTtlal~la~~~~~~g~~v~~i~~-----E-~~~~~~-~~~~~g~~~-~~l~i~~~-----------  180 (315)
                      ..+.|+|. +|+|||+++..++....++|.+|.||-.     . ...+.. ..+..|... .+.+....           
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            45667776 6999999999999999999999999862     1 112222 233345432 23332221           


Q ss_pred             ----CCHHHHHHHHHHHHHcCCccEEeehhHhhhc
Q 021239          181 ----DSAENLLSVVDTLTKSGSIDVIVVDSVAALI  211 (315)
Q Consensus       181 ----~~~e~~~~~i~~l~~~~~~~lVVIDsl~~l~  211 (315)
                          ...+++.+.+.++  ..+.+++|||....++
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                1233444444333  3468999999988776

>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=93.87  E-value=0.038  Score=51.18  Aligned_cols=25  Identities=36%  Similarity=0.671  Sum_probs=22.1

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHH
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIK  142 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~  142 (315)
                      +++| ++.|+||+|+||||+...+..
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            4577 999999999999999988875

>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=93.81  E-value=0.039  Score=52.13  Aligned_cols=27  Identities=19%  Similarity=0.265  Sum_probs=23.1

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHH
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKE  143 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~  143 (315)
                      +.+|.++.|.||+|+||||++..++..
T Consensus        23 ~~~~~~~~i~G~nG~GKstll~ai~~~   49 (430)
T 1w1w_A           23 FGESNFTSIIGPNGSGKSNMMDAISFV   49 (430)
T ss_dssp             CTTCSEEEEECSTTSSHHHHHHHHHHH
T ss_pred             ecCCCEEEEECCCCCCHHHHHHHHHhh
Confidence            346889999999999999999887754

>3nbx_X ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structure, rossman fold, hydro; HET: ADP; 2.91A {Escherichia coli}

Probab=93.73  E-value=0.025  Score=54.74  Aligned_cols=38  Identities=18%  Similarity=0.154  Sum_probs=27.2

Q ss_pred             CCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecC
Q 021239          119 KGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVE  157 (315)
Q Consensus       119 ~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E  157 (315)
                      .|.-++|+||||+|||++|..++... ..+....++...
T Consensus        40 ~~~~VLL~GpPGtGKT~LAraLa~~l-~~~~~f~~~~~~   77 (500)
T 3nbx_X           40 SGESVFLLGPPGIAKSLIARRLKFAF-QNARAFEYLMTR   77 (500)
T ss_dssp             HTCEEEEECCSSSSHHHHHHHGGGGB-SSCCEEEEECCT
T ss_pred             cCCeeEeecCchHHHHHHHHHHHHHH-hhhhHHHHHHHh
Confidence            45589999999999999998887655 223444455543

>4aby_A DNA repair protein RECN; hydrolase, double strand break repair, ATPase, nucleotide binding domain; HET: DNA; 3.00A {Deinococcus radiodurans}

Probab=93.72  E-value=0.014  Score=54.56  Aligned_cols=28  Identities=18%  Similarity=0.189  Sum_probs=23.4

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHH
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEA  144 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~  144 (315)
                      -+.+| ++.|+|++|+|||||+..+....
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            36789 99999999999999997765443

>1g41_A Heat shock protein HSLU; AAA-ATPase, CLPY, ATP-dependent proteolysis, chaperone; HET: ADP; 2.30A {Haemophilus influenzae} SCOP: c.37.1.20 PDB: 1g3i_A* 1im2_A* 1kyi_A* 1g4a_E* 1g4b_E 1yyf_A* 1do0_A* 1do2_A* 1e94_E* 1hqy_E* 1ht1_E* 1ht2_E*

Probab=93.71  E-value=0.032  Score=53.14  Aligned_cols=31  Identities=23%  Similarity=0.245  Sum_probs=24.1

Q ss_pred             EEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEe
Q 021239          122 IVEIYGREASGKTTLALHVIKEAQKLGGYCAYLD  155 (315)
Q Consensus       122 i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~  155 (315)
                      -++++||||+|||+++..+|...   +.+.+.++
T Consensus        52 ~iLl~GppGtGKT~lar~lA~~l---~~~~~~v~   82 (444)
T 1g41_A           52 NILMIGPTGVGKTEIARRLAKLA---NAPFIKVE   82 (444)
T ss_dssp             CEEEECCTTSSHHHHHHHHHHHT---TCCEEEEE
T ss_pred             eEEEEcCCCCCHHHHHHHHHHHc---CCCceeec
Confidence            48899999999999999988765   33444444

>2wji_A Ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GNP; 1.90A {Methanocaldococcus jannaschii} PDB: 2wjj_A* 2wjh_A*

Probab=93.70  E-value=0.035  Score=44.59  Aligned_cols=21  Identities=19%  Similarity=0.290  Sum_probs=18.8

Q ss_pred             EEEEEecCCCChhHHHHHHHH
Q 021239          122 IVEIYGREASGKTTLALHVIK  142 (315)
Q Consensus       122 i~~i~G~~GsGKTtlal~la~  142 (315)
                      .+.|.|++|+|||||...++.
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            578999999999999998864

>3dkp_A Probable ATP-dependent RNA helicase DDX52; DEAD, ADP, structural genomics, structural GEN consortium, SGC, rRNA, ATP-binding, hydrolase; HET: ADP; 2.10A {Homo sapiens}

Probab=93.66  E-value=0.052  Score=46.67  Aligned_cols=44  Identities=23%  Similarity=0.099  Sum_probs=29.1

Q ss_pred             HHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHh----cCCeEEEEec
Q 021239          107 KLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQK----LGGYCAYLDV  156 (315)
Q Consensus       107 ~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~----~g~~v~~i~~  156 (315)
                      .++.++.      |.-+++.+|+|+|||......+.....    .+.+++|+..
T Consensus        59 ~i~~~~~------~~~~l~~a~TGsGKT~~~~l~~l~~l~~~~~~~~~~lil~P  106 (245)
T 3dkp_A           59 AIPVMLH------GRELLASAPTGSGKTLAFSIPILMQLKQPANKGFRALIISP  106 (245)
T ss_dssp             HHHHHHT------TCCEEEECCTTSCHHHHHHHHHHHHHCSCCSSSCCEEEECS
T ss_pred             HHHHHhC------CCCEEEECCCCCcHHHHHHHHHHHHHhhcccCCceEEEEeC
Confidence            3455565      244899999999999875554444433    3457888773

>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=93.54  E-value=0.072  Score=52.77  Aligned_cols=36  Identities=22%  Similarity=0.176  Sum_probs=28.3

Q ss_pred             CcEEEEEecCCCChhHHHHHHHHHHHh----cCCeEEEEe
Q 021239          120 GRIVEIYGREASGKTTLALHVIKEAQK----LGGYCAYLD  155 (315)
Q Consensus       120 G~i~~i~G~~GsGKTtlal~la~~~~~----~g~~v~~i~  155 (315)
                      +.+++|.|+||+||||++..++..+..    .+.+++...
T Consensus       164 ~~~~vi~G~pGTGKTt~l~~ll~~l~~~~~~~~~~vll~A  203 (608)
T 1w36_D          164 RRISVISGGPGTGKTTTVAKLLAALIQMADGERCRIRLAA  203 (608)
T ss_dssp             BSEEEEECCTTSTHHHHHHHHHHHHHHTCSSCCCCEEEEB
T ss_pred             CCCEEEEeCCCCCHHHHHHHHHHHHHHhhhcCCCeEEEEe
Confidence            679999999999999999888777663    344666554

>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=93.43  E-value=0.056  Score=52.42  Aligned_cols=40  Identities=13%  Similarity=0.228  Sum_probs=32.9

Q ss_pred             CCcEEEEEecCCCChhHHHHHHHHHHHh-cC-CeEEEEecCC
Q 021239          119 KGRIVEIYGREASGKTTLALHVIKEAQK-LG-GYCAYLDVEN  158 (315)
Q Consensus       119 ~G~i~~i~G~~GsGKTtlal~la~~~~~-~g-~~v~~i~~E~  158 (315)
                      .|.++.|.|.+||||||++..++..... .| ..+.|++.+.
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            5779999999999999999999988875 43 4566777665

>2zej_A Dardarin, leucine-rich repeat kinase 2; parkinson'S disease, LRRK2, ROC, GTPase, ROCO, ATP-B disease mutation, GTP-binding, GTPase activation; HET: GDP; 2.00A {Homo sapiens} PDB: 3d6t_B*

Probab=93.41  E-value=0.033  Score=45.60  Aligned_cols=21  Identities=43%  Similarity=0.553  Sum_probs=18.6

Q ss_pred             EEEEEecCCCChhHHHHHHHH
Q 021239          122 IVEIYGREASGKTTLALHVIK  142 (315)
Q Consensus       122 i~~i~G~~GsGKTtlal~la~  142 (315)
                      -+.|.|++|+|||||+..++.
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            378999999999999998875

>2hjg_A GTP-binding protein ENGA; GTPase ENGA KH-domain, hydrolase; HET: GDP; 2.50A {Bacillus subtilis}

Probab=93.30  E-value=0.082  Score=50.03  Aligned_cols=20  Identities=35%  Similarity=0.552  Sum_probs=18.1

Q ss_pred             EEEEEecCCCChhHHHHHHH
Q 021239          122 IVEIYGREASGKTTLALHVI  141 (315)
Q Consensus       122 i~~i~G~~GsGKTtlal~la  141 (315)
                      .+.|.|+||+|||||...++
T Consensus         5 ~V~ivG~~nvGKStL~n~l~   24 (436)
T 2hjg_A            5 VVAIVGRPNVGKSTIFNRIA   24 (436)
T ss_dssp             EEEEECSTTSSHHHHHHHHE
T ss_pred             EEEEECCCCCCHHHHHHHHh
Confidence            58999999999999998875

>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=93.21  E-value=0.048  Score=43.28  Aligned_cols=22  Identities=23%  Similarity=0.321  Sum_probs=19.1

Q ss_pred             EEEEEecCCCChhHHHHHHHHH
Q 021239          122 IVEIYGREASGKTTLALHVIKE  143 (315)
Q Consensus       122 i~~i~G~~GsGKTtlal~la~~  143 (315)
                      -+++.|++|+|||||+..+...
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            4789999999999999988753

>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=93.17  E-value=0.061  Score=45.41  Aligned_cols=24  Identities=29%  Similarity=0.362  Sum_probs=20.3

Q ss_pred             cEEEEEecCCCChhHHHHHHHHHH
Q 021239          121 RIVEIYGREASGKTTLALHVIKEA  144 (315)
Q Consensus       121 ~i~~i~G~~GsGKTtlal~la~~~  144 (315)
                      .+++|+||+|+||||++-.+....
T Consensus        24 ~~~~I~G~NgsGKStil~ai~~~l   47 (203)
T 3qks_A           24 GINLIIGQNGSGKSSLLDAILVGL   47 (203)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CeEEEEcCCCCCHHHHHHHHHHHh
Confidence            499999999999999987776544

>3lfu_A DNA helicase II; SF1 helicase, ATP-binding, DNA damage, DNA REP replication, DNA-binding, hydrolase, nucleotide-B SOS response; HET: DNA; 1.80A {Escherichia coli} PDB: 2is6_A* 2is2_A* 2is1_A* 2is4_A*

Probab=93.17  E-value=0.051  Score=53.81  Aligned_cols=40  Identities=18%  Similarity=0.105  Sum_probs=31.0

Q ss_pred             CcEEEEEecCCCChhHHHHHHHHHHHhcC----CeEEEEecCCC
Q 021239          120 GRIVEIYGREASGKTTLALHVIKEAQKLG----GYCAYLDVENA  159 (315)
Q Consensus       120 G~i~~i~G~~GsGKTtlal~la~~~~~~g----~~v~~i~~E~~  159 (315)
                      ...+.|.|+||||||+.+..-+......+    .+++++.+-..
T Consensus        22 ~~~~lV~a~aGsGKT~~l~~ri~~l~~~~~~~~~~iL~ltft~~   65 (647)
T 3lfu_A           22 RSNLLVLAGAGSGKTRVLVHRIAWLMSVENCSPYSIMAVTFTNK   65 (647)
T ss_dssp             SSCEEEEECTTSCHHHHHHHHHHHHHHTSCCCGGGEEEEESSHH
T ss_pred             CCCEEEEECCCCCHHHHHHHHHHHHHHhCCCChhhEEEEeccHH
Confidence            34578999999999999988777777653    57888886443

>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=93.12  E-value=0.056  Score=42.53  Aligned_cols=22  Identities=23%  Similarity=0.504  Sum_probs=19.1

Q ss_pred             EEEEEecCCCChhHHHHHHHHH
Q 021239          122 IVEIYGREASGKTTLALHVIKE  143 (315)
Q Consensus       122 i~~i~G~~GsGKTtlal~la~~  143 (315)
                      -+++.|++|+|||||+..++..
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            3789999999999999888754

>2h92_A Cytidylate kinase; rossmann fold, transferase; HET: C5P PG4; 2.30A {Staphylococcus aureus}

Probab=93.11  E-value=0.054  Score=45.73  Aligned_cols=25  Identities=32%  Similarity=0.404  Sum_probs=21.0

Q ss_pred             CcEEEEEecCCCChhHHHHHHHHHH
Q 021239          120 GRIVEIYGREASGKTTLALHVIKEA  144 (315)
Q Consensus       120 G~i~~i~G~~GsGKTtlal~la~~~  144 (315)
                      +.++.|.|++|+||||++..++...
T Consensus         3 ~~~i~i~G~~gsGkst~~~~l~~~~   27 (219)
T 2h92_A            3 AINIALDGPAAAGKSTIAKRVASEL   27 (219)
T ss_dssp             CCCEEEECCTTSSHHHHHHHHHHHT
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHhc
Confidence            3578999999999999998876543

>2dyk_A GTP-binding protein; GTPase, ribosome-binding protein, structural genomics; HET: GDP; 1.96A {Thermus thermophilus}

Probab=93.10  E-value=0.051  Score=42.84  Aligned_cols=22  Identities=36%  Similarity=0.499  Sum_probs=18.9

Q ss_pred             EEEEEecCCCChhHHHHHHHHH
Q 021239          122 IVEIYGREASGKTTLALHVIKE  143 (315)
Q Consensus       122 i~~i~G~~GsGKTtlal~la~~  143 (315)
                      -+++.|++|+|||||+..++..
T Consensus         3 ki~v~G~~~~GKSsli~~l~~~   24 (161)
T 2dyk_A            3 KVVIVGRPNVGKSSLFNRLLKK   24 (161)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            3789999999999999988743

>2wjg_A FEOB, ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GDP; 2.20A {Methanocaldococcus jannaschii}

Probab=93.04  E-value=0.051  Score=44.25  Aligned_cols=21  Identities=19%  Similarity=0.290  Sum_probs=19.1

Q ss_pred             EEEEEecCCCChhHHHHHHHH
Q 021239          122 IVEIYGREASGKTTLALHVIK  142 (315)
Q Consensus       122 i~~i~G~~GsGKTtlal~la~  142 (315)
                      .+.|.|++|+|||||+..++.
T Consensus         9 ~i~lvG~~gvGKStL~~~l~~   29 (188)
T 2wjg_A            9 EIALIGNPNVGKSTIFNALTG   29 (188)
T ss_dssp             EEEEECSTTSSHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHhC
Confidence            588999999999999999875

>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=92.92  E-value=0.03  Score=49.09  Aligned_cols=27  Identities=22%  Similarity=0.258  Sum_probs=22.6

Q ss_pred             CCCcEEEEEecCCCChhHHHHHHHHHH
Q 021239          118 PKGRIVEIYGREASGKTTLALHVIKEA  144 (315)
Q Consensus       118 ~~G~i~~i~G~~GsGKTtlal~la~~~  144 (315)
                      .++.++.|.|.+|+||||++..++...
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            477899999999999999998776543

>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=92.92  E-value=0.055  Score=43.28  Aligned_cols=21  Identities=33%  Similarity=0.344  Sum_probs=18.4

Q ss_pred             EEEEEecCCCChhHHHHHHHH
Q 021239          122 IVEIYGREASGKTTLALHVIK  142 (315)
Q Consensus       122 i~~i~G~~GsGKTtlal~la~  142 (315)
                      -+.|.|++|+|||+|+..+..
T Consensus         6 ki~i~G~~~vGKSsl~~~l~~   26 (175)
T 2nzj_A            6 RVVLLGDPGVGKTSLASLFAG   26 (175)
T ss_dssp             EEEEECCTTSSHHHHHHHHHC
T ss_pred             EEEEECCCCccHHHHHHHHhc
Confidence            378999999999999988763

>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=92.86  E-value=0.058  Score=42.62  Aligned_cols=22  Identities=27%  Similarity=0.456  Sum_probs=18.8

Q ss_pred             EEEEEecCCCChhHHHHHHHHH
Q 021239          122 IVEIYGREASGKTTLALHVIKE  143 (315)
Q Consensus       122 i~~i~G~~GsGKTtlal~la~~  143 (315)
                      -+++.|++|+|||||+..++..
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            3789999999999999888743

>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=92.81  E-value=0.059  Score=42.91  Aligned_cols=19  Identities=37%  Similarity=0.368  Sum_probs=17.5

Q ss_pred             EEEEecCCCChhHHHHHHH
Q 021239          123 VEIYGREASGKTTLALHVI  141 (315)
Q Consensus       123 ~~i~G~~GsGKTtlal~la  141 (315)
                      +.|.|++|+|||+|+..++
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            6899999999999998875

>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=92.81  E-value=0.061  Score=42.70  Aligned_cols=20  Identities=20%  Similarity=0.481  Sum_probs=18.1

Q ss_pred             EEEEecCCCChhHHHHHHHH
Q 021239          123 VEIYGREASGKTTLALHVIK  142 (315)
Q Consensus       123 ~~i~G~~GsGKTtlal~la~  142 (315)
                      +.+.|++|+|||+|+..+..
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            78999999999999988874

>2whx_A Serine protease/ntpase/helicase NS3; transcription, hydrolase, ATP-binding, reticulum, nucleotidyltransferase, multifunctional enzyme; HET: ADP; 2.20A {Dengue virus 4} PDB: 2vbc_A 2wzq_A

Probab=92.78  E-value=0.34  Score=48.07  Aligned_cols=40  Identities=23%  Similarity=0.153  Sum_probs=32.5

Q ss_pred             CCCCcEEEEEecCCCChhHH-HHHHHHHHHhcCCeEEEEec
Q 021239          117 LPKGRIVEIYGREASGKTTL-ALHVIKEAQKLGGYCAYLDV  156 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtl-al~la~~~~~~g~~v~~i~~  156 (315)
                      +..|..+++.+++|+|||+. ++.++..+...+.+++|+..
T Consensus       183 l~~g~dvlv~a~TGSGKT~~~~lpil~~l~~~~~~vLvl~P  223 (618)
T 2whx_A          183 FRKKRLTIMDLHPGAGKTKRILPSIVREALKRRLRTLILAP  223 (618)
T ss_dssp             GSTTCEEEECCCTTSSTTTTHHHHHHHHHHHTTCCEEEEES
T ss_pred             HhcCCeEEEEcCCCCCHHHHHHHHHHHHHHhCCCeEEEEcC
Confidence            34588999999999999996 57777777677778998883

>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=92.74  E-value=0.07  Score=42.23  Aligned_cols=21  Identities=29%  Similarity=0.415  Sum_probs=18.6

Q ss_pred             EEEEecCCCChhHHHHHHHHH
Q 021239          123 VEIYGREASGKTTLALHVIKE  143 (315)
Q Consensus       123 ~~i~G~~GsGKTtlal~la~~  143 (315)
                      +++.|++|+|||+|+..+...
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            689999999999999988754

>3of5_A Dethiobiotin synthetase; structural genomics, center for structural genomics of infec diseases, csgid, ligase; 1.52A {Francisella tularensis subsp}

Probab=92.73  E-value=0.13  Score=44.38  Aligned_cols=34  Identities=21%  Similarity=0.191  Sum_probs=30.4

Q ss_pred             EEEEEec-CCCChhHHHHHHHHHHHhcCCeEEEEe
Q 021239          122 IVEIYGR-EASGKTTLALHVIKEAQKLGGYCAYLD  155 (315)
Q Consensus       122 i~~i~G~-~GsGKTtlal~la~~~~~~g~~v~~i~  155 (315)
                      .+.|+|. +|+|||+++..++..+.++|.+|.|+-
T Consensus         6 ~i~Itgt~t~vGKT~vt~~L~~~l~~~G~~V~~~K   40 (228)
T 3of5_A            6 KFFIIGTDTEVGKTYISTKLIEVCEHQNIKSLCLK   40 (228)
T ss_dssp             EEEEEESSSSSCHHHHHHHHHHHHHHTTCCEEEEC
T ss_pred             EEEEEeCCCCCCHHHHHHHHHHHHHHCCCeeEEec
Confidence            4667776 999999999999999999999999985

>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=92.72  E-value=0.066  Score=42.43  Aligned_cols=22  Identities=23%  Similarity=0.508  Sum_probs=19.0

Q ss_pred             EEEEEecCCCChhHHHHHHHHH
Q 021239          122 IVEIYGREASGKTTLALHVIKE  143 (315)
Q Consensus       122 i~~i~G~~GsGKTtlal~la~~  143 (315)
                      -+++.|++|+|||+|+..+...
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            3789999999999999888754

>2erx_A GTP-binding protein DI-RAS2; GTP hydrolysis, transport protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8

Probab=92.72  E-value=0.061  Score=42.71  Aligned_cols=21  Identities=33%  Similarity=0.664  Sum_probs=18.5

Q ss_pred             EEEEEecCCCChhHHHHHHHH
Q 021239          122 IVEIYGREASGKTTLALHVIK  142 (315)
Q Consensus       122 i~~i~G~~GsGKTtlal~la~  142 (315)
                      -+.+.|++|+|||||+..++.
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            478999999999999988864

>2ged_A SR-beta, signal recognition particle receptor beta subunit; protein transport, G protein, proline isomerization, circular permutation; 2.20A {Saccharomyces cerevisiae}

Probab=92.66  E-value=0.066  Score=43.84  Aligned_cols=24  Identities=29%  Similarity=0.351  Sum_probs=20.4

Q ss_pred             CcEEEEEecCCCChhHHHHHHHHH
Q 021239          120 GRIVEIYGREASGKTTLALHVIKE  143 (315)
Q Consensus       120 G~i~~i~G~~GsGKTtlal~la~~  143 (315)
                      .--++|.|++|+|||||+..++..
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            346899999999999999888654

>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=92.58  E-value=0.065  Score=43.00  Aligned_cols=22  Identities=23%  Similarity=0.351  Sum_probs=19.0

Q ss_pred             EEEEEecCCCChhHHHHHHHHH
Q 021239          122 IVEIYGREASGKTTLALHVIKE  143 (315)
Q Consensus       122 i~~i~G~~GsGKTtlal~la~~  143 (315)
                      -++|.|++|+|||||+..+...
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            4789999999999999888643

>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=92.57  E-value=0.07  Score=42.43  Aligned_cols=22  Identities=32%  Similarity=0.460  Sum_probs=19.2

Q ss_pred             EEEEEecCCCChhHHHHHHHHH
Q 021239          122 IVEIYGREASGKTTLALHVIKE  143 (315)
Q Consensus       122 i~~i~G~~GsGKTtlal~la~~  143 (315)
                      -+++.|++|+|||||+..+...
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            4789999999999999888754

>1c1y_A RAS-related protein RAP-1A; GTP-binding proteins, protein-protein complex, effectors, signaling protein; HET: GTP; 1.90A {Homo sapiens} SCOP: c.37.1.8 PDB: 3kuc_A* 1gua_A* 3cf6_R* 3brw_D*

Probab=92.53  E-value=0.068  Score=42.30  Aligned_cols=22  Identities=18%  Similarity=0.446  Sum_probs=18.8

Q ss_pred             EEEEEecCCCChhHHHHHHHHH
Q 021239          122 IVEIYGREASGKTTLALHVIKE  143 (315)
Q Consensus       122 i~~i~G~~GsGKTtlal~la~~  143 (315)
                      -+.+.|++|+|||||+..+...
T Consensus         5 ki~v~G~~~~GKssli~~l~~~   26 (167)
T 1c1y_A            5 KLVVLGSGGVGKSALTVQFVQG   26 (167)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHcC
Confidence            3789999999999999888753

>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=92.52  E-value=0.067  Score=43.00  Aligned_cols=22  Identities=32%  Similarity=0.454  Sum_probs=19.1

Q ss_pred             EEEEEecCCCChhHHHHHHHHH
Q 021239          122 IVEIYGREASGKTTLALHVIKE  143 (315)
Q Consensus       122 i~~i~G~~GsGKTtlal~la~~  143 (315)
                      -+.+.|++|+|||||+..+...
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            4789999999999999888653

>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=92.52  E-value=0.072  Score=42.26  Aligned_cols=22  Identities=18%  Similarity=0.436  Sum_probs=19.2

Q ss_pred             EEEEEecCCCChhHHHHHHHHH
Q 021239          122 IVEIYGREASGKTTLALHVIKE  143 (315)
Q Consensus       122 i~~i~G~~GsGKTtlal~la~~  143 (315)
                      -+++.|++|+|||+|+..+...
T Consensus         8 ~i~v~G~~~~GKSsli~~l~~~   29 (170)
T 1z0j_A            8 KVCLLGDTGVGKSSIMWRFVED   29 (170)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECcCCCCHHHHHHHHHcC
Confidence            4789999999999999988654

>2va8_A SSO2462, SKI2-type helicase; hydrolase, DNA repair, ATP-bindin nucleotide-binding; 2.30A {Sulfolobus solfataricus}

Probab=92.48  E-value=0.13  Score=51.63  Aligned_cols=93  Identities=24%  Similarity=0.266  Sum_probs=56.8

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHh-cCCeEEEEecCCCCChHHHHH------cCCCCC---------------
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQK-LGGYCAYLDVENALDPSLAEA------MGIDAE---------------  173 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~-~g~~v~~i~~E~~~~~~~~~~------~g~~~~---------------  173 (315)
                      ++..|..++++||+|+|||+.+...+..... .+.+++|+..-.......++.      +|+...               
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            4556889999999999999999877766554 688999988433222222222      232210               


Q ss_pred             -CeEEeCCCCHHHHHHHHHHHHH-cCCccEEeehhHhhhc
Q 021239          174 -NLLIAQPDSAENLLSVVDTLTK-SGSIDVIVVDSVAALI  211 (315)
Q Consensus       174 -~l~i~~~~~~e~~~~~i~~l~~-~~~~~lVVIDsl~~l~  211 (315)
                       ++.+.   +.+.+...++.-.. -.++++||||....+.
T Consensus       122 ~~Iiv~---Tpe~l~~~~~~~~~~l~~~~~vIiDE~H~l~  158 (715)
T 2va8_A          122 YDIIIT---TYEKLDSLWRHRPEWLNEVNYFVLDELHYLN  158 (715)
T ss_dssp             CSEEEE---CHHHHHHHHHHCCGGGGGEEEEEECSGGGGG
T ss_pred             CCEEEE---cHHHHHHHHhCChhHhhccCEEEEechhhcC
Confidence             12221   44555554443211 2357899999998764

>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=92.46  E-value=0.092  Score=49.17  Aligned_cols=28  Identities=25%  Similarity=0.240  Sum_probs=25.6

Q ss_pred             CCCCCCcEEEEEecCCCChhHHHHHHHH
Q 021239          115 GGLPKGRIVEIYGREASGKTTLALHVIK  142 (315)
Q Consensus       115 GGl~~G~i~~i~G~~GsGKTtlal~la~  142 (315)
                      |=++.|..+.|.|+||+|||||...++.
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            4778899999999999999999999887

>3pih_A Uvrabc system protein A; hydrolase, ABC ATPase, DNA repair, nucleotide excision repai hydrolase-DNA complex; HET: DNA; 2.90A {Thermotoga maritima}

Probab=92.41  E-value=0.063  Score=55.66  Aligned_cols=23  Identities=35%  Similarity=0.625  Sum_probs=20.8

Q ss_pred             CCCCcEEEEEecCCCChhHHHHH
Q 021239          117 LPKGRIVEIYGREASGKTTLALH  139 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~  139 (315)
                      +++|+++.|.|++|+|||||+..
T Consensus       607 I~~Geiv~I~G~SGSGKSTLl~~  629 (916)
T 3pih_A          607 IPLGVFVCVTGVSGSGKSSLVME  629 (916)
T ss_dssp             EESSSEEEEECSTTSSHHHHHHH
T ss_pred             EcCCcEEEEEccCCCChhhhHHH
Confidence            67899999999999999999753

>1r2q_A RAS-related protein RAB-5A; GTPase, GNP, atomic resolution, protein transport; HET: GNP; 1.05A {Homo sapiens} SCOP: c.37.1.8 PDB: 1n6h_A* 1tu4_A* 1tu3_A* 1n6k_A* 1n6i_A* 1n6l_A* 1n6o_A* 1n6p_A* 1n6n_A* 1n6r_A* 3mjh_A* 1z0d_A* 1huq_A* 2hei_A* 1z07_A*

Probab=92.39  E-value=0.077  Score=42.02  Aligned_cols=22  Identities=32%  Similarity=0.551  Sum_probs=19.0

Q ss_pred             EEEEEecCCCChhHHHHHHHHH
Q 021239          122 IVEIYGREASGKTTLALHVIKE  143 (315)
Q Consensus       122 i~~i~G~~GsGKTtlal~la~~  143 (315)
                      -+.+.|++|+|||+|+..++..
T Consensus         8 ~i~v~G~~~~GKssli~~l~~~   29 (170)
T 1r2q_A            8 KLVLLGESAVGKSSLVLRFVKG   29 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHcC
Confidence            3789999999999999888753

---

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	315
d1mo6a1	269	c.37.1.11 (A:1-269) RecA protein, ATPase-domain {M	2e-69
d1xp8a1	268	c.37.1.11 (A:15-282) RecA protein, ATPase-domain {	3e-69
d1u94a1	263	c.37.1.11 (A:6-268) RecA protein, ATPase-domain {E	5e-67
d1v5wa_	258	c.37.1.11 (A:) Meiotic recombination protein DMC1/	3e-26
d1szpa2	251	c.37.1.11 (A:145-395) DNA repair protein Rad51, ca	5e-26
d1pzna2	254	c.37.1.11 (A:96-349) DNA repair protein Rad51, cat	3e-25
d2i1qa2	258	c.37.1.11 (A:65-322) DNA repair protein Rad51, cat	4e-22
d1n0wa_	242	c.37.1.11 (A:) DNA repair protein Rad51, catalytic	2e-19
d1tf7a2	242	c.37.1.11 (A:256-497) Circadian clock protein KaiC	5e-15
d1tf7a1	242	c.37.1.11 (A:14-255) Circadian clock protein KaiC	8e-13
d1nlfa_	274	c.37.1.11 (A:) Hexameric replicative helicase repA	6e-07
d1okkd2	207	c.37.1.10 (D:97-303) GTPase domain of the signal r	9e-05
d1cr2a_	277	c.37.1.11 (A:) Gene 4 protein (g4p, DNA primase),	6e-04

>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 =  214 bits (547), Expect = 2e-69
 Identities = 107/244 (43%), Positives = 159/244 (65%), Gaps = 10/244 (4%)

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 KIHYSLCQSHTLIIFLNQVRFSAKSGQGLGRMDEVTSGGNALKFYAALRLRMMRTRLFKI 297
           K+  +L  S T  IF+NQ+R   K G   G   E T+GG ALKFYA++R+ + R    K 
Sbjct: 178 KMTGALNNSGTTAIFINQLR--DKIGVMFGS-PETTTGGKALKFYASVRMDVRRVETLKD 234

Query: 298 ADKV 301
               
Sbjct: 235 GTNA 238

>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 =  214 bits (546), Expect = 3e-69
 Identities = 111/232 (47%), Positives = 157/232 (67%), Gaps = 10/232 (4%)

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 SLCQSHTLIIFLNQVRFSAKSGQGLGRMDEVTSGGNALKFYAALRLRMMRTR 293
            L ++ T  IF+NQVR   K G   G   E T+GG ALKFYA++RL + +  
Sbjct: 179 ILSKTGTAAIFINQVR--EKIGVMYG-NPETTTGGRALKFYASVRLDVRKIG 227

>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 =  208 bits (531), Expect = 5e-67
 Identities = 123/239 (51%), Positives = 157/239 (65%), Gaps = 10/239 (4%)

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 LCQSHTLIIFLNQVRFSAKSGQGLGRMDEVTSGGNALKFYAALRLRMMRTRLFKIADKV 301
           L QS+TL+IF+NQ+R   K G   G   E T+GGNALKFYA++RL + R    K  + V
Sbjct: 177 LKQSNTLLIFINQIR--MKIGVMFGN-PETTTGGNALKFYASVRLDIRRIGAVKEGENV 232

>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 =  102 bits (254), Expect = 3e-26
 Identities = 44/217 (20%), Positives = 88/217 (40%), Gaps = 24/217 (11%)

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

Query: 257 RFSAKSGQGLGRMDEVTSGGNALKFYAALRLRMMRTR 293
                +        +   GG+ L   +  R+ + + R
Sbjct: 189 TADPGATMTFQADPKKPIGGHILAHASTTRISLRKGR 225

>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 =  101 bits (252), Expect = 5e-26
 Identities = 53/220 (24%), Positives = 82/220 (37%), Gaps = 24/220 (10%)

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 NQVRFSAKSGQGLGRMDEVTSGGNALKFYAALRLRMMRTR 293
           NQV      G       +  +GGN +   +  RL   + +
Sbjct: 181 NQVVAQVDGGMAFNPDPKKPTGGNIMAHSSTTRLGFKKGK 220

>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 = 99.8 bits (247), Expect = 3e-25
 Identities = 48/217 (22%), Positives = 81/217 (37%), Gaps = 30/217 (13%)

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

Query: 257 RFSAKSGQGLGRMDEVTSGGNALKFYAALRLRMMRTR 293
           +                 GG+ L   A LR+ + + +
Sbjct: 191 Q---ARPDAFFGDPTRPIGGHILAHSATLRVYLRKGK 224

>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 = 91.3 bits (225), Expect = 4e-22
 Identities = 35/217 (16%), Positives = 66/217 (30%), Gaps = 28/217 (12%)

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

Query: 257 RFSAKSGQGLGRMDEVTSGGNALKFYAALRLRMMRTR 293
                       M E   GG+ +   A  R  + + +
Sbjct: 195 S---AKPDAFFGMAEQAIGGHIVGHAATFRFFVRKGK 228

>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 = 83.7 bits (205), Expect = 2e-19
 Identities = 48/225 (21%), Positives = 75/225 (33%), Gaps = 26/225 (11%)

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 IVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVRFSAK 261
           ++VDS  AL      G         A+   + + LR +     +    ++  NQV     
Sbjct: 122 LIVDSATALYRTDYSGRG----ELSARQMHLARFLRMLLRLADEFGVAVVITNQVVAQVD 177

Query: 262 SGQGLGRMDEVTSGGNALKFYAALRLRMMR----TRLFKIADKVN 302
                    +   GGN +   +  RL + +    TR+ KI D   
Sbjct: 178 GAAMFAADPKKPIGGNIIAHASTTRLYLRKGRGETRICKIYDSPC 222

>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 = 71.1 bits (173), Expect = 5e-15
 Identities = 27/159 (16%), Positives = 51/159 (32%), Gaps = 6/159 (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 PINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVR 257
            ++ +     +    Q +  +     Q     +F N   
Sbjct: 124 SLSALARGVSNNAFRQFVIGVTGYAKQEEITGLFTNTSD 162

>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 = 64.6 bits (156), Expect = 8e-13
 Identities = 32/237 (13%), Positives = 66/237 (27%), Gaps = 26/237 (10%)

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 EIGVPINGMYSDAQSRIMTQALRKIHYSLC-----QSHTLIIFLNQVRFSAKSGQGLGRM 269
                     +    +    ++ +           Q     +   +           G  
Sbjct: 125 RARRVSIDSVTSVFQQYDASSVVRRELFRLVARLKQIGATTVMTTERIEEYGPIARYGVE 184

Query: 270 DEVTSGGNALKF-------YAALRLRMMR-------TRLFKIADKVNILEVVNIGSM 312
           + V+     L+           L +  +R          F I D    + +  +G+M
Sbjct: 185 EFVSDNVVILRNVLEGERRRRTLEILKLRGTSHMKGEYPFTITDHG--INIFPLGAM 239

>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 = 47.7 bits (112), Expect = 6e-07
 Identities = 22/191 (11%), Positives = 53/191 (27%), Gaps = 13/191 (6%)

Query: 114 IGGLPKGRIVEIYGREASGKTTLALHVI----------KEAQKLGGYCAYLDVENALDPS 163
           +  +  G +  +     +GK+ LAL +           +  +   G   YL  E+     
Sbjct: 23  LPNMVAGTVGALVSPGGAGKSMLALQLAAQIAGGPDLLEVGELPTGPVIYLPAEDPPTAI 82

Query: 164 L--AEAMGIDAENLLIAQPDSAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPIN 221
                A+G                +  ++ +L    + +       AA   +  +   + 
Sbjct: 83  HHRLHALGAHLSAEERQAVADGLLIQPLIGSLPNIMAPEWFDGLKRAAEGRRLMVLDTLR 142

Query: 222 GMYSDAQSRIMTQALRKIHYSLCQSHTLI-IFLNQVRFSAKSGQGLGRMDEVTSGGNALK 280
             + + ++     A          + T   I          +  G G   + + G + L 
Sbjct: 143 RFHIEEENASGPMAQVIGRMEAIAADTGCSIVFLHHASKGAAMMGAGDQQQASRGSSVLV 202

Query: 281 FYAALRLRMMR 291
                +  +  
Sbjct: 203 DNIRWQSYLSS 213

>d1okkd2 c.37.1.10 (D:97-303) GTPase domain of the signal recognition particle receptor FtsY {Thermus aquaticus [TaxId: 271]} Length = 207

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal recognition particle receptor FtsY
species: Thermus aquaticus [TaxId: 271]

 Score = 40.5 bits (94), Expect = 9e-05
 Identities = 27/177 (15%), Positives = 55/177 (31%), Gaps = 8/177 (4%)

Query: 118 PKGRIVEIYGREASGKTT----LALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAE 173
           PKGR+V + G    GKTT    L  +     +K+                      +   
Sbjct: 4   PKGRVVLVVGVNGVGKTTTIAKLGRYYQNLGKKVMFCAGDTFRAAGGTQLSEWGKRLSIP 63

Query: 174 NLLIAQPDSAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMT 233
            +   +      L        K+   D++ VD+   L  K  + +        A ++   
Sbjct: 64  VIQGPEGTDPAALAYDAVQAMKARGYDLLFVDTAGRLHTKHNL-MEELKKVKRAIAKADP 122

Query: 234 QALRKIHYSLCQSHTLIIFLNQVRFSAK---SGQGLGRMDEVTSGGNALKFYAALRL 287
           +  +++   L             +F      +G  + ++D    GG  +     L++
Sbjct: 123 EEPKEVWLVLDAVTGQNGLEQAKKFHEAVGLTGVIVTKLDGTAKGGVLIPIVRTLKV 179

>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 = 38.5 bits (88), Expect = 6e-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	315
d1u94a1	263	RecA protein, ATPase-domain {Escherichia coli [Tax	100.0
d1xp8a1	268	RecA protein, ATPase-domain {Deinococcus radiodura	100.0
d1mo6a1	269	RecA protein, ATPase-domain {Mycobacterium tubercu	100.0
d1szpa2	251	DNA repair protein Rad51, catalytic domain {Baker'	99.92
d1v5wa_	258	Meiotic recombination protein DMC1/LIM15 homolog {	99.92
d1tf7a2	242	Circadian clock protein KaiC {Synechococcus sp. st	99.92
d1pzna2	254	DNA repair protein Rad51, catalytic domain {Archae	99.91
d2i1qa2	258	DNA repair protein Rad51, catalytic domain {Archae	99.88
d1cr2a_	277	Gene 4 protein (g4p, DNA primase), helicase domain	99.87
d1tf7a1	242	Circadian clock protein KaiC {Synechococcus sp. st	99.87
d1n0wa_	242	DNA repair protein Rad51, catalytic domain {Human	99.86
d1nlfa_	274	Hexameric replicative helicase repA {Escherichia c	99.74
d1v43a3	239	Hypothetical protein PH0022, N-terminal domain {Py	98.79
d2awna2	232	Maltose transport protein MalK, N-terminal domain	98.79
d1l2ta_	230	MJ0796 {Archaeon Methanococcus jannaschii [TaxId:	98.7
d3dhwc1	240	Methionine import ATP-binding protein MetN {Escher	98.67
d3d31a2	229	Sulfate/molybdate ABC transporter, ATP-binding pro	98.6
d1g2912	240	Maltose transport protein MalK, N-terminal domain	98.6
d1lv7a_	256	AAA domain of cell division protein FtsH {Escheric	98.57
d1g6ha_	254	MJ1267 {Archaeon Methanococcus jannaschii [TaxId:	98.53
d1oxxk2	242	Glucose transport protein GlcV, N-terminal domain	98.52
d2onka1	240	Molybdate/tungstate import ATP-binding protein Wtp	98.51
d1vpla_	238	Putative ABC transporter TM0544 {Thermotoga mariti	98.49
d1ji0a_	240	Branched chain aminoacid ABC transporter {Thermoto	98.47
d1ls1a2	207	GTPase domain of the signal sequence recognition p	98.47
d2qy9a2	211	GTPase domain of the signal recognition particle r	98.45
d1jj7a_	251	Peptide transporter Tap1, C-terminal ABC domain {H	98.45
d1okkd2	207	GTPase domain of the signal recognition particle r	98.45
d1ixza_	247	AAA domain of cell division protein FtsH {Thermus	98.42
d2pmka1	241	Haemolysin B ATP-binding protein {Escherichia coli	98.4
d3b60a1	253	Multidrug resistance ABC transporter MsbA, C-termi	98.38
d1l8qa2	213	Chromosomal replication initiation factor DnaA {Aq	98.37
d1r7ra3	265	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	98.36
d1b0ua_	258	ATP-binding subunit of the histidine permease {Sal	98.35
d1vmaa2	213	GTPase domain of the signal recognition particle r	98.33
d1mv5a_	242	Multidrug resistance ABC transporter LmrA, C-termi	98.33
d1e32a2	258	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	98.28
d1l7vc_	231	ABC transporter involved in vitamin B12 uptake, Bt	98.22
d1sgwa_	200	Putative ABC transporter PF0895 {Pyrococcus furios	98.22
d1j8yf2	211	GTPase domain of the signal sequence recognition p	98.21
d1ye8a1	178	Hypothetical kinase-like protein Aq_1292 {Aquifex	98.19
d2hyda1	255	Putative multidrug export ATP-binding/permease pro	98.12
d1w44a_	321	NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}	97.91
d1d2na_	246	Hexamerization domain of N-ethylmalemide-sensitive	97.89
d2jdid3	276	Central domain of beta subunit of F1 ATP synthase	97.79
d1fx0a3	276	Central domain of alpha subunit of F1 ATP synthase	97.76
d1np6a_	170	Molybdopterin-guanine dinucleotide biosynthesis pr	97.76
d2i3ba1	189	Cancer-related NTPase, C1orf57 {Human (Homo sapien	97.71
d1bifa1	213	6-phosphofructo-2-kinase/fructose-2,6-bisphosphata	97.67
d2jdia3	285	Central domain of alpha subunit of F1 ATP synthase	97.61
d1c9ka_	180	Adenosylcobinamide kinase/adenosylcobinamide phosp	97.53
d1xpua3	289	Transcription termination factor Rho, ATPase domai	97.52
d1yksa1	140	YFV helicase domain {Yellow fever virus [TaxId: 11	97.48
d1fnna2	276	CDC6, N-domain {Archaeon Pyrobaculum aerophilum [T	97.46
d1xjca_	165	Molybdopterin-guanine dinucleotide biosynthesis pr	97.46
d1x6va3	195	Adenosine-5'phosphosulfate kinase (APS kinase) {Hu	97.45
d2p67a1	327	LAO/AO transport system kinase ArgK {Escherichia c	97.43
d1zp6a1	176	Hypothetical protein Atu3015 {Agrobacterium tumefa	97.41
d1yj5a2	172	5' polynucleotide kinase-3' phosphatase, C-termina	97.36
d2b8ta1	139	Thymidine kinase, TK1, N-terminal domain {Ureaplas	97.34
d1m8pa3	183	ATP sulfurylase C-terminal domain {Fungus (Penicil	97.31
d1xbta1	133	Thymidine kinase, TK1, N-terminal domain {Human (H	97.29
d1svma_	362	Papillomavirus large T antigen helicase domain {Si	97.23
d1ihua2	279	Arsenite-translocating ATPase ArsA {Escherichia co	97.21
d2qm8a1	323	Metallochaperone MeaB {Methylobacterium extorquens	97.2
d1y63a_	174	Probable kinase LmjF30.1890 {Leishmania major [Tax	97.19
d1khta_	190	Adenylate kinase {Archaeon Methanococcus voltae [T	97.19
d1rz3a_	198	Hypothetical protein rbstp0775 {Bacillus stearothe	97.18
d1gvnb_	273	Plasmid maintenance system epsilon/zeta, toxin zet	97.17
d1knqa_	171	Gluconate kinase {Escherichia coli [TaxId: 562]}	97.13
d1p9ra_	401	Extracellular secretion NTPase EpsE {Vibrio choler	97.12
d1ly1a_	152	Polynucleotide kinase, kinase domain {Bacteriophag	97.11
d2bdta1	176	Hypothetical protein BH3686 {Bacillus halodurans [	97.09
d1in4a2	238	Holliday junction helicase RuvB {Thermotoga mariti	97.05
d1r6bx2	268	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	97.04
d1sxja2	253	Replication factor C1 {Baker's yeast (Saccharomyce	97.02
d1rkba_	173	Adenylate kinase {Human (Homo sapiens), isoenzyme	96.99
d1nksa_	194	Adenylate kinase {Archaeon Sulfolobus acidocaldari	96.98
d1w5sa2	287	CDC6-like protein APE0152, N-terminal domain {Aero	96.94
d1qhxa_	178	Chloramphenicol phosphotransferase {Streptomyces v	96.93
d1xx6a1	141	Thymidine kinase, TK1, N-terminal domain {Clostrid	96.93
d1sxjc2	227	Replication factor C3 {Baker's yeast (Saccharomyce	96.9
d1ak2a1	190	Adenylate kinase {Cow (Bos taurus), mitochondrial	96.88
d1lw7a2	192	Transcriptional regulator NadR, ribosylnicotinamid	96.88
d1jbka_	195	ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}	96.87
d1nn5a_	209	Thymidylate kinase {Human (Homo sapiens) [TaxId: 9	96.87
d1r0wa_	281	Cystic fibrosis transmembrane conductance regulato	96.87
d2bmfa2	305	Dengue virus helicase {Dengue virus type 2 [TaxId:	96.86
d2a5yb3	277	CED-4, NB-ARC domain {Caenorhabditis elegans [TaxI	96.86
d1qf9a_	194	UMP/CMP kinase {Dictyostelium discoideum [TaxId: 4	96.86
d1ofha_	309	HslU {Haemophilus influenzae [TaxId: 727]}	96.85
d1ixsb2	239	Holliday junction helicase RuvB {Thermus thermophi	96.84
d1a5ta2	207	delta prime subunit of DNA polymerase III, N-domai	96.83
d1cp2a_	269	Nitrogenase iron protein {Clostridium pasteurianum	96.8
d1njfa_	239	delta prime subunit of DNA polymerase III, N-domai	96.79
d1ihua1	296	Arsenite-translocating ATPase ArsA {Escherichia co	96.78
d1kaga_	169	Shikimate kinase (AroK) {Escherichia coli [TaxId:	96.78
d1g3qa_	237	Cell division regulator MinD {Archaeon Pyrococcus	96.74
d2gnoa2	198	gamma subunit of DNA polymerase III, N-domain {The	96.72
d2fnaa2	283	Archaeal ATPase SSO1545 {Sulfolobus solfataricus [	96.71
d4tmka_	210	Thymidylate kinase {Escherichia coli [TaxId: 562]}	96.68
d1m7ga_	208	Adenosine-5'phosphosulfate kinase (APS kinase) {Fu	96.66
d3adka_	194	Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}	96.64
d1znwa1	182	Guanylate kinase {Mycobacterium tuberculosis [TaxI	96.62
d1byia_	224	Dethiobiotin synthetase {Escherichia coli [TaxId:	96.61
d2eyqa3	233	Transcription-repair coupling factor, TRCF {Escher	96.56
d1hyqa_	232	Cell division regulator MinD {Archaeon Archaeoglob	96.56
d2afhe1	289	Nitrogenase iron protein {Azotobacter vinelandii [	96.5
d1zina1	182	Adenylate kinase {Bacillus stearothermophilus [Tax	96.47
d1ukza_	196	Uridylate kinase {Baker's yeast (Saccharomyces cer	96.45
d1yrba1	244	ATP(GTP)-binding protein PAB0955 {Pyrococcus abyss	96.43
d1wb9a2	234	DNA repair protein MutS, the C-terminal domain {Es	96.42
d1teva_	194	UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]	96.41
d1iqpa2	231	Replication factor C {Archaeon Pyrococcus furiosus	96.4
d1sq5a_	308	Pantothenate kinase PanK {Escherichia coli [TaxId:	96.39
d1zaka1	189	Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}	96.37
d2c78a3	204	Elongation factor Tu (EF-Tu), N-terminal (G) domai	96.36
d1q3ta_	223	CMP kinase {Streptococcus pneumoniae [TaxId: 1313]	96.35
d1ckea_	225	CMP kinase {Escherichia coli [TaxId: 562]}	96.35
d2cdna1	181	Adenylate kinase {Mycobacterium tuberculosis [TaxI	96.33
d1s3ga1	182	Adenylate kinase {Bacillus globisporus [TaxId: 145	96.31
d1a7ja_	288	Phosphoribulokinase {Rhodobacter sphaeroides [TaxI	96.29
d1uj2a_	213	Uridine-cytidine kinase 2 {Human (Homo sapiens) [T	96.28
d1odfa_	286	Hypothetical protein Ygr205W {Baker's yeast (Sacch	96.27
d1qvra2	387	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	96.26
d1sxjd2	237	Replication factor C2 {Baker's yeast (Saccharomyce	96.22
d1ewqa2	224	DNA repair protein MutS, the C-terminal domain {Th	96.21
d1e4va1	179	Adenylate kinase {Escherichia coli [TaxId: 562]}	96.16
d1sxje2	252	Replication factor C5 {Baker's yeast (Saccharomyce	96.15
d1sxjb2	224	Replication factor C4 {Baker's yeast (Saccharomyce	96.14
d1e6ca_	170	Shikimate kinase (AroK) {Erwinia chrysanthemi [Tax	96.12
d1akya1	180	Adenylate kinase {Baker's yeast (Saccharomyces cer	96.11
d1ofux_	119	Hypothetical protein PA3008 {Pseudomonas aeruginos	96.11
d1qvra3	315	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	96.09
d2ak3a1	189	Adenylate kinase {Cow (Bos taurus), mitochondrial	96.08
d1s96a_	205	Guanylate kinase {Escherichia coli [TaxId: 562]}	96.06
d1viaa_	161	Shikimate kinase (AroK) {Campylobacter jejuni [Tax	95.95
d2iyva1	165	Shikimate kinase (AroK) {Mycobacterium tuberculosi	95.94
d1gsia_	208	Thymidylate kinase {Mycobacterium tuberculosis [Ta	95.8
d2bv3a2	276	Elongation factor G (EF-G), N-terminal (G) domain	95.79
d1g5ta_	157	ATP:corrinoid adenosyltransferase CobA {Salmonella	95.77
d1pjra1	318	DEXX box DNA helicase {Bacillus stearothermophilus	95.64
d1e9ra_	433	Bacterial conjugative coupling protein TrwB {Esche	95.57
d1g6oa_	323	Hexameric traffic ATPase, HP0525 {Helicobacter pyl	95.52
d1htwa_	158	Hypothetical protein HI0065 {Haemophilus influenza	95.45
d1gm5a3	264	RecG helicase domain {Thermotoga maritima [TaxId:	95.43
d1nija1	222	Hypothetical protein YjiA, N-terminal domain {Esch	95.43
d1uaaa1	306	DEXX box DNA helicase {Escherichia coli, RepD [Tax	95.42
d1gkya_	186	Guanylate kinase {Baker's yeast (Saccharomyces cer	95.37
d1lvga_	190	Guanylate kinase {Mouse (Mus musculus) [TaxId: 100	95.36
d1u0la2	225	Probable GTPase EngC (YjeQ), C-terminal domain {Th	95.28
d1r8sa_	160	ADP-ribosylation factor {Human (Homo sapiens), ARF	95.27
d1wb1a4	179	Elongation factor SelB, N-terminal domain {Methano	95.24
d2dy1a2	267	Elongation factor G (EF-G), N-terminal (G) domain	95.21
d1tuea_	205	Replication protein E1 helicase domain {Human papi	95.18
d2p6ra3	202	Hel308 helicase {Archaeoglobus fulgidus [TaxId: 22	95.12
d1u8za_	168	Ras-related protein RalA {Cotton-top tamarin (Sagu	95.02
d1gkub1	237	Helicase-like "domain" of reverse gyrase {Archaeon	94.98
d1kgda_	178	Guanylate kinase-like domain of Cask {Human (Homo	94.96
d1r6bx3	315	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	94.9
d1uf9a_	191	Dephospho-CoA kinase {Thermus thermophilus [TaxId:	94.84
d2gjsa1	168	Rad {Human (Homo sapiens) [TaxId: 9606]}	94.83
g1f2t.1	292	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	94.74
d1kkma_	176	HPr kinase HprK C-terminal domain {Lactobacillus c	94.61
d1knxa2	177	HPr kinase HprK C-terminal domain {Mycoplasma pneu	94.6
d1w36d1	359	Exodeoxyribonuclease V alpha chain (RecD) {Escheri	94.6
d1svia_	195	Probable GTPase EngB {Bacillus subtilis [TaxId: 14	94.38
d1ko7a2	169	HPr kinase HprK C-terminal domain {Staphylococcus	94.31
d1upta_	169	ADP-ribosylation factor {Human (Homo sapiens), ARL	94.18
d2qtvb1	166	SAR1 {Baker's yeast (Saccharomyces cerevisiae) [Ta	94.13
d1zj6a1	177	ADP-ribosylation factor {Human (Homo sapiens), ARL	94.03
d1f6ba_	186	SAR1 {Chinese hamster (Cricetulus griseus) [TaxId:	93.99
d1z2aa1	164	Rab23 {Mouse (Mus musculus) [TaxId: 10090]}	93.75
d1g41a_	443	HslU {Haemophilus influenzae [TaxId: 727]}	93.69
d1tmka_	214	Thymidylate kinase {Baker's yeast (Saccharomyces c	93.62
g1ii8.1	369	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	93.49
d1ksha_	165	ADP-ribosylation factor {Mouse (Mus musculus), ARL	93.46
d1t9ha2	231	Probable GTPase EngC (YjeQ), C-terminal domain {Ba	93.43
d1mkya1	171	Probable GTPase Der, N-terminal and middle domains	93.42
d1ctqa_	166	cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9	93.32
d1kaoa_	167	Rap2a {Human (Homo sapiens) [TaxId: 9606]}	93.3
d2a5ja1	173	Rab2b {Human (Homo sapiens) [TaxId: 9606]}	93.28
d2erya1	171	r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	93.25
d1g8pa_	333	ATPase subunit of magnesium chelatase, BchI {Rhodo	93.25
d1zd9a1	164	ADP-ribosylation factor {Human (Homo sapiens), ARL	93.23
d1ky3a_	175	Rab-related protein ypt7p {Baker's yeast (Saccharo	93.17
d1vhta_	208	Dephospho-CoA kinase {Escherichia coli [TaxId: 562	93.14
d1z0fa1	166	Rab14 {Human (Homo sapiens) [TaxId: 9606]}	93.14
d1jjva_	205	Dephospho-CoA kinase {Haemophilus influenzae [TaxI	93.13
d2fh5b1	207	Signal recognition particle receptor beta-subunit	93.1
d2f7sa1	186	Rab27b {Human (Homo sapiens) [TaxId: 9606]}	93.01
d2erxa1	171	di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	93.01
d1z08a1	167	Rab21 {Human (Homo sapiens) [TaxId: 9606]}	92.96
d2vp4a1	197	Deoxyribonucleoside kinase {Fruit fly (Drosophila	92.92
d1xtqa1	167	GTP-binding protein RheB {Human (Homo sapiens) [Ta	92.92
d1nrjb_	209	Signal recognition particle receptor beta-subunit	92.92
d1wmsa_	174	Rab9a {Human (Homo sapiens) [TaxId: 9606]}	92.92
d1r2qa_	170	Rab5a {Human (Homo sapiens) [TaxId: 9606]}	92.91
d1d2ea3	196	Elongation factor Tu (EF-Tu), N-terminal (G) domai	92.91
d1a1va1	136	HCV helicase domain {Human hepatitis C virus (HCV)	92.9
d2ew1a1	171	Rab30 {Human (Homo sapiens) [TaxId: 9606]}	92.81
d2cxxa1	184	GTP-binding protein engB {Pyrococcus horikoshii [T	92.81
d3raba_	169	Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}	92.8
d2bmea1	174	Rab4a {Human (Homo sapiens) [TaxId: 9606]}	92.8
d2atva1	168	Ras-like estrogen-regulated growth inhibitor, RERG	92.78
d1w1wa_	427	Smc head domain {Baker's yeast (Saccharomyces cere	92.76
d2fn4a1	173	r-Ras {Human (Homo sapiens) [TaxId: 9606]}	92.76
d1vg8a_	184	Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}	92.72
d2gj8a1	161	Probable tRNA modification GTPase TrmE (MnmE), G d	92.7
d1fzqa_	176	ADP-ribosylation factor {Mouse (Mus musculus), ARL	92.69
d1g16a_	166	Rab-related protein Sec4 {Baker's yeast (Saccharom	92.68
g1xew.1	329	Smc head domain {Pyrococcus furiosus [TaxId: 2261]	92.56
d1u0ja_	267	Rep 40 protein helicase domain {Adeno-associated v	92.56
d1z06a1	165	Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}	92.55
d1kmqa_	177	RhoA {Human (Homo sapiens) [TaxId: 9606]}	92.47
d1p5zb_	241	Deoxycytidine kinase {Human (Homo sapiens) [TaxId:	92.44
d2f9la1	175	Rab11b {Human (Homo sapiens) [TaxId: 9606]}	92.44
d1ek0a_	170	Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [T	92.39
d2bcgy1	194	GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisi	92.39
d1yzqa1	164	Rab6 {Human (Homo sapiens) [TaxId: 9606]}	92.38
d2g6ba1	170	Rab26 {Human (Homo sapiens) [TaxId: 9606]}	92.36
d1c1ya_	167	Rap1A {Human (Homo sapiens) [TaxId: 9606]}	92.34
d1wp9a1	200	putative ATP-dependent RNA helicase PF2015 {Pyroco	92.32
d1z0ja1	167	Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}	92.24
d1wf3a1	178	GTPase Era, N-terminal domain {Thermus thermophilu	92.04
d1qhla_	222	Cell division protein MukB {Escherichia coli [TaxI	92.04
d1ny5a2	247	Transcriptional activator sigm54 (NtrC1), C-termin	92.02
d1e0sa_	173	ADP-ribosylation factor {Human (Homo sapiens), ARF	91.97
d1e69a_	308	Smc head domain {Thermotoga maritima [TaxId: 2336]	91.96
d1egaa1	179	GTPase Era, N-terminal domain {Escherichia coli [T	91.89
d1lnza2	185	Obg GTP-binding protein middle domain {Bacillus su	91.84
d1moza_	182	ADP-ribosylation factor {Baker's yeast (Saccharomy	91.69
d1x1ra1	169	Ras-related protein M-Ras (XRas) {Mouse (Mus muscu	91.68
d2g3ya1	172	GTP-binding protein GEM {Human (Homo sapiens) [Tax	91.58
d1mh1a_	183	Rac {Human (Homo sapiens) [TaxId: 9606]}	91.57
d2ngra_	191	CDC42 {Human (Homo sapiens) [TaxId: 9606]}	91.55
d1x3sa1	177	Rab18 {Human (Homo sapiens) [TaxId: 9606]}	91.53
d1deka_	241	Deoxynucleoside monophosphate kinase {Bacteriophag	91.5
d1m7ba_	179	RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}	91.45
d1um8a_	364	ClpX {Helicobacter pylori [TaxId: 210]}	91.35
d2atxa1	185	RhoQ {Human (Homo sapiens) [TaxId: 9606]}	91.35
d1i2ma_	170	Ran {Human (Homo sapiens) [TaxId: 9606]}	91.23
d1zcba2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	91.12
d2fu5c1	173	Rab8a {Mouse (Mus musculus) [TaxId: 10090]}	90.91
d1udxa2	180	Obg GTP-binding protein middle domain {Thermus the	90.66
d1puia_	188	Probable GTPase EngB {Escherichia coli [TaxId: 562	90.52
d1mkya2	186	Probable GTPase Der, N-terminal and middle domains	90.47
d2bmja1	175	Centaurin gamma 1, G domain {Human (Homo sapiens)	90.39
d1xzpa2	160	TrmE GTPase domain {Thermotoga maritima [TaxId: 23	90.18
d2ocpa1	241	Deoxyguanosine kinase {Human (Homo sapiens) [TaxId	90.12
d2bcjq2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	90.11
d1azta2	221	Transducin (alpha subunit) {Cow (Bos taurus) [TaxI	89.73
g1qhh.1	623	DEXX box DNA helicase {Bacillus stearothermophilus	89.43
d1n0ua2	341	Elongation factor 2 (eEF-2), N-terminal (G) domain	89.41
d1h65a_	257	Chloroplast protein translocon GTPase Toc34 {Garde	89.01
d1osna_	331	Thymidine kinase {Varicella-zoster virus [TaxId: 1	89.0
d1svsa1	195	Transducin (alpha subunit) {Rat (Rattus norvegicus	88.96
d2fz4a1	206	DNA repair protein RAD25 {Archaeoglobus fulgidus [	88.44
d2olra1	313	Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxalo	87.71
d1j3ba1	318	Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxalo	86.83
d1ii2a1	323	Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxalo	86.81
d1g8fa3	122	ATP sulfurylase C-terminal domain {Baker's yeast (	86.31
d2qn6a3	205	Initiation factor eIF2 gamma subunit, N-terminal (	84.26
d1g7sa4	227	Initiation factor IF2/eIF5b, N-terminal (G) domain	83.17
d1f60a3	239	Elongation factor eEF-1alpha, N-terminal (G) domai	82.62
d1zunb3	222	Sulfate adenylate transferase subunit cysN/C, EF-T	82.37
d1tq4a_	400	Interferon-inducible GTPase {Mouse (Mus musculus)	81.71
d2fzwa2	176	Alcohol dehydrogenase {Human (Homo sapiens), diffe	80.78

>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=2.9e-43  Score=315.13  Aligned_cols=237  Identities=51%  Similarity=0.736  Sum_probs=199.2

Q ss_pred             HHHHHHHHHHHHHhhCcccccccccccCCCCCCccccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHh
Q 021239           67 DNALRLALSQLANDFGKESMLSLKRFFGSRRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQK  146 (315)
Q Consensus        67 ~~~l~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~i~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~  146 (315)
                      .+.+..++.++.++|+++..+++.+.. ..+.+.||||+++||.+||.||+|+|.+++|+||||+|||+||++++.++++
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            356788899999999998777665522 3578899999999999995599999999999999999999999999999999


Q ss_pred             cCCeEEEEecCCCCChHHHHHcCCCCCCeEEeCCCCHHHHHHHHHHHHHcCCccEEeehhHhhhccccccCCCccCCChH
Q 021239          147 LGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSD  226 (315)
Q Consensus       147 ~g~~v~~i~~E~~~~~~~~~~~g~~~~~l~i~~~~~~e~~~~~i~~l~~~~~~~lVVIDsl~~l~~~~~~~~~~~~~~~~  226 (315)
                      +|+.|+|+|+|+++.+.+++++|++++++++.++.+.|+.++++..++++.++++|||||+++++++.+++++.++.+..
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            99999999999999999999999999999999999999999999999988999999999999999877777766665566


Q ss_pred             HHHHHHHHHHHHHHHHHhccCcEEEEEeccccccCCCCCCCCCccccccccccccccceEEEEEecccccccCeeeccce
Q 021239          227 AQSRIMTQALRKIHYSLCQSHTLIIFLNQVRFSAKSGQGLGRMDEVTSGGNALKFYAALRLRMMRTRLFKIADKVNILEV  306 (315)
Q Consensus       227 ~q~r~i~~~l~~L~~~~~~~~i~VI~inq~~~~~~~~~~~~~~~~~~~gG~~~~~~~~~rl~l~k~~~~k~~~~~~g~~~  306 (315)
                      .+++.+.+.+++|..++.+++++||++||++.++  +.+|+ ++.+|+||++|.|++++||+++|.+..|++++++|+++
T Consensus       161 ~~a~~l~~~~~~l~~~~~~~~~~vi~~NQv~~~~--~~~~g-~~~~~~GG~al~~~~~~rl~l~k~~~~k~g~~~iG~~~  237 (263)
T d1u94a1         161 LAARMMSQAMRKLAGNLKQSNTLLIFINQIRMKI--GVMFG-NPETTTGGNALKFYASVRLDIRRIGAVKEGENVVGSET  237 (263)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHTCEEEEEEC-----------------CTTCSHHHHHCSEEEEEEEEEEEESSSSEEEEEE
T ss_pred             HHHHHHHHHHHHHHHhhhccCceEEEEEEEEecc--ccccC-CCccccccchhheeeEEEEEEEeccccccCCceeeeEE
Confidence            7778889999999999999999999999999988  55777 78899999999999999999999998999999998886


Q ss_pred             e
Q 021239          307 V  307 (315)
Q Consensus       307 ~  307 (315)
                      +
T Consensus       238 r  238 (263)
T d1u94a1         238 R  238 (263)
T ss_dssp             E
T ss_pred             E
Confidence            4

>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=3.6e-43  Score=314.97  Aligned_cols=240  Identities=46%  Similarity=0.730  Sum_probs=194.2

Q ss_pred             HHHHHHHHHHHHHHHHhhCcccccccccccCCCCCCccccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHH
Q 021239           64 MQKDNALRLALSQLANDFGKESMLSLKRFFGSRRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKE  143 (315)
Q Consensus        64 ~~~~~~l~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~i~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~  143 (315)
                      .++++.++.++.+|.++|+++..+.+..- ...+.+.||||++.||.+||+||+|.|.+++|+||+|+|||+||++++++
T Consensus         2 ~~~~~~~~~~~~~i~k~~g~~~~~~~~~~-~~~~~~~i~TGs~~lD~~Lg~GGip~g~itei~G~~~sGKT~l~l~~~~~   80 (268)
T d1xp8a1           2 KERSKAIETAMSQIEKAFGKGSIMKLGAE-SKLDVQVVSTGSLSLDLALGVGGIPRGRITEIYGPESGGKTTLALAIVAQ   80 (268)
T ss_dssp             CHHHHHHHHHHHHHHHHHCTTSSCCTTSC-CCCCCCEECCSCHHHHHHTSSSSEETTSEEEEEESTTSSHHHHHHHHHHH
T ss_pred             chHHHHHHHHHHHHHHHhCCcceEECCCc-CCCCCCeEcCCCHHHHHHhcCCCccCceEEEEecCCccchHHHHHHHHHH
Confidence            46788899999999999999877554432 23678899999999999996699999999999999999999999999999


Q ss_pred             HHhcCCeEEEEecCCCCChHHHHHcCCCCCCeEEeCCCCHHHHHHHHHHHHHcCCccEEeehhHhhhccccccCCCccCC
Q 021239          144 AQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGM  223 (315)
Q Consensus       144 ~~~~g~~v~~i~~E~~~~~~~~~~~g~~~~~l~i~~~~~~e~~~~~i~~l~~~~~~~lVVIDsl~~l~~~~~~~~~~~~~  223 (315)
                      +++.|++|+|||+|+++++.+++++|+|++++.+.++.+.|+.++++..++++..+++|||||+++++++.+++++.++.
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            99999999999999999999999999999999999999999999999999988899999999999999888888776666


Q ss_pred             ChHHHHHHHHHHHHHHHHHHhccCcEEEEEeccccccCCCCCCCCCccccccccccccccceEEEEEeccc-ccccCeee
Q 021239          224 YSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVRFSAKSGQGLGRMDEVTSGGNALKFYAALRLRMMRTRL-FKIADKVN  302 (315)
Q Consensus       224 ~~~~q~r~i~~~l~~L~~~~~~~~i~VI~inq~~~~~~~~~~~~~~~~~~~gG~~~~~~~~~rl~l~k~~~-~k~~~~~~  302 (315)
                      ..+.+++.+.+.+++|..++.++++++|+|||++.++  +.+|+ ++.++.||++|.|++++||.++|.+. .+++++++
T Consensus       161 ~~~~~a~~l~~~lr~l~~~~~~~~~~vi~tNQv~~~~--g~~~g-~~~~~~GG~al~~~ss~rl~l~k~~~~~k~~~~~i  237 (268)
T d1xp8a1         161 LPGLQARLMSQALRKLTAILSKTGTAAIFINQVREKI--GVMYG-NPETTTGGRALKFYASVRLDVRKIGQPTKVGNDAV  237 (268)
T ss_dssp             -CCHHHHHHHHHHHHHHHHHTTTCCEEEEEEEC------------------CHHHHHHHCSEEEEEEEESCCC------C
T ss_pred             hHHHHHHHHHHHHHHHHhhhhhcCCeEEEEeEEeecc--ccccC-cceeecccchhhhceeEEEEEEecCcccccCCceE
Confidence            6667888899999999999999999999999999998  45677 78899999999999999999999754 46788888


Q ss_pred             cccee
Q 021239          303 ILEVV  307 (315)
Q Consensus       303 g~~~~  307 (315)
                      |++++
T Consensus       238 G~~v~  242 (268)
T d1xp8a1         238 ANTVK  242 (268)
T ss_dssp             EEEEE
T ss_pred             EEEEE
Confidence            98875

>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=1.4e-42  Score=310.79  Aligned_cols=239  Identities=44%  Similarity=0.716  Sum_probs=203.8

Q ss_pred             HHHHHHHHHHHHHHHhhCcccccccccccCCCCCCccccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHH
Q 021239           65 QKDNALRLALSQLANDFGKESMLSLKRFFGSRRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEA  144 (315)
Q Consensus        65 ~~~~~l~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~i~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~  144 (315)
                      ++.+.++.++++|.+.||++..+.+.+- ...+.+.||||++.||.+||.||+|.|.+++|+|+||+|||+||++++.++
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 DREKALELAVAQIEKSYGKGSVMRLGDE-ARQPISVIPTGSIALDVALGIGGLPRGRVIEIYGPESSGKTTVALHAVANA   84 (269)
T ss_dssp             THHHHHHHHHHHHHHHHCTTSSCCTTCC-CCCCSCCBCCSCHHHHHHTSSSSBCSSSEEEEECSSSSSHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHhCCcceEECCCc-cCCccceEccCCHHHHHhhccCCcccceeEEEecCCCcHHHHHHHHHHHHH
Confidence            4777899999999999998877666542 235678999999999999976999999999999999999999999999999


Q ss_pred             HhcCCeEEEEecCCCCChHHHHHcCCCCCCeEEeCCCCHHHHHHHHHHHHHcCCccEEeehhHhhhccccccCCCccCCC
Q 021239          145 QKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMY  224 (315)
Q Consensus       145 ~~~g~~v~~i~~E~~~~~~~~~~~g~~~~~l~i~~~~~~e~~~~~i~~l~~~~~~~lVVIDsl~~l~~~~~~~~~~~~~~  224 (315)
                      ++.|+.|+|||+|+++++++++++|+|++++.+.++.+.|+.+++++.++++..+++|||||+.+++++.+++++.++..
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            99999999999999999999999999999999999999999999999999999999999999999998888887766666


Q ss_pred             hHHHHHHHHHHHHHHHHHHhccCcEEEEEeccccccCCCCCCCCCccccccccccccccceEEEEEecccccccCeeecc
Q 021239          225 SDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVRFSAKSGQGLGRMDEVTSGGNALKFYAALRLRMMRTRLFKIADKVNIL  304 (315)
Q Consensus       225 ~~~q~r~i~~~l~~L~~~~~~~~i~VI~inq~~~~~~~~~~~~~~~~~~~gG~~~~~~~~~rl~l~k~~~~k~~~~~~g~  304 (315)
                      ...+++.+.+.++++..++.++++++|+|||++.++  +.+|+ ++.++.||++|.|++++||+++|.+..|++++++|+
T Consensus       165 ~~~~a~~l~~~l~~l~~~~~~~~~~vi~~NQv~~~~--~~~~g-~~~~~~GG~al~~~ss~rl~l~k~~~~kdg~~~iG~  241 (269)
T d1mo6a1         165 VGLQARLMSQALRKMTGALNNSGTTAIFINQLRDKI--GVMFG-SPETTTGGKALKFYASVRMDVRRVETLKDGTNAVGN  241 (269)
T ss_dssp             CCHHHHHHHHHHHHHHHHHHHHTCEEEEEECC----------------CTTHHHHHHHCSEEEEEEEEECCBCSSSBCEE
T ss_pred             HHHHHHHHHHHHHHHHHHHhhcCchhhhhheeeccC--ccccC-CceecccccceeeeeeEEEEEEecceeccCCceEEE
Confidence            667888899999999999999999999999999998  55777 788999999999999999999999999999999999


Q ss_pred             cee
Q 021239          305 EVV  307 (315)
Q Consensus       305 ~~~  307 (315)
                      +++
T Consensus       242 ~~~  244 (269)
T d1mo6a1         242 RTR  244 (269)
T ss_dssp             EEE
T ss_pred             EEE
Confidence            974

>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=99.92  E-value=2.7e-25  Score=193.70  Aligned_cols=194  Identities=26%  Similarity=0.370  Sum_probs=138.4

Q ss_pred             CCCCccccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHh------cCCeEEEEecCCCCChHH----H
Q 021239           96 RRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQK------LGGYCAYLDVENALDPSL----A  165 (315)
Q Consensus        96 ~~~~~i~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~------~g~~v~~i~~E~~~~~~~----~  165 (315)
                      .....||||++.||.+|+ ||+|+|++++|+|+||+|||+||++++.+++.      .+++++|++++......+    .
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 99999999999999999999999999988754      467999999999987643    3


Q ss_pred             HHcCCCCC----CeEEeCCC---CHHHHHHHHHHHHHcCCccEEeehhHhhhccccccCCCccCCChHHHHHHHHHHHHH
Q 021239          166 EAMGIDAE----NLLIAQPD---SAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRK  238 (315)
Q Consensus       166 ~~~g~~~~----~l~i~~~~---~~e~~~~~i~~l~~~~~~~lVVIDsl~~l~~~~~~~~~~~~~~~~~q~r~i~~~l~~  238 (315)
                      ..++++..    ++.+.+..   ............+....+.++++|++..+.. ......   .........+.+.++.
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            55666643    44454443   3445555556666777899999999998873 222211   1222344456777888


Q ss_pred             HHHHHhccCcEEEEEeccccccCCCCCCCCCccccccccccccccceEEEEEeccc
Q 021239          239 IHYSLCQSHTLIIFLNQVRFSAKSGQGLGRMDEVTSGGNALKFYAALRLRMMRTRL  294 (315)
Q Consensus       239 L~~~~~~~~i~VI~inq~~~~~~~~~~~~~~~~~~~gG~~~~~~~~~rl~l~k~~~  294 (315)
                      |.+.+...++++++++|.+....+...+......++||.+|.|+++.||.++|.+.
T Consensus       166 l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~gg~~~~~~~~~~i~l~~~~~  221 (251)
T d1szpa2         166 LQRLADQFGVAVVVTNQVVAQVDGGMAFNPDPKKPTGGNIMAHSSTTRLGFKKGKG  221 (251)
T ss_dssp             HHHHHHHHCCCEEEEEECC----------------CHHHHHHHHCSEEEEEEECST
T ss_pred             HHhhhhhcceEEEEEEEEEeccCccccccCcceeccCccchhhheeEEEEEEecCC
Confidence            88888999999999999998876544444466789999999999999999998654

>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=99.92  E-value=5.9e-25  Score=192.77  Aligned_cols=192  Identities=23%  Similarity=0.350  Sum_probs=133.6

Q ss_pred             CCCccccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHhc------CCeEEEEecCCCCChHHHHH---
Q 021239           97 RGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKL------GGYCAYLDVENALDPSLAEA---  167 (315)
Q Consensus        97 ~~~~i~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~~------g~~v~~i~~E~~~~~~~~~~---  167 (315)
                      ...+||||++.||++|| ||+|+|++++|+|+||+|||+||++++.+++..      +..++|++.+......+...   
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            45679999999999999 999999999999999999999999999987653      35799999999988754443   


Q ss_pred             -cCCCC----CCeEEeCCCCHHHHHHHHHHHH-----HcCCccEEeehhHhhhccccccCCCccCCChHHHHHHHHHHHH
Q 021239          168 -MGIDA----ENLLIAQPDSAENLLSVVDTLT-----KSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALR  237 (315)
Q Consensus       168 -~g~~~----~~l~i~~~~~~e~~~~~i~~l~-----~~~~~~lVVIDsl~~l~~~~~~~~~~~~~~~~~q~r~i~~~l~  237 (315)
                       .+.+.    .++.+.++.+.++..+.+..+.     +...++++++|++.++... ...+.   .........+.+.+.
T Consensus        94 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vid~~~~~~~~-~~~~~---~~~~~~~~~l~~~~~  169 (258)
T d1v5wa_          94 RFNVDHDAVLDNVLYARAYTSEHQMELLDYVAAKFHEEAGIFKLLIIDSIMALFRV-DFSGR---GELAERQQKLAQMLS  169 (258)
T ss_dssp             HTTCCHHHHHHTEEEEECCSTTHHHHHHHHHHHHHHHSCSSEEEEEEETSGGGHHH-HCCGG---GCHHHHHHHHHHHHH
T ss_pred             hhcccchhhhhcccccccCcHHHHHHHHHHHHHHhhhhccCceEEEeeehhhhhhc-cccCC---cchhHHHHHHHHHHH
Confidence             34433    3666777776665555443332     3346789999999998732 22211   112233445777888


Q ss_pred             HHHHHHhccCcEEEEEeccccccCCCCCCCCCccccccccccccccceEEEEEecc
Q 021239          238 KIHYSLCQSHTLIIFLNQVRFSAKSGQGLGRMDEVTSGGNALKFYAALRLRMMRTR  293 (315)
Q Consensus       238 ~L~~~~~~~~i~VI~inq~~~~~~~~~~~~~~~~~~~gG~~~~~~~~~rl~l~k~~  293 (315)
                      .|.+.+.++++++++++|.+........+......+.||..|.|+++.|+.++|.+
T Consensus       170 ~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~l~l~~~~  225 (258)
T d1v5wa_         170 RLQKISEEYNVAVFVTNQMTADPGATMTFQADPKKPIGGHILAHASTTRISLRKGR  225 (258)
T ss_dssp             HHHHHHHHHTCEEEEEECC-------------------CCTTTTSSSEEEEEEESS
T ss_pred             HHHHHHHhcCCEEEEeeeEeecccccccccCCceeecccceehheeEEEEEEEEcC
Confidence            89989999999999999998887544334445667899999999999999998764

>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=99.92  E-value=4.6e-24  Score=186.64  Aligned_cols=174  Identities=20%  Similarity=0.184  Sum_probs=138.3

Q ss_pred             CCCccccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCCh--HHHHHcCCCCCC
Q 021239           97 RGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP--SLAEAMGIDAEN  174 (315)
Q Consensus        97 ~~~~i~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~--~~~~~~g~~~~~  174 (315)
                      +..++|||+++||++|+ ||+++|++++|+|+||+|||+||++++.+++..+.+|+|+++|++...  .+++.++++.++
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 999999999999999999999999999999999999999999998776  456667776432


Q ss_pred             ------eEEeC----CCCHHHHHHHHHHHHHcCCccEEeehhHhhhccccccCCCccCCChHHHHHHHHHHHHHHHHHHh
Q 021239          175 ------LLIAQ----PDSAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLC  244 (315)
Q Consensus       175 ------l~i~~----~~~~e~~~~~i~~l~~~~~~~lVVIDsl~~l~~~~~~~~~~~~~~~~~q~r~i~~~l~~L~~~~~  244 (315)
                            +.+.+    ....++..+.+...+++.+++++||||++.+....          .   ...+...+..|.++++
T Consensus        83 ~~~~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~vviDs~~~~~~~~----------~---~~~~~~~~~~l~~~~~  149 (242)
T d1tf7a2          83 MERQNLLKIVCAYPESAGLEDHLQIIKSEINDFKPARIAIDSLSALARGV----------S---NNAFRQFVIGVTGYAK  149 (242)
T ss_dssp             HHHTTSEEECCCCGGGSCHHHHHHHHHHHHHTTCCSEEEEECHHHHTSSS----------C---HHHHHHHHHHHHHHHH
T ss_pred             HhhcCceEEEEeecchhhHHHHHHHHHHHHHhcCCceeeeecchhhhcCC----------C---HHHHHHHHHHHHHHHH
Confidence                  23332    23466778888888889999999999999987321          0   1124456677777789


Q ss_pred             ccCcEEEEEeccccccCCCCCCCCCccccccccccccccceEEEEEecc
Q 021239          245 QSHTLIIFLNQVRFSAKSGQGLGRMDEVTSGGNALKFYAALRLRMMRTR  293 (315)
Q Consensus       245 ~~~i~VI~inq~~~~~~~~~~~~~~~~~~~gG~~~~~~~~~rl~l~k~~  293 (315)
                      +.++++++++|.....         .....|+..+.++++.++.+.+..
T Consensus       150 ~~~~~~i~~~~~~~~~---------~~~~~~~~~~~~~ad~vi~l~~~~  189 (242)
T d1tf7a2         150 QEEITGLFTNTSDQFM---------GAHSITDSHISTITDTIILLQYVE  189 (242)
T ss_dssp             HTTCEEEEEEECSSSS---------CCCSSCSSCCTTTCSEEEEEEEEE
T ss_pred             HcCCeEEEEEeeEeec---------cccccCCcceeeecceEEEEEEee
Confidence            9999999999986443         123567788889999988887653

>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=99.91  E-value=2.6e-24  Score=188.78  Aligned_cols=191  Identities=25%  Similarity=0.332  Sum_probs=131.8

Q ss_pred             CCCCccccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHh------cCCeEEEEecCCCCChHHHHH--
Q 021239           96 RRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQK------LGGYCAYLDVENALDPSLAEA--  167 (315)
Q Consensus        96 ~~~~~i~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~------~g~~v~~i~~E~~~~~~~~~~--  167 (315)
                      ...++||||++.||.+|+ ||+|+|++++|+|+||+|||+|++|++.+++.      .++.++|++++......+++.  
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 99999999999999999999999999999874      378999999999988765443  


Q ss_pred             --cCCCCC----CeEEeCCCCHHHHHHHHHHH--------HHcCCccEEeehhHhhhccccccCCCccCCChHHHHHHHH
Q 021239          168 --MGIDAE----NLLIAQPDSAENLLSVVDTL--------TKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMT  233 (315)
Q Consensus       168 --~g~~~~----~l~i~~~~~~e~~~~~i~~l--------~~~~~~~lVVIDsl~~l~~~~~~~~~~~~~~~~~q~r~i~  233 (315)
                        .+++.+    ...+............+...        .....++++++|+++.++. .....   ........+.+.
T Consensus        92 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~viDs~~~~~~-~~~~~---~~~~~~~~~~~~  167 (254)
T d1pzna2          92 QNRGLDPDEVLKHIYVARAFNSNHQMLLVQQAEDKIKELLNTDRPVKLLIVDSLTSHFR-SEYIG---RGALAERQQKLA  167 (254)
T ss_dssp             HTTTCCHHHHGGGEEEEECCSHHHHHHHHHHHHHHHHHSSSSSSCEEEEEEETSSTTHH-HHCCS---TTTHHHHHHHHH
T ss_pred             HhcCCChHHhhhhhhhhhhccchhHHHHHHhhhhhhHHHHhhccCceeEeecchhheee-hhhcc---cchhhhhHHHHH
Confidence              344432    23333344333332222211        1235678999999998873 22211   122334455567


Q ss_pred             HHHHHHHHHHhccCcEEEEEeccccccCCCCCCCCCccccccccccccccceEEEEEeccc
Q 021239          234 QALRKIHYSLCQSHTLIIFLNQVRFSAKSGQGLGRMDEVTSGGNALKFYAALRLRMMRTRL  294 (315)
Q Consensus       234 ~~l~~L~~~~~~~~i~VI~inq~~~~~~~~~~~~~~~~~~~gG~~~~~~~~~rl~l~k~~~  294 (315)
                      +.+..+..++...++++++++|.+...  +..++ ....+.||..|.|.++.++.++|.+.
T Consensus       168 ~~~~~~~~~~~~~~~~v~~~~~~~~~~--~~~~~-~~~~~~~~~~~~~~~~~~l~l~~~~~  225 (254)
T d1pzna2         168 KHLADLHRLANLYDIAVFVTNQVQARP--DAFFG-DPTRPIGGHILAHSATLRVYLRKGKG  225 (254)
T ss_dssp             HHHHHHHHHHHHTTCEEEEEEECC------------------CCCCCTTCSEEEEEEECTT
T ss_pred             HHHHHHHHHhhccceEEEecceEeecc--CcccC-CceeecCceeehhhceEEEEEEecCC
Confidence            778888888889999999999998877  33444 66778999999999999999998754

>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=99.88  E-value=2.2e-22  Score=175.13  Aligned_cols=190  Identities=23%  Similarity=0.308  Sum_probs=140.5

Q ss_pred             CCCCccccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHhc----------------CCeEEEEecCCC
Q 021239           96 RRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKL----------------GGYCAYLDVENA  159 (315)
Q Consensus        96 ~~~~~i~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~~----------------g~~v~~i~~E~~  159 (315)
                      ....+||||+++||++|+ ||+++|++++|+|+||+|||+||+++|.+++..                +.+++|+++|..
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            356789999999999999 999999999999999999999999999998753                347899999988


Q ss_pred             CChHH----HHHcCCCC----CCeEEeCCCCHHHHHHHHH----HHHHcCCccEEeehhHhhhccccccCCCccCCChHH
Q 021239          160 LDPSL----AEAMGIDA----ENLLIAQPDSAENLLSVVD----TLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDA  227 (315)
Q Consensus       160 ~~~~~----~~~~g~~~----~~l~i~~~~~~e~~~~~i~----~l~~~~~~~lVVIDsl~~l~~~~~~~~~~~~~~~~~  227 (315)
                      .....    ++.+..+.    .++.+.++...+++...+.    .+.....+.++++|++..+.. .....   ......
T Consensus        90 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vid~i~~~~~-~~~~~---~~~~~~  165 (258)
T d2i1qa2          90 FRPERIMQMAEHAGIDGQTVLDNTFVARAYNSDMQMLFAEKIEDLIQEGNNIKLVVIDSLTSTFR-NEYTG---RGKLAE  165 (258)
T ss_dssp             CCHHHHHHHHHHHTCCHHHHHHTEEEEECSSHHHHHHHHHTHHHHHHTTCEEEEEEEECSSHHHH-HHCCC---TTSHHH
T ss_pred             cCHHHHHHHHhhcchhhhhhhhcceeeccCchhhHHHHHHHHHHHHHHhcccceeeeeEEEEeec-hhccc---cccchh
Confidence            87743    33444442    3566777776665554443    334456788999999988763 22221   122334


Q ss_pred             HHHHHHHHHHHHHHHHhccCcEEEEEeccccccCCCCCCCCCccccccccccccccceEEEEEecc
Q 021239          228 QSRIMTQALRKIHYSLCQSHTLIIFLNQVRFSAKSGQGLGRMDEVTSGGNALKFYAALRLRMMRTR  293 (315)
Q Consensus       228 q~r~i~~~l~~L~~~~~~~~i~VI~inq~~~~~~~~~~~~~~~~~~~gG~~~~~~~~~rl~l~k~~  293 (315)
                      +.....+.++.+..++..+++++++++|.+.....  ... ....++||..|.+.++.++.++|.+
T Consensus       166 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~-~~~~~~~~~~~~~~~~~~i~l~~~~  228 (258)
T d2i1qa2         166 RQQKLGRHMATLNKLADLFNCVVLVTNQVSAKPDA--FFG-MAEQAIGGHIVGHAATFRFFVRKGK  228 (258)
T ss_dssp             HHHHHHHHHHHHHHHHHHTTCEEEEEECEECC----------CCEESSHHHHHHHCSEEEEEEECS
T ss_pred             hHHHHHHHHHHHHHhhhhcceEEEeecceEecccc--ccC-CcccccCcchhhhhceEEEEEEEcC
Confidence            44456677788888889999999999999877643  222 5567899999999999999999865

>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=99.87  E-value=3.6e-22  Score=178.26  Aligned_cols=190  Identities=11%  Similarity=0.178  Sum_probs=127.6

Q ss_pred             CCCCccccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHH-hcCCeEEEEecCCCCChHHHH----HcCC
Q 021239           96 RRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQ-KLGGYCAYLDVENALDPSLAE----AMGI  170 (315)
Q Consensus        96 ~~~~~i~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~-~~g~~v~~i~~E~~~~~~~~~----~~g~  170 (315)
                      ....+|+||++.||++++  |+.+|++++|+|+||+|||+|+++++.+++ ..|.+|+|+++|++......+    ..++
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            456789999999999986  999999999999999999999999999875 568999999999987652211    1122


Q ss_pred             CC--------------------------CCeEEeC---CCCHHHHHHHHHHHHHcCCccEEeehhHhhhccccccCCCcc
Q 021239          171 DA--------------------------ENLLIAQ---PDSAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPIN  221 (315)
Q Consensus       171 ~~--------------------------~~l~i~~---~~~~e~~~~~i~~l~~~~~~~lVVIDsl~~l~~~~~~~~~~~  221 (315)
                      +.                          ..+.+..   ..+.+++...+.......++++||||+++.+.+... .+   
T Consensus        91 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vvID~l~~l~~~~~-~~---  166 (277)
T d1cr2a_          91 RLRQSDSLKREIIENGKFDQWFDELFGNDTFHLYDSFAEAETDRLLAKLAYMRSGLGCDVIILDHISIVVSASG-ES---  166 (277)
T ss_dssp             CGGGCHHHHHHHHHTSHHHHHHHHHHSSSCEEEECCC-CCCHHHHHHHHHHHHHTTCCSEEEEEEEEC------------
T ss_pred             CchhhcccccchhhhHHHHHHHHHhhccceeeeeccccchhHHHHHHHhhhhhhccCcceEEEccccccccccc-cc---
Confidence            21                          1223322   346778888888888888999999999987763211 11   


Q ss_pred             CCChHHHHHHHHHHHHHHHHHHhccCcEEEEEeccccccCCCCC-CC--CCccccccccccccccceEEEEEeccccc
Q 021239          222 GMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVRFSAKSGQG-LG--RMDEVTSGGNALKFYAALRLRMMRTRLFK  296 (315)
Q Consensus       222 ~~~~~~q~r~i~~~l~~L~~~~~~~~i~VI~inq~~~~~~~~~~-~~--~~~~~~~gG~~~~~~~~~rl~l~k~~~~k  296 (315)
                           .....+...+..|+.++++++|+||+++|+++...+... .+  .......|+..|.+.++..+.+.|.+...
T Consensus       167 -----~~~~~~~~~~~~l~~lA~~~~i~vi~~~q~~r~~~~~~~~~~~~~~~~~~~gS~~i~~~ad~vl~l~r~~~~~  239 (277)
T d1cr2a_         167 -----DERKMIDNLMTKLKGFAKSTGVVLVVICHLKNPDKGKAHEEGRPVSITDLRGSGALRQLSDTIIALERNQQGD  239 (277)
T ss_dssp             -------CHHHHHHHHHHHHHHHHHCCEEEEEEECC---------------------CHHHHHHCSEEEEEECC----
T ss_pred             -----chhHHHHHHHHHHHHHhhhccccceeecccccccccccccccccchhhhcccccchhhhCcEEEEEEecCccC
Confidence                 111234556677777789999999999999876532111 11  01234578999999999999998866543

>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=99.87  E-value=2.7e-22  Score=173.48  Aligned_cols=173  Identities=15%  Similarity=0.156  Sum_probs=123.9

Q ss_pred             CCCCccccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHhc-CCeEEEEecCCCCChH--HHHHcCCCC
Q 021239           96 RRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKL-GGYCAYLDVENALDPS--LAEAMGIDA  172 (315)
Q Consensus        96 ~~~~~i~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~~-g~~v~~i~~E~~~~~~--~~~~~g~~~  172 (315)
                      ....+|+||+++||.+|+ ||+++|++++|+|+||+|||+||++++.+.+.. +.+++|+++|++....  ++...+.+.
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            356889999999999999 999999999999999999999999999876654 5689999999987653  344444432


Q ss_pred             C------CeE------------EeCCCCHHHHHHHHHHHHHcCCccEEeehhHhhhccccccCCCccCCChHHHHHHHHH
Q 021239          173 E------NLL------------IAQPDSAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQ  234 (315)
Q Consensus       173 ~------~l~------------i~~~~~~e~~~~~i~~l~~~~~~~lVVIDsl~~l~~~~~~~~~~~~~~~~~q~r~i~~  234 (315)
                      +      +..            .....+...+++.+...+++.+++++|||+++.+....  ..          .....+
T Consensus        82 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~i~~~~~~~viiD~~~~l~~~~--~~----------~~~~~~  149 (242)
T d1tf7a1          82 AKLVDEGKLFILDASPDPEGQEVVGGFDLSALIERINYAIQKYRARRVSIDSVTSVFQQY--DA----------SSVVRR  149 (242)
T ss_dssp             HHHHHTTSEEEEECCCCSSCCSCCSSHHHHHHHHHHHHHHHHHTCSEEEEECSTTTSTTT--CC----------HHHHHH
T ss_pred             HHHHHhcchhhhhhccchhhhhhhccccHHHHHHHHHHHHHhhccchhhhhHHHHHHHhc--cC----------hhHHHH
Confidence            2      111            11112345667777888888899999999999887321  11          112345


Q ss_pred             HHHHHHHHHhccCcEEEEEeccccccCCCCCCCCCccccccccccccccceEEEEEe
Q 021239          235 ALRKIHYSLCQSHTLIIFLNQVRFSAKSGQGLGRMDEVTSGGNALKFYAALRLRMMR  291 (315)
Q Consensus       235 ~l~~L~~~~~~~~i~VI~inq~~~~~~~~~~~~~~~~~~~gG~~~~~~~~~rl~l~k  291 (315)
                      .+..+.+.+++.++++++++|.....+.          ..+...+.+.++..+.+..
T Consensus       150 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~----------~~~~~~~~~~~d~i~~~~~  196 (242)
T d1tf7a1         150 ELFRLVARLKQIGATTVMTTERIEEYGP----------IARYGVEEFVSDNVVILRN  196 (242)
T ss_dssp             HHHHHHHHHHHHTCEEEEEEECSSSSSC----------SSTTSCHHHHCSEEEEEEE
T ss_pred             HHHHHHHHHHhcCCceEEeecccccccc----------cccCcceeeeccEEEEEEE
Confidence            5667777779999999999998776522          1223345556666666554

>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=99.86  E-value=8.2e-22  Score=167.44  Aligned_cols=191  Identities=24%  Similarity=0.305  Sum_probs=116.7

Q ss_pred             CCccccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHhc------CCeEEEEecCCCCChHHHHH----
Q 021239           98 GPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKL------GGYCAYLDVENALDPSLAEA----  167 (315)
Q Consensus        98 ~~~i~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~~------g~~v~~i~~E~~~~~~~~~~----  167 (315)
                      ..+||||+++||.+|+ ||+++|++++|+||||+|||+||++++.+++..      +..+.+++.+..........    
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 999999999999999999999999999998754      24667777776666543322    


Q ss_pred             cCCCC----CCeEEeCCCCHH---HHHHHHHHHHHcCCccEEeehhHhhhccccccCCCccCCChHHHHHHHHHHHHHHH
Q 021239          168 MGIDA----ENLLIAQPDSAE---NLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIH  240 (315)
Q Consensus       168 ~g~~~----~~l~i~~~~~~e---~~~~~i~~l~~~~~~~lVVIDsl~~l~~~~~~~~~~~~~~~~~q~r~i~~~l~~L~  240 (315)
                      ...+.    .++.........   +...............++.+|++..+... .....   ...........+.++.+.
T Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~---~~~~~~~~~~~~~~~~l~  156 (242)
T d1n0wa_          81 YGLSGSDVLDNVAYARAFNTDHQTQLLYQASAMMVESRYALLIVDSATALYRT-DYSGR---GELSARQMHLARFLRMLL  156 (242)
T ss_dssp             TTCCHHHHHHTEEEEECCSHHHHHHHHHHHHHHHHHSCEEEEEEETSSGGGC-----------CHHHHHHHHHHHHHHHH
T ss_pred             cccchhhhhhhhhhhhhhchhhhhhhhhhhhhhhhhhhheeecccceeeeehh-hhhcc---cchhhhHHHHHHHHHHHH
Confidence            22221    133333333333   33334444455667788999988877632 22111   122233444667777888


Q ss_pred             HHHhccCcEEEEEeccccccCCCCCCCCCccccccccccccccceEEEEEecc
Q 021239          241 YSLCQSHTLIIFLNQVRFSAKSGQGLGRMDEVTSGGNALKFYAALRLRMMRTR  293 (315)
Q Consensus       241 ~~~~~~~i~VI~inq~~~~~~~~~~~~~~~~~~~gG~~~~~~~~~rl~l~k~~  293 (315)
                      .++...++++++++|+................+.+|..|.|+++.|+.++|.+
T Consensus       157 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~i~l~~~~  209 (242)
T d1n0wa_         157 RLADEFGVAVVITNQVVAQVDGAAMFAADPKKPIGGNIIAHASTTRLYLRKGR  209 (242)
T ss_dssp             HHHHHHCCEEEEEC-------------------------CCTTCEEEEEEECS
T ss_pred             HhhhhcceeEEEEEEEeccccccceeecccccccchhhHHHhCcEEEEEEEcC
Confidence            88899999999999998776443333335567899999999999999999865

>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=99.74  E-value=1.4e-18  Score=154.16  Aligned_cols=179  Identities=17%  Similarity=0.194  Sum_probs=112.2

Q ss_pred             ccccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHh----------cCCeEEEEecCCCCCh--HHHHH
Q 021239          100 VISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQK----------LGGYCAYLDVENALDP--SLAEA  167 (315)
Q Consensus       100 ~i~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~----------~g~~v~~i~~E~~~~~--~~~~~  167 (315)
                      .+..+.+.+|++++  |+.+|++++|+|+||+|||+|++++|.+++.          .+++|+|++.|+....  .|+..
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            45667788999997  5667999999999999999999999998764          3458999999998664  34444


Q ss_pred             cCCCCC---------CeEEeCCC------CHHHHHHHHHHHHHcCCccEEeehhHhhhccccccCCCccCCChHHHHHHH
Q 021239          168 MGIDAE---------NLLIAQPD------SAENLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIM  232 (315)
Q Consensus       168 ~g~~~~---------~l~i~~~~------~~e~~~~~i~~l~~~~~~~lVVIDsl~~l~~~~~~~~~~~~~~~~~q~r~i  232 (315)
                      ++.+..         ++.+....      ..++....+..  ...++++||||+++.+....+  +      ...   .+
T Consensus        89 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~lvviD~l~~~~~~~~--~------~~~---~~  155 (274)
T d1nlfa_          89 LGAHLSAEERQAVADGLLIQPLIGSLPNIMAPEWFDGLKR--AAEGRRLMVLDTLRRFHIEEE--N------ASG---PM  155 (274)
T ss_dssp             HHTTSCHHHHHHHHHHEEECCCTTSCCCTTSHHHHHHHHH--HHTTCSEEEEECGGGGCCSCT--T------CHH---HH
T ss_pred             HhhccChhhhhcccccceeccccCccchhHHHHHHHHHHH--hccCccEEecCchhhhccccc--c------chh---hH
Confidence            433221         22222211      11222222222  235789999999998874211  1      112   24


Q ss_pred             HHHHHHHHHHHhccCcEEEEEeccccccCCCCCCCCCccccccccccccccceEEEEEeccc
Q 021239          233 TQALRKIHYSLCQSHTLIIFLNQVRFSAKSGQGLGRMDEVTSGGNALKFYAALRLRMMRTRL  294 (315)
Q Consensus       233 ~~~l~~L~~~~~~~~i~VI~inq~~~~~~~~~~~~~~~~~~~gG~~~~~~~~~rl~l~k~~~  294 (315)
                      .+.++.|..++++++|+||+++|.++.....+... ......|+.+|.+.++.++.|.|...
T Consensus       156 ~~~~~~l~~la~~~~~~vi~v~H~~K~~~~~~~~~-~~~~~~Gssai~~~a~~v~~l~r~~~  216 (274)
T d1nlfa_         156 AQVIGRMEAIAADTGCSIVFLHHASKGAAMMGAGD-QQQASRGSSVLVDNIRWQSYLSSMTS  216 (274)
T ss_dssp             HHHHHHHHHHHHHHCCEEEEEEEC---------------------CTGGGCSCEEEEEECCH
T ss_pred             HHHHHHHHHHhhcCCCceehhhhccccccccCCcc-cccccccHHHHHhhccEEEEEEecch
Confidence            45667777778999999999999986532111110 12346799999999999999999754

>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=98.79  E-value=2.6e-09  Score=91.95  Aligned_cols=128  Identities=13%  Similarity=0.170  Sum_probs=73.3

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCC-CChHHHHHcCCCCCCeEEeCCCCHH----------
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENA-LDPSLAEAMGIDAENLLIAQPDSAE----------  184 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~-~~~~~~~~~g~~~~~l~i~~~~~~e----------  184 (315)
                      -+++|+++.|.||+|+|||||+..++.-.....+.+ +|+...- ......+.+|+-+++..+....+..          
T Consensus        28 ~v~~Ge~~~liGpsGaGKSTLl~~i~Gl~~p~sG~I-~i~g~~i~~~~~~~r~ig~v~Q~~~l~~~ltv~enl~~~~~~~  106 (239)
T d1v43a3          28 TIKDGEFLVLLGPSGCGKTTTLRMIAGLEEPTEGRI-YFGDRDVTYLPPKDRNISMVFQSYAVWPHMTVYENIAFPLKIK  106 (239)
T ss_dssp             EECTTCEEEEECCTTSSHHHHHHHHHTSSCCSEEEE-EETTEECTTSCGGGGTEEEEEC------CCCHHHHHHTTCC--
T ss_pred             EECCCCEEEEECCCCChHHHHHHHHHcCCCCCCCEE-EEcceecccCCcccceEEEEeechhhcccchHHHHHHHHHHHc
Confidence            367999999999999999999987766554444454 4443322 1112234466554433222222211          


Q ss_pred             -----HHHHHHHHHHH-----------------------------cCCccEEeehhHhhhccccccCCCccCCChHHHHH
Q 021239          185 -----NLLSVVDTLTK-----------------------------SGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSR  230 (315)
Q Consensus       185 -----~~~~~i~~l~~-----------------------------~~~~~lVVIDsl~~l~~~~~~~~~~~~~~~~~q~r  230 (315)
                           +..+.+.++++                             ..+|++++.|...+-..             ....+
T Consensus       107 ~~~~~~~~~~~~~~l~~~~l~~~~~~~~~~LSGGq~QRvaiAraL~~~P~iLllDEPts~LD-------------~~~~~  173 (239)
T d1v43a3         107 KFPKDEIDKRVRWAAELLQIEELLNRYPAQLSGGQRQRVAVARAIVVEPDVLLMDEPLSNLD-------------AKLRV  173 (239)
T ss_dssp             CCCHHHHHHHHHHHHHHTTCGGGTTSCTTTCCSSCHHHHHHHHHHTTCCSEEEEESTTTTSC-------------HHHHH
T ss_pred             CCCHHHHHHHHHHHHHHcCChhhhcCChhhCCHHHHHHHHHHhhhccCCCceeecCCcccCC-------------HHHHH
Confidence                 11111111110                             25788999997765541             12233


Q ss_pred             HHHHHHHHHHHHHhccCcEEEEEecccccc
Q 021239          231 IMTQALRKIHYSLCQSHTLIIFLNQVRFSA  260 (315)
Q Consensus       231 ~i~~~l~~L~~~~~~~~i~VI~inq~~~~~  260 (315)
                      .+.+.++++.   ++.|+|||+++|-....
T Consensus       174 ~i~~ll~~l~---~~~g~tii~vTHd~~~a  200 (239)
T d1v43a3         174 AMRAEIKKLQ---QKLKVTTIYVTHDQVEA  200 (239)
T ss_dssp             HHHHHHHHHH---HHHTCEEEEEESCHHHH
T ss_pred             HHHHHHHHHH---HhcCCeEEEEeCCHHHH
Confidence            4556666664   78899999999987655

>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=98.79  E-value=3.3e-09  Score=90.94  Aligned_cols=56  Identities=20%  Similarity=0.318  Sum_probs=36.0

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCC-hHHHHHcCCCCC
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALD-PSLAEAMGIDAE  173 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~-~~~~~~~g~~~~  173 (315)
                      +++|+++.|.||+|||||||+..++.-.....+.+ +++.+.-.. ....+.+|+.++
T Consensus        23 i~~Gei~~liGpsGsGKSTLl~~i~Gl~~p~sG~I-~i~g~~i~~~~~~~r~ig~v~Q   79 (232)
T d2awna2          23 IHEGEFVVFVGPSGCGKSTLLRMIAGLETITSGDL-FIGEKRMNDTPPAERGVGMVFQ   79 (232)
T ss_dssp             ECTTCEEEEECCTTSSHHHHHHHHHTSSCCSEEEE-EESSSCCTTSCGGGTCEEEECS
T ss_pred             EcCCCEEEEECCCCChHHHHHHHHhcCCCCCCCEE-EECCEECCCCchhhceeeeecc
Confidence            67999999999999999999987665544444444 444433221 122244565444

>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=98.70  E-value=1e-08  Score=87.68  Aligned_cols=41  Identities=27%  Similarity=0.358  Sum_probs=29.5

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecC
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVE  157 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E  157 (315)
                      -+++|+++.|.||+|||||||+..++.-.....+. ++|+..
T Consensus        27 ~i~~Ge~~~iiG~sGsGKSTLl~~i~gl~~p~sG~-I~~~g~   67 (230)
T d1l2ta_          27 NIKEGEFVSIMGPSGSGKSTMLNIIGCLDKPTEGE-VYIDNI   67 (230)
T ss_dssp             EECTTCEEEEECSTTSSHHHHHHHHTTSSCCSEEE-EEETTE
T ss_pred             EEcCCCEEEEECCCCCCcchhhHhccCCCCCCcce-eEECCE
Confidence            36799999999999999999987555443333444 455543

>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=98.67  E-value=1.6e-08  Score=86.99  Aligned_cols=126  Identities=16%  Similarity=0.255  Sum_probs=75.5

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCC--Ch-H---HHHHcCCCCCCeEEeCCCCHHH----
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENAL--DP-S---LAEAMGIDAENLLIAQPDSAEN----  185 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~--~~-~---~~~~~g~~~~~l~i~~~~~~e~----  185 (315)
                      -+++|+++.|.||+|||||||+..++.-.....+.+ +++.++-.  .. .   ..+.+|+.+++.......+..+    
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            367999999999999999999977765443334444 44443321  11 1   1245777666543332222111    


Q ss_pred             -----------H-------------------------------HHHHHHHHHcCCccEEeehhHhhhccccccCCCccCC
Q 021239          186 -----------L-------------------------------LSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGM  223 (315)
Q Consensus       186 -----------~-------------------------------~~~i~~l~~~~~~~lVVIDsl~~l~~~~~~~~~~~~~  223 (315)
                                 .                               +.+.+.+  ..+|++++.|..++-..           
T Consensus       106 ~l~~~~~~~~~~~~~v~~~L~~vgL~~~~~~~~~~LSGG~~QRvaiAraL--~~~P~lLllDEPt~~LD-----------  172 (240)
T d3dhwc1         106 PLELDNTPKDEVKRRVTELLSLVGLGDKHDSYPSNLSGGQKQRVAIARAL--ASNPKVLLCDEATSALD-----------  172 (240)
T ss_dssp             HHHTTTCCTTHHHHHHHHHHHHHSTTTTTSSCBSCCCHHHHHHHHHHHHH--HTCCSEEEEESGGGSSC-----------
T ss_pred             HHHHcCCCHHHHHHHHHHHHHHcCCchhhhCChhhCCHHHHHHHHHhhhh--ccCCCeEEeccccccCC-----------
Confidence                       1                               1111112  25788999997765541           


Q ss_pred             ChHHHHHHHHHHHHHHHHHHhccCcEEEEEecccccc
Q 021239          224 YSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVRFSA  260 (315)
Q Consensus       224 ~~~~q~r~i~~~l~~L~~~~~~~~i~VI~inq~~~~~  260 (315)
                        ....+.+.+.++.|.   ++.|+|||+++|-....
T Consensus       173 --~~~~~~i~~~l~~l~---~~~g~tvi~vTHdl~~~  204 (240)
T d3dhwc1         173 --PATTRSILELLKDIN---RRLGLTILLITHEMDVV  204 (240)
T ss_dssp             --HHHHHHHHHHHHHHH---HHHCCEEEEEBSCHHHH
T ss_pred             --HHHhhHHHHHHHHHH---hccCCEEEEEcCCHHHH
Confidence              122334555666554   78899999999987665

>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=98.60  E-value=1.9e-08  Score=85.96  Aligned_cols=128  Identities=13%  Similarity=0.118  Sum_probs=77.4

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCC-hHHHHHcCCCCCCeEEeCCCCHHHHHHHHH---
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALD-PSLAEAMGIDAENLLIAQPDSAENLLSVVD---  191 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~-~~~~~~~g~~~~~l~i~~~~~~e~~~~~i~---  191 (315)
                      -+++|+++.|.||+|||||||+..++.-.....+.+. |+.+.-.. ....+.+|+-+++..++...+..+.+....   
T Consensus        22 ~i~~Ge~~~liGpsGaGKSTll~~l~Gl~~p~sG~I~-~~G~~i~~~~~~~r~ig~v~Q~~~l~~~~tV~enl~~~~~~~  100 (229)
T d3d31a2          22 KVESGEYFVILGPTGAGKTLFLELIAGFHVPDSGRIL-LDGKDVTDLSPEKHDIAFVYQNYSLFPHMNVKKNLEFGMRMK  100 (229)
T ss_dssp             EECTTCEEEEECCCTHHHHHHHHHHHTSSCCSEEEEE-ETTEECTTSCHHHHTCEEECTTCCCCTTSCHHHHHHHHHHHH
T ss_pred             EECCCCEEEEECCCCCcHHHHHHHHhcCcCCCCCEEE-EccEeccccchhHhcceeeccccccCccccHHHHHHHHHhhc
Confidence            4789999999999999999999887765544455554 44333222 234456787776655444444443222111   


Q ss_pred             ---------HHH-----------------------------HcCCccEEeehhHhhhccccccCCCccCCChHHHHHHHH
Q 021239          192 ---------TLT-----------------------------KSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMT  233 (315)
Q Consensus       192 ---------~l~-----------------------------~~~~~~lVVIDsl~~l~~~~~~~~~~~~~~~~~q~r~i~  233 (315)
                               +.+                             --.+|++++.|..+.-..             ......+.
T Consensus       101 ~~~~~~~~~~~l~~~~l~~~~~~~~~~LSGG~~QRvaiAraL~~~P~iLllDEPts~LD-------------~~~~~~i~  167 (229)
T d3d31a2         101 KIKDPKRVLDTARDLKIEHLLDRNPLTLSGGEQQRVALARALVTNPKILLLDEPLSALD-------------PRTQENAR  167 (229)
T ss_dssp             CCCCHHHHHHHHHHTTCTTTTTSCGGGSCHHHHHHHHHHHHTTSCCSEEEEESSSTTSC-------------HHHHHHHH
T ss_pred             cccHHHHHHHHHHHhcchhhHhCChhhCCHHHhcchhhhhhhhccCCceeecCCCcCCC-------------HHHHHHHH
Confidence                     000                             024677888876554431             12233344


Q ss_pred             HHHHHHHHHHhccCcEEEEEecccccc
Q 021239          234 QALRKIHYSLCQSHTLIIFLNQVRFSA  260 (315)
Q Consensus       234 ~~l~~L~~~~~~~~i~VI~inq~~~~~  260 (315)
                      +.++++.   ++.|+|||+++|-....
T Consensus       168 ~~l~~l~---~~~g~tii~vtHd~~~~  191 (229)
T d3d31a2         168 EMLSVLH---KKNKLTVLHITHDQTEA  191 (229)
T ss_dssp             HHHHHHH---HHTTCEEEEEESCHHHH
T ss_pred             HHHHHHH---hcCCcEEEEEcCCHHHH
Confidence            5555554   78899999999987654

>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=98.60  E-value=1.1e-08  Score=88.04  Aligned_cols=35  Identities=20%  Similarity=0.258  Sum_probs=27.8

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeE
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYC  151 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v  151 (315)
                      +++|+++.|.||+|+|||||+..++.......+.+
T Consensus        26 i~~Ge~~~liG~sGaGKSTll~~i~gl~~p~sG~I   60 (240)
T d1g2912          26 VKDGEFMILLGPSGCGKTTTLRMIAGLEEPSRGQI   60 (240)
T ss_dssp             EETTCEEEEECSTTSSHHHHHHHHHTSSCCSEEEE
T ss_pred             EcCCCEEEEECCCCChHHHHHHHHhcCCCCCCCEE
Confidence            67999999999999999999987765544434444

>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=98.57  E-value=2.5e-07  Score=80.27  Aligned_cols=122  Identities=16%  Similarity=0.096  Sum_probs=69.8

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCChHHHHHcCCCCCCeEEeCCCCHHHHHHHHHHHHHc
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTKS  196 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~~~~~~~g~~~~~l~i~~~~~~e~~~~~i~~l~~~  196 (315)
                      .+...-++++||||+|||+++..+|.++   +.++++++...-...             +   ....+..+..+-+..+.
T Consensus        42 ~~~~~~iLL~GppGtGKT~la~~iA~~~---~~~~~~i~~~~l~~~-------------~---~g~~~~~l~~~f~~A~~  102 (256)
T d1lv7a_          42 GKIPKGVLMVGPPGTGKTLLAKAIAGEA---KVPFFTISGSDFVEM-------------F---VGVGASRVRDMFEQAKK  102 (256)
T ss_dssp             -CCCCEEEEECCTTSCHHHHHHHHHHHH---TCCEEEECSCSSTTS-------------C---CCCCHHHHHHHHHHHHT
T ss_pred             CCCCCeEEeeCCCCCCccHHHHHHHHHc---CCCEEEEEhHHhhhc-------------c---hhHHHHHHHHHHHHHHH
Confidence            3444568999999999999999998776   567777775432211             0   11123333333334456


Q ss_pred             CCccEEeehhHhhhccccccCCCccCCChHHHHHHHHHHHHHHHHHHhccCcEEEEEecccccc
Q 021239          197 GSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVRFSA  260 (315)
Q Consensus       197 ~~~~lVVIDsl~~l~~~~~~~~~~~~~~~~~q~r~i~~~l~~L~~~~~~~~i~VI~inq~~~~~  260 (315)
                      ..|.+|+||.+..+.+....... +.  .....+.+..++..+...-...++.||.++.....+
T Consensus       103 ~~P~il~iDeiD~l~~~r~~~~~-~~--~~~~~~~~~~ll~~~d~~~~~~~v~vIatTn~~~~l  163 (256)
T d1lv7a_         103 AAPCIIFIDEIDAVGRQRGAGLG-GG--HDEREQTLNQMLVEMDGFEGNEGIIVIAATNRPDVL  163 (256)
T ss_dssp             TCSEEEEETTHHHHTCCCSTTSC-CT--TCHHHHHHHHHHHHHHTCCSSSCEEEEEEESCTTTS
T ss_pred             cCCEEEEEEChhhhCccCCCCCC-CC--cHHHHHHHHHHHHHhhCCCCCCCEEEEEeCCCcccC
Confidence            78999999999998742211111 11  112233345555555433234567777555443343

>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=98.53  E-value=7e-08  Score=83.81  Aligned_cols=38  Identities=26%  Similarity=0.317  Sum_probs=30.4

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEE
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAY  153 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~  153 (315)
                      -+++|+++.|.||+|+|||||+..++.......+.+.|
T Consensus        26 ~v~~Gei~~liG~nGaGKSTLl~~i~Gl~~p~~G~I~~   63 (254)
T d1g6ha_          26 SVNKGDVTLIIGPNGSGKSTLINVITGFLKADEGRVYF   63 (254)
T ss_dssp             EEETTCEEEEECSTTSSHHHHHHHHTTSSCCSEEEEEE
T ss_pred             EECCCCEEEEECCCCCcHHHHHHHHHCCCcCCCcEEEE
Confidence            46799999999999999999998887665544455544

>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=98.52  E-value=9.2e-09  Score=88.57  Aligned_cols=38  Identities=21%  Similarity=0.253  Sum_probs=29.6

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEE
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAY  153 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~  153 (315)
                      -+++|+++.|.||+|||||||+..++.-.....+.+.|
T Consensus        27 ~i~~Ge~~~iiG~sGsGKSTll~~i~gl~~p~~G~I~~   64 (242)
T d1oxxk2          27 NIENGERFGILGPSGAGKTTFMRIIAGLDVPSTGELYF   64 (242)
T ss_dssp             EECTTCEEEEECSCHHHHHHHHHHHHTSSCCSEEEEEE
T ss_pred             EECCCCEEEEECCCCCcHHHHHHHHHcCcCCCCceEEE
Confidence            47899999999999999999998877655444444433

>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=98.51  E-value=3.2e-08  Score=84.92  Aligned_cols=124  Identities=11%  Similarity=0.107  Sum_probs=70.7

Q ss_pred             CcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCC-CChHHHHHcCCCCCCeEEeCCCCHH-------------H
Q 021239          120 GRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENA-LDPSLAEAMGIDAENLLIAQPDSAE-------------N  185 (315)
Q Consensus       120 G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~-~~~~~~~~~g~~~~~l~i~~~~~~e-------------~  185 (315)
                      ++++.|.||+|+|||||+..++.-.....+.+ +++..+- .-....+.+|+.+++..+.+..+..             +
T Consensus        24 ~e~~~liGpnGaGKSTll~~i~Gl~~p~~G~I-~~~G~~i~~~~~~~r~ig~v~Q~~~l~~~ltV~enl~~~l~~~~~~~  102 (240)
T d2onka1          24 RDYCVLLGPTGAGKSVFLELIAGIVKPDRGEV-RLNGADITPLPPERRGIGFVPQDYALFPHLSVYRNIAYGLRNVERVE  102 (240)
T ss_dssp             SSEEEEECCTTSSHHHHHHHHHTSSCCSEEEE-EETTEECTTSCTTTSCCBCCCSSCCCCTTSCHHHHHHTTCTTSCHHH
T ss_pred             CEEEEEECCCCChHHHHHHHHHcCCCCCceEE-EECCEECCcCCHHHcCceeeccchhhcccchhhHhhhhhhcccCHHH
Confidence            36889999999999999988877665544554 4443221 1112234567666543333222222             1


Q ss_pred             HHHHHHHHHH-----------------------------cCCccEEeehhHhhhccccccCCCccCCChHHHHHHHHHHH
Q 021239          186 LLSVVDTLTK-----------------------------SGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQAL  236 (315)
Q Consensus       186 ~~~~i~~l~~-----------------------------~~~~~lVVIDsl~~l~~~~~~~~~~~~~~~~~q~r~i~~~l  236 (315)
                      ..+.+.++++                             -.+|+++++|...+-.             +......+.+.+
T Consensus       103 ~~~~v~~~l~~~gl~~~~~~~~~~LSGG~kQRvaiAral~~~P~illlDEPts~L-------------D~~~~~~i~~~i  169 (240)
T d2onka1         103 RDRRVREMAEKLGIAHLLDRKPARLSGGERQRVALARALVIQPRLLLLDEPLSAV-------------DLKTKGVLMEEL  169 (240)
T ss_dssp             HHHHHHHHHHTTTCTTTTTCCGGGSCHHHHHHHHHHHHHTTCCSSBEEESTTSSC-------------CHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCcHhhhhCChhhCCHHHHHHHHHHHHHhccCCceEecCccccC-------------CHHHHHHHHHHH
Confidence            1112222211                             2467788888655443             113333455555


Q ss_pred             HHHHHHHhccCcEEEEEecccccc
Q 021239          237 RKIHYSLCQSHTLIIFLNQVRFSA  260 (315)
Q Consensus       237 ~~L~~~~~~~~i~VI~inq~~~~~  260 (315)
                      +.+.   ++.++|||+++|-....
T Consensus       170 ~~l~---~~~g~tvi~vtHd~~~~  190 (240)
T d2onka1         170 RFVQ---REFDVPILHVTHDLIEA  190 (240)
T ss_dssp             HHHH---HHHTCCEEEEESCHHHH
T ss_pred             HHHH---HhcCCeEEEEeCCHHHH
Confidence            5554   88899999999986554

>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=98.49  E-value=7.8e-08  Score=82.67  Aligned_cols=128  Identities=13%  Similarity=0.154  Sum_probs=73.6

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCCh-HHHHHcCCCCCCeEEeCCCC------------
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP-SLAEAMGIDAENLLIAQPDS------------  182 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~-~~~~~~g~~~~~l~i~~~~~------------  182 (315)
                      -+++|+++.|.||+|+|||||+..++.......+.+.+...+-...+ ...+.+|+.++...+....+            
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            36799999999999999999998877666555555544332222222 23344555444322222111            


Q ss_pred             ---HHHHHHHHHHHH-----------------------------HcCCccEEeehhHhhhccccccCCCccCCChHHHHH
Q 021239          183 ---AENLLSVVDTLT-----------------------------KSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSR  230 (315)
Q Consensus       183 ---~e~~~~~i~~l~-----------------------------~~~~~~lVVIDsl~~l~~~~~~~~~~~~~~~~~q~r  230 (315)
                         ..+..+.+++++                             -..+|+++++|...+-..             ....+
T Consensus       104 ~~~~~~~~~~~~~~l~~~~l~~~~~~~~~~lSgG~~qrv~iA~al~~~p~illLDEPt~gLD-------------~~~~~  170 (238)
T d1vpla_         104 ASSSSEIEEMVERATEIAGLGEKIKDRVSTYSKGMVRKLLIARALMVNPRLAILDEPTSGLD-------------VLNAR  170 (238)
T ss_dssp             CCCHHHHHHHHHHHHHHHCCGGGGGSBGGGCCHHHHHHHHHHHHHTTCCSEEEEESTTTTCC-------------HHHHH
T ss_pred             CCCHHHHHHHHHHHHHhCCCHHHHhhhhhhCCHHHHHHHHHHHHHhcCCCEEEecCCCCCCC-------------HHHHH
Confidence               111111111111                             125788999997664431             12233


Q ss_pred             HHHHHHHHHHHHHhccCcEEEEEecccccc
Q 021239          231 IMTQALRKIHYSLCQSHTLIIFLNQVRFSA  260 (315)
Q Consensus       231 ~i~~~l~~L~~~~~~~~i~VI~inq~~~~~  260 (315)
                      .+.+.++.+    ++.|.|||+++|....+
T Consensus       171 ~i~~~i~~~----~~~g~tii~~tH~l~~~  196 (238)
T d1vpla_         171 EVRKILKQA----SQEGLTILVSSHNMLEV  196 (238)
T ss_dssp             HHHHHHHHH----HHTTCEEEEEECCHHHH
T ss_pred             HHHHHHHHH----HhcCCEEEEEeCCHHHH
Confidence            455555554    45599999999998777

>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=98.47  E-value=7.1e-08  Score=83.05  Aligned_cols=37  Identities=27%  Similarity=0.470  Sum_probs=30.0

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEE
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAY  153 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~  153 (315)
                      +++|+++.|.||+|+|||||...++.......+.+.|
T Consensus        29 i~~Gei~~liGpnGaGKSTl~~~i~Gl~~p~~G~I~~   65 (240)
T d1ji0a_          29 VPRGQIVTLIGANGAGKTTTLSAIAGLVRAQKGKIIF   65 (240)
T ss_dssp             EETTCEEEEECSTTSSHHHHHHHHTTSSCCSEEEEEE
T ss_pred             ECCCCEEEEECCCCCcHHHHHHHHhCCCCCCccEEEe
Confidence            6799999999999999999998887665554555544

>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=98.47  E-value=4.8e-07  Score=75.90  Aligned_cols=91  Identities=21%  Similarity=0.238  Sum_probs=66.9

Q ss_pred             CCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCCh------HHHHHcCCCCCCeEEeCCCCHHHHHHHHH
Q 021239          118 PKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP------SLAEAMGIDAENLLIAQPDSAENLLSVVD  191 (315)
Q Consensus       118 ~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~------~~~~~~g~~~~~l~i~~~~~~e~~~~~i~  191 (315)
                      ....++.+.||+|+||||.+..+|..+..+|.+|++++++-....      .+++.++++..  .+..+.+..+......
T Consensus         8 ~~~~vi~lvGp~GvGKTTTiaKLA~~~~~~g~kV~lit~Dt~R~gA~eQL~~~a~~l~v~~~--~~~~~~~~~~~~~~~~   85 (207)
T d1ls1a2           8 KDRNLWFLVGLQGSGKTTTAAKLALYYKGKGRRPLLVAADTQRPAAREQLRLLGEKVGVPVL--EVMDGESPESIRRRVE   85 (207)
T ss_dssp             CSSEEEEEECCTTTTHHHHHHHHHHHHHHTTCCEEEEECCSSCHHHHHHHHHHHHHHTCCEE--ECCTTCCHHHHHHHHH
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEecccccchHHHHHHHHHHhcCCccc--cccccchhhHHHHHHH
Confidence            456789999999999999999999999999999999998765543      35666776532  2334455666655555


Q ss_pred             HHHHcCCccEEeehhHhhh
Q 021239          192 TLTKSGSIDVIVVDSVAAL  210 (315)
Q Consensus       192 ~l~~~~~~~lVVIDsl~~l  210 (315)
                      ...+..+.++|+||.....
T Consensus        86 ~~~~~~~~d~vlIDTaGr~  104 (207)
T d1ls1a2          86 EKARLEARDLILVDTAGRL  104 (207)
T ss_dssp             HHHHHHTCCEEEEECCCCS
T ss_pred             HHHhhccCcceeecccccc
Confidence            4445567899999976643

>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=98.45  E-value=1.5e-06  Score=73.01  Aligned_cols=88  Identities=14%  Similarity=0.131  Sum_probs=62.1

Q ss_pred             CcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCCh------HHHHHcCCCCCCeEEeCCCCHHHHHHHHHHH
Q 021239          120 GRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP------SLAEAMGIDAENLLIAQPDSAENLLSVVDTL  193 (315)
Q Consensus       120 G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~------~~~~~~g~~~~~l~i~~~~~~e~~~~~i~~l  193 (315)
                      -.++.+.||+|+||||.+..+|..+.++|.+|.+++++--..-      .+++.+|++..  ....+.+...++......
T Consensus         9 p~vi~lvGptGvGKTTTiAKLA~~~~~~g~kV~lit~Dt~R~gA~eQL~~~a~~l~v~~~--~~~~~~d~~~~l~~~~~~   86 (211)
T d2qy9a2           9 PFVILMVGVNGVGKTTTIGKLARQFEQQGKSVMLAAGDTFRAAAVEQLQVWGQRNNIPVI--AQHTGADSASVIFDAIQA   86 (211)
T ss_dssp             TEEEEEECCTTSCHHHHHHHHHHHHHTTTCCEEEECCCTTCHHHHHHHHHHHHHTTCCEE--CCSTTCCHHHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEecccccccchhhhhhhhhhcCCccc--ccccCCCHHHHHHHHHHH
Confidence            4689999999999999999999988888999999998765432      35667776531  122334444444443333


Q ss_pred             HHcCCccEEeehhHhh
Q 021239          194 TKSGSIDVIVVDSVAA  209 (315)
Q Consensus       194 ~~~~~~~lVVIDsl~~  209 (315)
                      .+..+.++|+||.-..
T Consensus        87 a~~~~~d~ilIDTaGr  102 (211)
T d2qy9a2          87 AKARNIDVLIADTAGR  102 (211)
T ss_dssp             HHHTTCSEEEECCCCC
T ss_pred             HHHcCCCEEEeccCCC
Confidence            3456889999997553

>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=98.45  E-value=5.8e-08  Score=84.17  Aligned_cols=39  Identities=33%  Similarity=0.451  Sum_probs=29.6

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEe
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLD  155 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~  155 (315)
                      -+++|+++.|.||+|||||||+..++.-.....+.+ +++
T Consensus        36 ~i~~Ge~vaivG~sGsGKSTLl~li~gl~~p~~G~I-~i~   74 (251)
T d1jj7a_          36 TLRPGEVTALVGPNGSGKSTVAALLQNLYQPTGGQL-LLD   74 (251)
T ss_dssp             EECTTCEEEEECSTTSSHHHHHHHHTTSSCCSEEEE-EET
T ss_pred             EEcCCCEEEEECCCCCcHHHHHHHHhcccCCCcCEE-EEC
Confidence            368999999999999999999987765554444443 444

>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=98.45  E-value=1.3e-06  Score=73.20  Aligned_cols=90  Identities=21%  Similarity=0.224  Sum_probs=62.5

Q ss_pred             CCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCCh------HHHHHcCCCCCCeEEeCCCCHHHHHHHHHH
Q 021239          119 KGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP------SLAEAMGIDAENLLIAQPDSAENLLSVVDT  192 (315)
Q Consensus       119 ~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~------~~~~~~g~~~~~l~i~~~~~~e~~~~~i~~  192 (315)
                      ++.++.++||+|+||||.+..+|..+...|.+|.+++++--..-      .+++.+|++..  ......+..+.......
T Consensus         5 ~~~vi~lvGptGvGKTTTiaKLA~~~~~~g~kV~lit~Dt~R~gA~eQL~~~a~~l~i~~~--~~~~~~d~~~~~~~~~~   82 (207)
T d1okkd2           5 KGRVVLVVGVNGVGKTTTIAKLGRYYQNLGKKVMFCAGDTFRAAGGTQLSEWGKRLSIPVI--QGPEGTDPAALAYDAVQ   82 (207)
T ss_dssp             SSSEEEEECSTTSSHHHHHHHHHHHHHTTTCCEEEECCCCSSTTHHHHHHHHHHHHTCCEE--CCCTTCCHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEEeccccccchhhHhhcccccCceEE--eccCCccHHHHHHHHHH
Confidence            57899999999999999999999988888999999998864432      35677776521  11122334444433333


Q ss_pred             HHHcCCccEEeehhHhhh
Q 021239          193 LTKSGSIDVIVVDSVAAL  210 (315)
Q Consensus       193 l~~~~~~~lVVIDsl~~l  210 (315)
                      ..+..+.++|+||.-...
T Consensus        83 ~~~~~~~d~ilIDTaGr~  100 (207)
T d1okkd2          83 AMKARGYDLLFVDTAGRL  100 (207)
T ss_dssp             HHHHHTCSEEEECCCCCC
T ss_pred             HHHHCCCCEEEcCccccc
Confidence            333447899999976643

>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=98.42  E-value=2.7e-07  Score=79.65  Aligned_cols=123  Identities=15%  Similarity=0.021  Sum_probs=66.0

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCChHHHHHcCCCCCCeEEeCCCCHHHHHHHHHHHHH
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTK  195 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~~~~~~~g~~~~~l~i~~~~~~e~~~~~i~~l~~  195 (315)
                      |.+...-++++||||+|||+++..++...   +.++++++...     ....           .....+..+..+-...+
T Consensus        38 g~~~~~giLl~GppGtGKT~la~aia~~~---~~~~~~i~~~~-----l~~~-----------~~g~~~~~l~~~f~~a~   98 (247)
T d1ixza_          38 GARIPKGVLLVGPPGVGKTHLARAVAGEA---RVPFITASGSD-----FVEM-----------FVGVGAARVRDLFETAK   98 (247)
T ss_dssp             TCCCCSEEEEECCTTSSHHHHHHHHHHHT---TCCEEEEEHHH-----HHHS-----------CTTHHHHHHHHHHHHHT
T ss_pred             CCCCCceEEEecCCCCChhHHHHHHHHHc---CCCEEEEEhHH-----hhhc-----------cccHHHHHHHHHHHHHH
Confidence            34444558999999999999999998755   66777776411     1110           01112333333334445


Q ss_pred             cCCccEEeehhHhhhccccccCCCccCCChHHHHHHHHHHHHHHHHHHhccCcEEEEEecccccc
Q 021239          196 SGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVRFSA  260 (315)
Q Consensus       196 ~~~~~lVVIDsl~~l~~~~~~~~~~~~~~~~~q~r~i~~~l~~L~~~~~~~~i~VI~inq~~~~~  260 (315)
                      ...|.+|+||.+..+... ......  .......+.+..++..+..+-...++.||.+++-...+
T Consensus        99 ~~~p~Ii~iDeid~l~~~-r~~~~~--~~~~~~~~~~~~ll~~~d~~~~~~~vivi~tTn~~~~l  160 (247)
T d1ixza_          99 RHAPCIVFIDEIDAVGRK-RGSGVG--GGNDEREQTLNQLLVEMDGFEKDTAIVVMAATNRPDIL  160 (247)
T ss_dssp             TSSSEEEEEETHHHHHC------------CHHHHHHHHHHHHHHHTCCTTCCEEEEEEESCGGGS
T ss_pred             HcCCEEEEEEChhhhCcc-CCCCCC--CCcHHHHHHHHHHHHHhhCCCCCCCEEEEEeCCCcccc
Confidence            668899999999988742 111111  11112233344455444333234566666444333333

>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=98.40  E-value=1.4e-07  Score=81.07  Aligned_cols=56  Identities=23%  Similarity=0.343  Sum_probs=36.8

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCC---ChHHHHHcCCCCC
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENAL---DPSLAEAMGIDAE  173 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~---~~~~~~~~g~~~~  173 (315)
                      +++|+.+.|.|++|+|||||+..++.......+.+ +|+...-.   ...+.+.+++.++
T Consensus        26 i~~Ge~vaIvG~sGsGKSTLl~ll~gl~~p~~G~I-~i~g~~i~~~~~~~lr~~i~~v~Q   84 (241)
T d2pmka1          26 IKQGEVIGIVGRSGSGKSTLTKLIQRFYIPENGQV-LIDGHDLALADPNWLRRQVGVVLQ   84 (241)
T ss_dssp             EETTCEEEEECSTTSSHHHHHHHHTTSSCCSEEEE-EETTEETTTSCHHHHHHHEEEECS
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHHhcCCCCCCEE-EECCEEecccchhhhhceEEEEec
Confidence            67999999999999999999988776554444444 44432211   1234455655444

>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=98.38  E-value=3.1e-07  Score=79.53  Aligned_cols=40  Identities=30%  Similarity=0.439  Sum_probs=30.0

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEec
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDV  156 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~  156 (315)
                      -+++|+.+.|.||+|||||||+..++.-.....+.+ +++.
T Consensus        37 ~i~~Ge~iaivG~sGsGKSTLl~ll~gl~~p~~G~I-~i~g   76 (253)
T d3b60a1          37 KIPAGKTVALVGRSGSGKSTIASLITRFYDIDEGHI-LMDG   76 (253)
T ss_dssp             EECTTCEEEEEECTTSSHHHHHHHHTTTTCCSEEEE-EETT
T ss_pred             EEcCCCEEEEECCCCChHHHHHHHHhcccCCCccEE-EECC
Confidence            367999999999999999999987765554443443 4443

>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=98.37  E-value=1.6e-06  Score=72.91  Aligned_cols=103  Identities=22%  Similarity=0.281  Sum_probs=66.5

Q ss_pred             EEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCChHHHHHcCCCCCCeEEeCCCCHHHHHHHHHHHHHcCCccE
Q 021239          122 IVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTKSGSIDV  201 (315)
Q Consensus       122 i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~~~~~~~g~~~~~l~i~~~~~~e~~~~~i~~l~~~~~~~l  201 (315)
                      .+.|+||+|+|||+|+..++.++...+..++|++....... ....+          ......++.+.+      ...++
T Consensus        38 ~l~l~G~~G~GKTHLl~A~~~~~~~~~~~~~~~~~~~~~~~-~~~~~----------~~~~~~~~~~~~------~~~dl  100 (213)
T d1l8qa2          38 PIFIYGSVGTGKTHLLQAAGNEAKKRGYRVIYSSADDFAQA-MVEHL----------KKGTINEFRNMY------KSVDL  100 (213)
T ss_dssp             SEEEECSSSSSHHHHHHHHHHHHHHTTCCEEEEEHHHHHHH-HHHHH----------HHTCHHHHHHHH------HTCSE
T ss_pred             cEEEECCCCCcHHHHHHHHHHHhccCccceEEechHHHHHH-HHHHH----------HccchhhHHHHH------hhccc
Confidence            37899999999999999999999999999999985322111 00000          001112222221      26899


Q ss_pred             EeehhHhhhccccccCCCccCCChHHHHHHHHHHHHHHHHHHhccCcEEEEEeccc
Q 021239          202 IVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVR  257 (315)
Q Consensus       202 VVIDsl~~l~~~~~~~~~~~~~~~~~q~r~i~~~l~~L~~~~~~~~i~VI~inq~~  257 (315)
                      ++||-+..+....            .    ....+-.+.+.+.+.+..+|+++...
T Consensus       101 l~iDDi~~i~~~~------------~----~~~~lf~lin~~~~~~~~iiits~~~  140 (213)
T d1l8qa2         101 LLLDDVQFLSGKE------------R----TQIEFFHIFNTLYLLEKQIILASDRH  140 (213)
T ss_dssp             EEEECGGGGTTCH------------H----HHHHHHHHHHHHHHTTCEEEEEESSC
T ss_pred             hhhhhhhhhcCch------------H----HHHHHHHHHHHHhhccceEEEecCCc
Confidence            9999999886311            1    11234455556678899999888764

>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=98.36  E-value=4.6e-07  Score=78.94  Aligned_cols=124  Identities=16%  Similarity=0.130  Sum_probs=70.4

Q ss_pred             CCCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCChHHHHHcCCCCCCeEEeCCCCHHHHHHHHHHHH
Q 021239          115 GGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLT  194 (315)
Q Consensus       115 GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~~~~~~~g~~~~~l~i~~~~~~e~~~~~i~~l~  194 (315)
                      .|+++..-++|+||||+|||+++..+|..+   +.++++++...     .   .+        ......+..+..+-...
T Consensus        36 ~g~~~~~giLL~Gp~GtGKT~l~~ala~~~---~~~~~~~~~~~-----l---~~--------~~~~~~~~~l~~~f~~A   96 (265)
T d1r7ra3          36 FGMTPSKGVLFYGPPGCGKTLLAKAIANEC---QANFISIKGPE-----L---LT--------MWFGESEANVREIFDKA   96 (265)
T ss_dssp             CCCCCCCEEEEBCCTTSSHHHHHHHHHHHT---TCEEEEECHHH-----H---HT--------SCTTTHHHHHHHHHHHH
T ss_pred             CCCCCCCeEEEECCCCCcchhHHHHHHHHh---CCcEEEEEHHH-----h---hh--------ccccchHHHHHHHHHHH
Confidence            578888889999999999999999998777   56666665311     0   00        01112333333333334


Q ss_pred             HcCCccEEeehhHhhhccccccCCCccCCChHHHHHHHHHHHHHHHHHHhccCcEEEEEecccccc
Q 021239          195 KSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQVRFSA  260 (315)
Q Consensus       195 ~~~~~~lVVIDsl~~l~~~~~~~~~~~~~~~~~q~r~i~~~l~~L~~~~~~~~i~VI~inq~~~~~  260 (315)
                      ....+.+|+||.+..+........  + .......+.+...+..+..+....++.||.+++.-..+
T Consensus        97 ~~~~p~il~ideid~l~~~~~~~~--~-~~~~~~~~~~~~ll~~l~~~~~~~~v~vi~ttn~~~~l  159 (265)
T d1r7ra3          97 RQAAPCVLFFDELDSIAKARGGNI--G-DGGGAADRVINQILTEMDGMSTKKNVFIIGATNRPDII  159 (265)
T ss_dssp             HHTCSEEEEESSGGGTCCHHHHCC--C-TTHHHHHHHHHHHHHTCC------CCEEEECCBSCTTT
T ss_pred             HhcCCcceeHHhhhhccccCCCcC--C-CCcHHHHHHHHHHHHHhhCcCCCCCEEEEEeCCCchhC
Confidence            556899999999999884211111  1 11112222234444444444455678888777665554

>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=98.35  E-value=1.4e-07  Score=81.97  Aligned_cols=39  Identities=21%  Similarity=0.253  Sum_probs=29.1

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEec
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDV  156 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~  156 (315)
                      +++|+++.|.||+|||||||+..++.-.....+.+ +++.
T Consensus        25 i~~GEi~~iiG~sGsGKSTLl~~i~Gl~~p~~G~I-~~~G   63 (258)
T d1b0ua_          25 ARAGDVISIIGSSGSGKSTFLRCINFLEKPSEGAI-IVNG   63 (258)
T ss_dssp             ECTTCEEEEECCTTSSHHHHHHHHTTSSCCSEEEE-EETT
T ss_pred             EcCCCEEEEECCCCCcHHHHHHHHHcCccCCCCCE-EECC
Confidence            67999999999999999999988765433333344 4443

>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=98.33  E-value=2.6e-06  Score=71.58  Aligned_cols=88  Identities=14%  Similarity=0.116  Sum_probs=61.5

Q ss_pred             CCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCCh------HHHHHcCCCCCCeEEeCCCCHHHHHHHHHH
Q 021239          119 KGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP------SLAEAMGIDAENLLIAQPDSAENLLSVVDT  192 (315)
Q Consensus       119 ~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~------~~~~~~g~~~~~l~i~~~~~~e~~~~~i~~  192 (315)
                      +..++.++||+|+||||.+..+|+.+..++.+|.+++++--..-      .+++.+++...  ...+..+..........
T Consensus        10 ~p~vi~lvGptGvGKTTTiAKLAa~~~~~~~kV~lit~Dt~R~gA~eQL~~~a~~l~i~~~--~~~~~~d~~~~~~~~~~   87 (213)
T d1vmaa2          10 PPFVIMVVGVNGTGKTTSCGKLAKMFVDEGKSVVLAAADTFRAAAIEQLKIWGERVGATVI--SHSEGADPAAVAFDAVA   87 (213)
T ss_dssp             SCEEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEEECTTCHHHHHHHHHHHHHHTCEEE--CCSTTCCHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHHHHCCCceEEEeecccccchhHHHHHHhhhcCcccc--ccCCCCcHHHHHHHHHH
Confidence            45688999999999999999999999889999999998765432      34566665421  11222344444444444


Q ss_pred             HHHcCCccEEeehhHh
Q 021239          193 LTKSGSIDVIVVDSVA  208 (315)
Q Consensus       193 l~~~~~~~lVVIDsl~  208 (315)
                      .....+.++|+||.-.
T Consensus        88 ~~~~~~~d~ilIDTaG  103 (213)
T d1vmaa2          88 HALARNKDVVIIDTAG  103 (213)
T ss_dssp             HHHHTTCSEEEEEECC
T ss_pred             HHHHcCCCEEEEeccc
Confidence            4445688999999766

>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=98.33  E-value=2.3e-07  Score=79.87  Aligned_cols=37  Identities=19%  Similarity=0.190  Sum_probs=29.3

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEE
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAY  153 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~  153 (315)
                      +++|+++.|.||+|+|||||+..++.-.....+.+.+
T Consensus        25 i~~Ge~vaivG~sGsGKSTLl~ll~gl~~p~~G~I~i   61 (242)
T d1mv5a_          25 AQPNSIIAFAGPSGGGKSTIFSLLERFYQPTAGEITI   61 (242)
T ss_dssp             ECTTEEEEEECCTTSSHHHHHHHHTTSSCCSBSCEEE
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHHHhhCCCCCEEEE
Confidence            6899999999999999999998877655444444443

>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=98.28  E-value=1.1e-06  Score=76.19  Aligned_cols=80  Identities=23%  Similarity=0.343  Sum_probs=51.5

Q ss_pred             CCCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCChHHHHHcCCCCCCeEEeCCCCHHHHHHHHHHHH
Q 021239          115 GGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLT  194 (315)
Q Consensus       115 GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~~~~~~~g~~~~~l~i~~~~~~e~~~~~i~~l~  194 (315)
                      .|+++..-++|+||||+|||+++..+|...   +.++++++...-...                .....+..+..+-...
T Consensus        33 ~g~~~~~giLL~GppGtGKT~l~~ala~~~---~~~~~~i~~~~l~~~----------------~~g~~~~~l~~~f~~A   93 (258)
T d1e32a2          33 IGVKPPRGILLYGPPGTGKTLIARAVANET---GAFFFLINGPEIMSK----------------LAGESESNLRKAFEEA   93 (258)
T ss_dssp             CCCCCCCEEEEECCTTSSHHHHHHHHHHHT---TCEEEEECHHHHTTS----------------CTTHHHHHHHHHHHHH
T ss_pred             CCCCCCceeEEecCCCCCchHHHHHHHHHh---CCeEEEEEchhhccc----------------ccccHHHHHHHHHHHH
Confidence            456666669999999999999998887765   567777663211100                0011122222233334


Q ss_pred             HcCCccEEeehhHhhhccc
Q 021239          195 KSGSIDVIVVDSVAALIPK  213 (315)
Q Consensus       195 ~~~~~~lVVIDsl~~l~~~  213 (315)
                      ....|.+|+||.+..+...
T Consensus        94 ~~~~p~il~iDeid~l~~~  112 (258)
T d1e32a2          94 EKNAPAIIFIDELDAIAPK  112 (258)
T ss_dssp             HHTCSEEEEESSGGGTCCH
T ss_pred             HhcCCeEEEehhhhhhccC
Confidence            5578999999999999853

>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=98.22  E-value=8.9e-07  Score=75.54  Aligned_cols=39  Identities=21%  Similarity=0.281  Sum_probs=29.1

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEec
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDV  156 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~  156 (315)
                      -+++|+++.|.||+|+|||||...++. .....+.+ +++.
T Consensus        21 ~I~~Gei~~iiG~nGaGKSTLl~~l~G-l~~~~G~I-~~~g   59 (231)
T d1l7vc_          21 EVRAGEILHLVGPNGAGKSTLLARMAG-MTSGKGSI-QFAG   59 (231)
T ss_dssp             EEETTCEEECBCCTTSSHHHHHHHHHT-SCCCSSEE-EESS
T ss_pred             EEcCCCEEEEECCCCCcHHHHHHHHhC-CCCCceEE-EECC
Confidence            578999999999999999999987766 33333343 4443

>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=98.22  E-value=3.3e-07  Score=76.56  Aligned_cols=36  Identities=31%  Similarity=0.391  Sum_probs=28.9

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeE
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYC  151 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v  151 (315)
                      -+++|+++.|.||+|+|||||...++.......|.+
T Consensus        23 ~i~~Gei~~l~G~NGsGKSTLl~~i~gl~~p~~G~I   58 (200)
T d1sgwa_          23 TIEKGNVVNFHGPNGIGKTTLLKTISTYLKPLKGEI   58 (200)
T ss_dssp             EEETTCCEEEECCTTSSHHHHHHHHTTSSCCSEEEE
T ss_pred             EEcCCCEEEEECCCCChHHHHHHHHhcccccCCCEE
Confidence            478999999999999999999988876554444444

>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=98.21  E-value=4.7e-06  Score=69.87  Aligned_cols=88  Identities=15%  Similarity=0.143  Sum_probs=55.9

Q ss_pred             CCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCCh------HHHHHcCCCCCCeEEeCCCCHHHHHHHHHH
Q 021239          119 KGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP------SLAEAMGIDAENLLIAQPDSAENLLSVVDT  192 (315)
Q Consensus       119 ~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~------~~~~~~g~~~~~l~i~~~~~~e~~~~~i~~  192 (315)
                      ...++.+.||+|+||||.+..+|+.+..+|.+|.+++++-....      .+++.+|++...  ...+.+..........
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            45689999999999999999999998888999999998765432      356667765311  1122233333332222


Q ss_pred             HHHcCCccEEeehhHh
Q 021239          193 LTKSGSIDVIVVDSVA  208 (315)
Q Consensus       193 l~~~~~~~lVVIDsl~  208 (315)
                      .....+.++|+||.-.
T Consensus        89 ~~~~~~~d~IlIDTaG  104 (211)
T d1j8yf2          89 KFLSEKMEIIIVDTAG  104 (211)
T ss_dssp             HHHHTTCSEEEEECCC
T ss_pred             HhhccCCceEEEecCC
Confidence            2234578999999655

>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=98.19  E-value=1.5e-06  Score=69.84  Aligned_cols=28  Identities=29%  Similarity=0.293  Sum_probs=23.2

Q ss_pred             EEEEecCCCChhHHHHHHHHHHHhcCCe
Q 021239          123 VEIYGREASGKTTLALHVIKEAQKLGGY  150 (315)
Q Consensus       123 ~~i~G~~GsGKTtlal~la~~~~~~g~~  150 (315)
                      ++|.||||+|||||+..++.......+.
T Consensus         3 i~I~G~~G~GKSTLl~~i~~~l~~~~g~   30 (178)
T d1ye8a1           3 IIITGEPGVGKTTLVKKIVERLGKRAIG   30 (178)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHGGGEEE
T ss_pred             EEEECCCCcHHHHHHHHHHhcCCCCcce
Confidence            6899999999999999998877654333

>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=98.12  E-value=1.1e-06  Score=76.08  Aligned_cols=35  Identities=26%  Similarity=0.311  Sum_probs=27.1

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeE
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYC  151 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v  151 (315)
                      +++|+.+.|.|++|+|||||+..++.......+.+
T Consensus        41 i~~Ge~vaivG~sGsGKSTLl~ll~gl~~p~~G~I   75 (255)
T d2hyda1          41 IEKGETVAFVGMSGGGKSTLINLIPRFYDVTSGQI   75 (255)
T ss_dssp             ECTTCEEEEECSTTSSHHHHHTTTTTSSCCSEEEE
T ss_pred             EcCCCEEEEECCCCCcHHHHHHHHHhcCCcccccc
Confidence            67999999999999999999976665443333333

>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=97.91  E-value=4.6e-06  Score=74.26  Aligned_cols=124  Identities=19%  Similarity=0.093  Sum_probs=68.3

Q ss_pred             cHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCChHHHHHcCCCCCCeEEeCCCCHH
Q 021239          105 SLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAE  184 (315)
Q Consensus       105 ~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~~~~~~~g~~~~~l~i~~~~~~e  184 (315)
                      .+.+...++  .-.+..+.+++||||+|||.+|..+|.++... .+...++..+-..                ......+
T Consensus       110 ~~~~~~~~~--~~~~~g~~l~~G~pG~GKT~la~ala~~~~~~-~~~~~~~~~~~~~----------------~~~G~~e  170 (321)
T d1w44a_         110 SPVVAEFGG--HRYASGMVIVTGKGNSGKTPLVHALGEALGGK-DKYATVRFGEPLS----------------GYNTDFN  170 (321)
T ss_dssp             CCEEEEETT--EEEESEEEEEECSSSSCHHHHHHHHHHHHHTT-SCCEEEEBSCSST----------------TCBCCHH
T ss_pred             chHHHHHhh--cccCCceEEEECCCCccHHHHHHHHHHHhcCC-CCeEEEEhhHhhh----------------cccchHH
Confidence            344555554  33344466779999999999999999887422 1222233222111                0111223


Q ss_pred             -HHHHHHHHHHHcCCccEEeehhHhhhccccccCCCccCCChHHHHHHHHHHHHHHHHHHhccCcEEEEEec
Q 021239          185 -NLLSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQ  255 (315)
Q Consensus       185 -~~~~~i~~l~~~~~~~lVVIDsl~~l~~~~~~~~~~~~~~~~~q~r~i~~~l~~L~~~~~~~~i~VI~inq  255 (315)
                       .+.+.+++. +.  +.+|+||.+..+.+...-...     .....+.+.+.|..+-.+....++.||..+.
T Consensus       171 ~~~~~~f~~a-~~--~~ilf~DEid~~~~~r~~~~~-----~~~~~r~v~~lL~e~dg~~~~~~v~viaatN  234 (321)
T d1w44a_         171 VFVDDIARAM-LQ--HRVIVIDSLKNVIGAAGGNTT-----SGGISRGAFDLLSDIGAMAASRGCVVIASLN  234 (321)
T ss_dssp             HHHHHHHHHH-HH--CSEEEEECCTTTC----------------CCHHHHHHHHHHHHHHHHHTCEEEEECC
T ss_pred             HHHHHHHHHH-hh--ccEEEeehhhhhccccccCCC-----CCcchhhhhhhhhhccccccCCCeEEEEeCC
Confidence             333334433 22  569999999998743211111     1112245667777776666777888887776

>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=97.89  E-value=9.7e-06  Score=69.50  Aligned_cols=75  Identities=19%  Similarity=0.179  Sum_probs=45.6

Q ss_pred             CcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCChHHHHHcCCCCCCeEEeCCCCHHHHHHHHHHHHHcCCc
Q 021239          120 GRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTKSGSI  199 (315)
Q Consensus       120 G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~~~~~~~g~~~~~l~i~~~~~~e~~~~~i~~l~~~~~~  199 (315)
                      -.-++|+||||+|||++|..+|.+.   +.+++.++.-+...       |.        ...+..+.+..+-+......+
T Consensus        40 ~~~vLL~GppGtGKT~la~alA~~~---~~~~~~i~~~~~~~-------g~--------~~~~~~~~i~~if~~A~~~~p  101 (246)
T d1d2na_          40 LVSVLLEGPPHSGKTALAAKIAEES---NFPFIKICSPDKMI-------GF--------SETAKCQAMKKIFDDAYKSQL  101 (246)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHHH---TCSEEEEECGGGCT-------TC--------CHHHHHHHHHHHHHHHHTSSE
T ss_pred             CeEEEEECcCCCCHHHHHHHHhhcc---cccccccccccccc-------cc--------cccchhhhhhhhhhhhhhccc
Confidence            3458999999999999999998765   45665555311000       00        000011222222233345678


Q ss_pred             cEEeehhHhhhcc
Q 021239          200 DVIVVDSVAALIP  212 (315)
Q Consensus       200 ~lVVIDsl~~l~~  212 (315)
                      .+++||.+..+..
T Consensus       102 ~il~iDEid~l~~  114 (246)
T d1d2na_         102 SCVVVDDIERLLD  114 (246)
T ss_dssp             EEEEECCHHHHTT
T ss_pred             ceeehhhhhhHhh
Confidence            9999999998874

>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=97.79  E-value=8.2e-05  Score=64.44  Aligned_cols=65  Identities=28%  Similarity=0.465  Sum_probs=53.7

Q ss_pred             CCCCCccccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHhc-CCeEEEEecCCCCCh
Q 021239           95 SRRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKL-GGYCAYLDVENALDP  162 (315)
Q Consensus        95 ~~~~~~i~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~~-g~~v~~i~~E~~~~~  162 (315)
                      ....+.+.||+..+|-++.   +-+|.-..|.|++|+|||+|+.+++.+.++. ...|+|....+...+
T Consensus        46 ~~i~~~l~TGIraID~l~p---igkGQr~~If~~~g~GKt~l~~~i~~~~~~~~~~v~V~~~iGer~~e  111 (276)
T d2jdid3          46 SVEQEILVTGIKVVDLLAP---YAKGGKIGLFGGAGVGKTVLIMELINNVAKAHGGYSVFAGVGERTRE  111 (276)
T ss_dssp             CCCCCEECCSCHHHHHHSC---EETTCEEEEEECTTSSHHHHHHHHHHHHTTTCSSEEEEEEESCCHHH
T ss_pred             cCCCcccccCceeeeeecc---ccCCCEEEeeCCCCCCHHHHHHHHHHHHHhhCCCeEEEEEeccChHH
Confidence            3456789999999999987   7789999999999999999999999987654 457788776665443

>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=97.76  E-value=2.5e-05  Score=67.88  Aligned_cols=113  Identities=17%  Similarity=0.266  Sum_probs=75.0

Q ss_pred             CCCCccccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCCh--HHHHHc---CC
Q 021239           96 RRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP--SLAEAM---GI  170 (315)
Q Consensus        96 ~~~~~i~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~--~~~~~~---g~  170 (315)
                      ...+.+.||+..+|-++.   +-+|.-..|.|++|+|||+++.+++.+.......|+|....+....  +..+.+   +.
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            456789999999999987   7789999999999999999999887776666667777765554433  222221   11


Q ss_pred             CCCCeEEe-CCC--C------HHHHHHHHHHHHHcCCccEEeehhHhhhc
Q 021239          171 DAENLLIA-QPD--S------AENLLSVVDTLTKSGSIDVIVVDSVAALI  211 (315)
Q Consensus       171 ~~~~l~i~-~~~--~------~e~~~~~i~~l~~~~~~~lVVIDsl~~l~  211 (315)
                      -..-+.+. ..+  .      ..-.....+.+..++.--++++||++.+.
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            11112222 211  1      12234445566666667789999999776

>d1np6a_ c.37.1.10 (A:) Molybdopterin-guanine dinucleotide biosynthesis protein MobB {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Molybdopterin-guanine dinucleotide biosynthesis protein MobB
species: Escherichia coli [TaxId: 562]

Probab=97.76  E-value=1.3e-05  Score=63.33  Aligned_cols=38  Identities=18%  Similarity=0.168  Sum_probs=34.0

Q ss_pred             EEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCC
Q 021239          122 IVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENA  159 (315)
Q Consensus       122 i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~  159 (315)
                      ++.|+|++|||||||+..++.....+|.++.++..+..
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            78999999999999999999999999999888876543

>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=97.71  E-value=1.2e-05  Score=64.05  Aligned_cols=37  Identities=27%  Similarity=0.172  Sum_probs=32.0

Q ss_pred             cEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecC
Q 021239          121 RIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVE  157 (315)
Q Consensus       121 ~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E  157 (315)
                      ..+.|+||||+|||||+.+++..+...+..+.++...
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            3588999999999999999999999888888777654

>d1bifa1 c.37.1.7 (A:37-249) 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, kinase domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, kinase domain
domain: 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, kinase domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=97.67  E-value=8.9e-05  Score=60.57  Aligned_cols=37  Identities=19%  Similarity=0.249  Sum_probs=31.8

Q ss_pred             cEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecC
Q 021239          121 RIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVE  157 (315)
Q Consensus       121 ~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E  157 (315)
                      .+++++|.||+||||++..++......+.++..++.+
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            5799999999999999999998877777788777753

>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=97.61  E-value=0.00022  Score=62.06  Aligned_cols=114  Identities=18%  Similarity=0.314  Sum_probs=71.7

Q ss_pred             CCCCCccccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHhc--------CCeEEEEecCCCCCh--HH
Q 021239           95 SRRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKL--------GGYCAYLDVENALDP--SL  164 (315)
Q Consensus        95 ~~~~~~i~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~~--------g~~v~~i~~E~~~~~--~~  164 (315)
                      ....+.+.||+..+|-++.   +-+|.-+.|.|++|+|||+++.+++.+....        +..|+|....+...+  +.
T Consensus        46 ~~i~e~l~TGIraID~l~p---ig~GQr~~If~~~g~GKt~ll~~~~~~~~~~~~~~~~~~~~~~v~~~IGer~~E~~e~  122 (285)
T d2jdia3          46 ISVREPMQTGIKAVDSLVP---IGRGQRELIIGDRQTGKTSIAIDTIINQKRFNDGTDEKKKLYCIYVAIGQKRSTVAQL  122 (285)
T ss_dssp             CCCCSBCCCSCHHHHHHSC---CBTTCBCEEEESTTSSHHHHHHHHHHHTHHHHTSSCTTTCCEEEEEEESCCHHHHHHH
T ss_pred             cCCCcccccCceEEecccC---ccCCCEEEeecCCCCChHHHHHHHHHhHHhhccccccccceEEEEeeeCccHHHHHHH
Confidence            3456789999999999987   7789999999999999999999998876532        224566555444433  22


Q ss_pred             HHHc-CC-CCCC-eEEe-CCC-CH-HH------HHHHHHHHHHcCCccEEeehhHhhhc
Q 021239          165 AEAM-GI-DAEN-LLIA-QPD-SA-EN------LLSVVDTLTKSGSIDVIVVDSVAALI  211 (315)
Q Consensus       165 ~~~~-g~-~~~~-l~i~-~~~-~~-e~------~~~~i~~l~~~~~~~lVVIDsl~~l~  211 (315)
                      .+.+ +- ..++ +.+. ..+ +. ..      .....+.+.+++.--++++||++.+.
T Consensus       123 ~~~~~~~~~~~~tvvv~~ts~~~~~~r~~~~~~a~tiAEyfrd~G~~VLll~Dsltr~A  181 (285)
T d2jdia3         123 VKRLTDADAMKYTIVVSATASDAAPLQYLAPYSGCSMGEYFRDNGKHALIIYDDLSKQA  181 (285)
T ss_dssp             HHHHHHTTCGGGEEEEEECTTSCHHHHHHHHHHHHHHHHHHHHTTCEEEEEEETHHHHH
T ss_pred             HHHhcccccccceEEEEECCCCCHHHHHHHHHHHHHHHHHHHHcCCcEEEEEcChHHHH
Confidence            2221 11 1222 2332 222 22 22      22334445555555677999999886

>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=97.53  E-value=0.00015  Score=58.84  Aligned_cols=129  Identities=13%  Similarity=0.174  Sum_probs=66.3

Q ss_pred             EEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCChHHHHHcC----CCCCCeE-EeCCCCHHHHHHHHHHHHHc
Q 021239          122 IVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMG----IDAENLL-IAQPDSAENLLSVVDTLTKS  196 (315)
Q Consensus       122 i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~~~~~~~g----~~~~~l~-i~~~~~~e~~~~~i~~l~~~  196 (315)
                      +++|.|++.||||.+|.+++    ..+++++|+.+-...+.++.+++.    -.+.+.. +..+.+..+.+   ..  ..
T Consensus         1 iiLVtGGarSGKS~~AE~l~----~~~~~~~YiAT~~~~D~em~~RI~~Hr~rR~~~w~tiE~~~~l~~~l---~~--~~   71 (180)
T d1c9ka_           1 MILVTGGARSGKSRHAEALI----GDAPQVLYIATSQILDDEMAARIQHHKDGRPAHWRTAECWRHLDTLI---TA--DL   71 (180)
T ss_dssp             CEEEEECTTSSHHHHHHHHH----CSCSSEEEEECCCC------CHHHHHHHTSCTTEEEECCSSCGGGTS---CT--TS
T ss_pred             CEEEECCCCccHHHHHHHHH----hcCCCcEEEEccCCCCHHHHHHHHHHHhcCcCCCEEecccccHHHHH---Hh--hc
Confidence            57999999999999998764    456789999997766654333221    1122222 22233333221   11  12


Q ss_pred             CCccEEeehhHhhhccccccC----CCccCCChHHHHHHHHHHHHHHHHHHhccCc-EEEEEeccccc
Q 021239          197 GSIDVIVVDSVAALIPKCEIG----VPINGMYSDAQSRIMTQALRKIHYSLCQSHT-LIIFLNQVRFS  259 (315)
Q Consensus       197 ~~~~lVVIDsl~~l~~~~~~~----~~~~~~~~~~q~r~i~~~l~~L~~~~~~~~i-~VI~inq~~~~  259 (315)
                      .+.+.|+||+++.+....-+.    .++...........+.+.+..|...+++.+. .||++|.+...
T Consensus        72 ~~~~~vLlDclt~~l~N~l~~~~~~~~~~~~~~~~~~~~i~~~i~~l~~~l~~~~~~~ViVsnEVG~G  139 (180)
T d1c9ka_          72 APDDAILLECITTMVTNLLFALGGENDPEQWDYAAMERAIDDEIQILIAACQRCPAKVVLVTNEVGMG  139 (180)
T ss_dssp             CTTCEEEEECHHHHHHHHHHHC----CTTSCCHHHHHHHHHHHHHHHHHHHHHCCSEEEEECCCCCSS
T ss_pred             CcccchhhhhhhHHHHHHHHhcccccchhhhhhhhHHHHHHHHHHHHHHHHHhCCCcEEEEecccCCC
Confidence            456899999999876322111    1111111112222344444455444455544 56666666433

>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=9.7e-05  Score=64.35  Aligned_cols=109  Identities=17%  Similarity=0.163  Sum_probs=66.7

Q ss_pred             CccccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHhcC-CeEEEEec-CCCCChHHHHHcCCCCCCeE
Q 021239           99 PVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLG-GYCAYLDV-ENALDPSLAEAMGIDAENLL  176 (315)
Q Consensus        99 ~~i~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g-~~v~~i~~-E~~~~~~~~~~~g~~~~~l~  176 (315)
                      ....+|...+|-++.   +-+|.-..|.|++|+|||+|+.+++.+..... ..++++.. ++.. .+..+-.......+.
T Consensus        25 ~~~~~~~r~ID~l~P---igrGQr~~I~g~~g~GKT~l~~~i~~~~~~~~~~~v~~~~~iger~-~ev~~~~~~~~~~vv  100 (289)
T d1xpua3          25 STEDLTARVLDLASP---IGRGQRGLIVAPPKAGKTMLLQNIAQSIAYNHPDCVLMVLLIDERP-EEVTEMQRLVKGEVV  100 (289)
T ss_dssp             CSTHHHHHHHHHHSC---CBTTCEEEEEECSSSSHHHHHHHHHHHHHHHCTTSEEEEEEEEECH-HHHHHHHHHCSSEEE
T ss_pred             Ccccccceeeeeccc---ccCCCeeeEeCCCCCCHHHHHHHHHHHHhhcCCCeEEEEEeeceeH-HHHHhHHhhcceEEE
Confidence            345678899999987   77999999999999999999999998886543 33333332 2222 221111111112233


Q ss_pred             EeCCC-CHH-------HHHHHHHHHHHcCCccEEeehhHhhhc
Q 021239          177 IAQPD-SAE-------NLLSVVDTLTKSGSIDVIVVDSVAALI  211 (315)
Q Consensus       177 i~~~~-~~e-------~~~~~i~~l~~~~~~~lVVIDsl~~l~  211 (315)
                      ....+ +..       -.....+.+.+++.--++++||++.+.
T Consensus       101 ~~t~d~~~~~r~~~~~~a~~iAEyfrd~G~dVLli~Dsltr~A  143 (289)
T d1xpua3         101 ASTFDEPASRHVQVAEMVIEKAKRLVEHKKDVIILLDSITRLA  143 (289)
T ss_dssp             EEETTSCHHHHHHHHHHHHHHHHHHHTTTCEEEEEESCHHHHH
T ss_pred             eccCCCchhHHHHHHHHHHHHHHHHHHhccCceeecCcHHHHH
Confidence            33322 211       122334445555555688999999876

>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=97.48  E-value=0.00015  Score=54.92  Aligned_cols=40  Identities=23%  Similarity=0.112  Sum_probs=30.6

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHH-HHHHHhcCCeEEEEec
Q 021239          117 LPKGRIVEIYGREASGKTTLALHV-IKEAQKLGGYCAYLDV  156 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~l-a~~~~~~g~~v~~i~~  156 (315)
                      +++|..++|.+|+|+|||..+... +......+.+++++..
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            467999999999999999777644 4455566777777774

>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=97.46  E-value=0.0008  Score=56.49  Aligned_cols=88  Identities=15%  Similarity=0.116  Sum_probs=51.7

Q ss_pred             CcEEEEEecCCCChhHHHHHHHHHHHhc-CCeEEEEecCCCCCh-H----HHHHcCCCCCCeEEeCCCCHHHHHHHHHHH
Q 021239          120 GRIVEIYGREASGKTTLALHVIKEAQKL-GGYCAYLDVENALDP-S----LAEAMGIDAENLLIAQPDSAENLLSVVDTL  193 (315)
Q Consensus       120 G~i~~i~G~~GsGKTtlal~la~~~~~~-g~~v~~i~~E~~~~~-~----~~~~~g~~~~~l~i~~~~~~e~~~~~i~~l  193 (315)
                      ...++|+||||+|||+++..++..+... +.+++++........ .    .....+...    .........+...+...
T Consensus        43 ~~~lll~GppGtGKT~l~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~  118 (276)
T d1fnna2          43 YPRATLLGRPGTGKTVTLRKLWELYKDKTTARFVYINGFIYRNFTAIIGEIARSLNIPF----PRRGLSRDEFLALLVEH  118 (276)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHHTTSCCCEEEEEETTTCCSHHHHHHHHHHHTTCCC----CSSCCCHHHHHHHHHHH
T ss_pred             CCceEEECCCCCCHHHHHHHHHHHHhcccCCcEEEecchhhhhhhhhhhhhHHhhhhhh----hhhccchhHHHHHHHHH
Confidence            3468899999999999999988887543 445666665444433 1    222222221    12223445555544443


Q ss_pred             H-HcCCccEEeehhHhhhc
Q 021239          194 T-KSGSIDVIVVDSVAALI  211 (315)
Q Consensus       194 ~-~~~~~~lVVIDsl~~l~  211 (315)
                      . .......+++|.+..+.
T Consensus       119 ~~~~~~~~~~~~~~~d~~~  137 (276)
T d1fnna2         119 LRERDLYMFLVLDDAFNLA  137 (276)
T ss_dssp             HHHTTCCEEEEEETGGGSC
T ss_pred             HhhcccccccchhHHHHhh
Confidence            3 34456777777666554

>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=97.46  E-value=7.2e-05  Score=59.35  Aligned_cols=38  Identities=24%  Similarity=0.258  Sum_probs=33.9

Q ss_pred             cEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCC
Q 021239          121 RIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVEN  158 (315)
Q Consensus       121 ~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~  158 (315)
                      .++.|+|.+|||||||+..++.....+|.+|..+..+.
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            47889999999999999999999999999999886553

>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=97.45  E-value=2.5e-05  Score=63.24  Aligned_cols=41  Identities=32%  Similarity=0.405  Sum_probs=33.8

Q ss_pred             CCCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEec
Q 021239          115 GGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDV  156 (315)
Q Consensus       115 GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~  156 (315)
                      +|. +|.++.|+|+|||||||+|..++.........+.++..
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 68899999999999999999999888776666666653

>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=97.43  E-value=0.0003  Score=62.44  Aligned_cols=43  Identities=16%  Similarity=0.091  Sum_probs=36.8

Q ss_pred             CCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCC
Q 021239          119 KGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALD  161 (315)
Q Consensus       119 ~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~  161 (315)
                      +...+.|+|+||+|||||...++......|.+|.++..+.+.+
T Consensus        53 ~~~~IgitG~pGaGKSTLi~~l~~~~~~~g~~vavlavDpss~   95 (327)
T d2p67a1          53 NTLRLGVTGTPGAGKSTFLEAFGMLLIREGLKVAVIAVDPSSP   95 (327)
T ss_dssp             CSEEEEEEECTTSCHHHHHHHHHHHHHHTTCCEEEEEECCC--
T ss_pred             CceEEEeeCCCCCCHHHHHHHHHHHHHhcCCceeeecCCCcee
Confidence            4668999999999999999999999998999999888776544

>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=97.41  E-value=3.4e-05  Score=61.19  Aligned_cols=35  Identities=26%  Similarity=0.267  Sum_probs=27.6

Q ss_pred             CCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEec
Q 021239          119 KGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDV  156 (315)
Q Consensus       119 ~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~  156 (315)
                      .|.++.|.|+|||||||+|..++..   .|.+.++++.
T Consensus         3 ~g~iI~l~G~~GsGKSTia~~La~~---lg~~~~~~~~   37 (176)
T d1zp6a1           3 GGNILLLSGHPGSGKSTIAEALANL---PGVPKVHFHS   37 (176)
T ss_dssp             TTEEEEEEECTTSCHHHHHHHHHTC---SSSCEEEECT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHH---hCCCEEEecH
Confidence            4889999999999999999777532   2567777765

>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=97.36  E-value=6e-05  Score=60.69  Aligned_cols=39  Identities=15%  Similarity=0.171  Sum_probs=28.3

Q ss_pred             CCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCC
Q 021239          118 PKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALD  161 (315)
Q Consensus       118 ~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~  161 (315)
                      +...+++++|+|||||||++.+++..   .  ...+++.++-..
T Consensus        12 ~~p~liil~G~pGsGKST~a~~l~~~---~--~~~~i~~D~~~~   50 (172)
T d1yj5a2          12 PNPEVVVAVGFPGAGKSTFIQEHLVS---A--GYVHVNRDTLGS   50 (172)
T ss_dssp             SSCCEEEEECCTTSSHHHHHHHHTGG---G--TCEEEEHHHHCS
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHh---c--CCEEEchHHHHH
Confidence            45679999999999999999877432   1  245677664443

>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=97.34  E-value=0.00042  Score=53.67  Aligned_cols=89  Identities=17%  Similarity=0.160  Sum_probs=58.8

Q ss_pred             CcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCCh--HHHHHcCCCCCCeEEeCCCCHHHHHHHHHHHHHcC
Q 021239          120 GRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP--SLAEAMGIDAENLLIAQPDSAENLLSVVDTLTKSG  197 (315)
Q Consensus       120 G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~--~~~~~~g~~~~~l~i~~~~~~e~~~~~i~~l~~~~  197 (315)
                      |.+.+|+||=.|||||-++..+..+...|.+|++|........  ....+.|.......+   ....++++.+.......
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            7899999999999999999999999888999998886544221  111112322222222   23355555544322234


Q ss_pred             CccEEeehhHhhhc
Q 021239          198 SIDVIVVDSVAALI  211 (315)
Q Consensus       198 ~~~lVVIDsl~~l~  211 (315)
                      .+++|.||..+-+-
T Consensus        79 ~~dvI~IDE~QFf~   92 (139)
T d2b8ta1          79 ETKVIGIDEVQFFD   92 (139)
T ss_dssp             TCCEEEECSGGGSC
T ss_pred             CcCEEEechhhhcc
Confidence            68999999999763

>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=97.31  E-value=8.4e-05  Score=58.77  Aligned_cols=32  Identities=25%  Similarity=0.340  Sum_probs=27.4

Q ss_pred             CCCcEEEEEecCCCChhHHHHHHHHHHHhcCC
Q 021239          118 PKGRIVEIYGREASGKTTLALHVIKEAQKLGG  149 (315)
Q Consensus       118 ~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~  149 (315)
                      .+|.++.|+|.|||||||++..++......+.
T Consensus         4 ~~g~~I~l~G~~GsGKTTia~~La~~L~~~~~   35 (183)
T d1m8pa3           4 TQGFTIFLTGYMNSGKDAIARALQVTLNQQGG   35 (183)
T ss_dssp             TCCEEEEEECSTTSSHHHHHHHHHHHHHHHCS
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHhhcCC
Confidence            47899999999999999999999888765443

>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=97.29  E-value=0.0011  Score=50.86  Aligned_cols=83  Identities=19%  Similarity=0.155  Sum_probs=52.0

Q ss_pred             CCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCCh--HHHHHcCCCCCCeEEeCCCCHHHHHHHHHHHHHc
Q 021239          119 KGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP--SLAEAMGIDAENLLIAQPDSAENLLSVVDTLTKS  196 (315)
Q Consensus       119 ~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~--~~~~~~g~~~~~l~i~~~~~~e~~~~~i~~l~~~  196 (315)
                      +|.+.+|+||=.+||||-++..+..+...|.+|+.|.......-  ......+.....+.+...   .+....   .   
T Consensus         1 ~G~L~li~GpMfsGKTt~Li~~~~~~~~~g~~v~~ikp~~D~R~~~~~~~~~~~~~~~~~~~~~---~~~~~~---~---   71 (133)
T d1xbta1           1 RGQIQVILGPMFSGKSTELMRRVRRFQIAQYKCLVIKYAKDTRYSSSFCTHDRNTMEALPACLL---RDVAQE---A---   71 (133)
T ss_dssp             CCEEEEEECCTTSCHHHHHHHHHHHHHTTTCCEEEEEETTCCC--------------CEEESSG---GGGHHH---H---
T ss_pred             CcEEEEEEecccCHHHHHHHHHHHHHHHcCCcEEEEecccccCCcceeeecCCCcceeeeeech---hhhhhh---h---
Confidence            58999999999999999999999999888999998886544321  111111111122222221   222221   1   


Q ss_pred             CCccEEeehhHhhh
Q 021239          197 GSIDVIVVDSVAAL  210 (315)
Q Consensus       197 ~~~~lVVIDsl~~l  210 (315)
                      .++++|.||..+-+
T Consensus        72 ~~~d~I~IDEaQFf   85 (133)
T d1xbta1          72 LGVAVIGIDEGQFF   85 (133)
T ss_dssp             HTCSEEEESSGGGC
T ss_pred             cccceEEeehhHHH
Confidence            26899999999866

>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=97.23  E-value=0.00014  Score=65.61  Aligned_cols=46  Identities=30%  Similarity=0.359  Sum_probs=36.5

Q ss_pred             HHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCC
Q 021239          108 LDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVEN  158 (315)
Q Consensus       108 LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~  158 (315)
                      |-.++.  |.|.+..++++||||+|||++|..+|..+   |++++.++..+
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            344455  89999999999999999999999998777   56766665433

>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=97.21  E-value=0.00052  Score=58.67  Aligned_cols=52  Identities=17%  Similarity=0.219  Sum_probs=37.3

Q ss_pred             CcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCChHHHHHcCCCCC
Q 021239          120 GRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAE  173 (315)
Q Consensus       120 G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~~~~~~~g~~~~  173 (315)
                      ..+++++|.-|+||||++.++|...++.|.+|+++|++...  .....+|....
T Consensus        20 ~~iii~sGKGGVGKTT~a~nLA~~lA~~G~rVllvD~Dp~~--~l~~~lg~~~~   71 (279)
T d1ihua2          20 HGLIMLMGKGGVGKTTMAAAIAVRLADMGFDVHLTTSDPAA--HLSMTLNGSLN   71 (279)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEESCCC-------------C
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEeCCCCC--ChHHHhCCccc
Confidence            45888889999999999999999999999999999999543  23334454433

>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=97.20  E-value=0.00033  Score=62.09  Aligned_cols=90  Identities=22%  Similarity=0.247  Sum_probs=58.7

Q ss_pred             CCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCCh---------HHHHHcCCCCCCeEEeCCC---CHHHH
Q 021239          119 KGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP---------SLAEAMGIDAENLLIAQPD---SAENL  186 (315)
Q Consensus       119 ~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~---------~~~~~~g~~~~~l~i~~~~---~~e~~  186 (315)
                      +.-.+.|.|+||+|||||.-.++......|.++..+..+.+.+.         .|+..++.+ .+.++....   ....+
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            45679999999999999999999988888988888776654332         233333222 244444432   23333


Q ss_pred             HHHHH---HHHHcCCccEEeehhHhh
Q 021239          187 LSVVD---TLTKSGSIDVIVVDSVAA  209 (315)
Q Consensus       187 ~~~i~---~l~~~~~~~lVVIDsl~~  209 (315)
                      .....   .+++..++++|+|.++..
T Consensus       129 ~~~~~~~i~~~~~~g~d~iiiETVG~  154 (323)
T d2qm8a1         129 AAKTRETMLLCEAAGFDVILVETVGV  154 (323)
T ss_dssp             HHHHHHHHHHHHHTTCCEEEEEECSS
T ss_pred             hHHHHHHHHhhccCCCCeEEEeehhh
Confidence            33332   334556889999887754

>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=97.19  E-value=0.00011  Score=58.04  Aligned_cols=27  Identities=37%  Similarity=0.516  Sum_probs=24.0

Q ss_pred             CCCcEEEEEecCCCChhHHHHHHHHHH
Q 021239          118 PKGRIVEIYGREASGKTTLALHVIKEA  144 (315)
Q Consensus       118 ~~G~i~~i~G~~GsGKTtlal~la~~~  144 (315)
                      |+|-.+.|+|+|||||||+|..++...
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            678899999999999999998887654

>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=97.19  E-value=0.00015  Score=57.66  Aligned_cols=36  Identities=19%  Similarity=0.254  Sum_probs=31.2

Q ss_pred             cEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEec
Q 021239          121 RIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDV  156 (315)
Q Consensus       121 ~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~  156 (315)
                      .++.|.|+|||||||++..++..+...+.++..++.
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            589999999999999999999888777777776654

>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=97.18  E-value=0.00019  Score=57.69  Aligned_cols=37  Identities=27%  Similarity=0.368  Sum_probs=30.9

Q ss_pred             EEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCC
Q 021239          122 IVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVEN  158 (315)
Q Consensus       122 i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~  158 (315)
                      ++.|.|++||||||+|..++......+..+..++.+.
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            5779999999999999999888877777777776543

>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=97.17  E-value=0.00012  Score=62.10  Aligned_cols=35  Identities=26%  Similarity=0.338  Sum_probs=27.1

Q ss_pred             CCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEec
Q 021239          119 KGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDV  156 (315)
Q Consensus       119 ~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~  156 (315)
                      ....++|+||||+|||++|..+|.+.   +...+.++.
T Consensus        31 ~P~~ilL~GpPGtGKT~la~~la~~~---~~~~~~i~~   65 (273)
T d1gvnb_          31 SPTAFLLGGQPGSGKTSLRSAIFEET---QGNVIVIDN   65 (273)
T ss_dssp             SCEEEEEECCTTSCTHHHHHHHHHHT---TTCCEEECT
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHh---hcceEEEec
Confidence            34569999999999999999888766   345566664

>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=97.13  E-value=0.00014  Score=57.27  Aligned_cols=27  Identities=26%  Similarity=0.345  Sum_probs=24.1

Q ss_pred             CCCcEEEEEecCCCChhHHHHHHHHHH
Q 021239          118 PKGRIVEIYGREASGKTTLALHVIKEA  144 (315)
Q Consensus       118 ~~G~i~~i~G~~GsGKTtlal~la~~~  144 (315)
                      ..+.+++|.|+|||||||++..++...
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            457899999999999999999988766

>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=97.12  E-value=0.00094  Score=60.78  Aligned_cols=87  Identities=17%  Similarity=0.240  Sum_probs=56.0

Q ss_pred             HHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCChHHHHHcCCCCCCeEEe--CCCCHHH
Q 021239          108 LDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIA--QPDSAEN  185 (315)
Q Consensus       108 LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~~~~~~~g~~~~~l~i~--~~~~~e~  185 (315)
                      |.+++.    .+..+++|+||.||||||++..+.......+.+  +++.|++.+.        ...++.-.  .......
T Consensus       150 l~~l~~----~~~GliLvtGpTGSGKSTTl~~~l~~~~~~~~~--i~tiEdPiE~--------~~~~~~q~~v~~~~~~~  215 (401)
T d1p9ra_         150 FRRLIK----RPHGIILVTGPTGSGKSTTLYAGLQELNSSERN--ILTVEDPIEF--------DIDGIGQTQVNPRVDMT  215 (401)
T ss_dssp             HHHHHT----SSSEEEEEECSTTSCHHHHHHHHHHHHCCTTSC--EEEEESSCCS--------CCSSSEEEECBGGGTBC
T ss_pred             HHHHHh----hhhceEEEEcCCCCCccHHHHHHhhhhcCCCce--EEEeccCccc--------ccCCCCeeeecCCcCCC
Confidence            555565    567799999999999999999988876554444  4677777653        11222111  1111223


Q ss_pred             HHHHHHHHHHcCCccEEeehhHhh
Q 021239          186 LLSVVDTLTKSGSIDVIVVDSVAA  209 (315)
Q Consensus       186 ~~~~i~~l~~~~~~~lVVIDsl~~  209 (315)
                      +.+.++.+++ .+||+|+|..+-.
T Consensus       216 ~~~~l~~~lR-~dPDvi~igEiRd  238 (401)
T d1p9ra_         216 FARGLRAILR-QDPDVVMVGEIRD  238 (401)
T ss_dssp             HHHHHHHHGG-GCCSEEEESCCCS
T ss_pred             HHHHHHHHHh-hcCCEEEecCcCC
Confidence            5555665554 4899999986653

>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=97.11  E-value=0.00013  Score=56.54  Aligned_cols=33  Identities=24%  Similarity=0.274  Sum_probs=24.6

Q ss_pred             cEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecC
Q 021239          121 RIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVE  157 (315)
Q Consensus       121 ~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E  157 (315)
                      .+++|+|+|||||||+|..++..    ...+.+++.+
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            47899999999999999876443    2346666644

>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=97.09  E-value=0.00014  Score=57.09  Aligned_cols=24  Identities=21%  Similarity=0.302  Sum_probs=21.0

Q ss_pred             cEEEEEecCCCChhHHHHHHHHHH
Q 021239          121 RIVEIYGREASGKTTLALHVIKEA  144 (315)
Q Consensus       121 ~i~~i~G~~GsGKTtlal~la~~~  144 (315)
                      .+++|.|+|||||||+|..++...
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            478999999999999999887654

>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=97.05  E-value=0.00023  Score=59.60  Aligned_cols=31  Identities=29%  Similarity=0.187  Sum_probs=24.2

Q ss_pred             EEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEe
Q 021239          122 IVEIYGREASGKTTLALHVIKEAQKLGGYCAYLD  155 (315)
Q Consensus       122 i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~  155 (315)
                      .++|+||||+|||++|..++.++   +.....++
T Consensus        37 ~~L~~GPpGtGKT~lA~~la~~~---~~~~~~~~   67 (238)
T d1in4a2          37 HVLLAGPPGLGKTTLAHIIASEL---QTNIHVTS   67 (238)
T ss_dssp             CEEEESSTTSSHHHHHHHHHHHH---TCCEEEEE
T ss_pred             eEEEECCCCCcHHHHHHHHHhcc---CCCccccc
Confidence            47899999999999999988776   33444444

>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=97.04  E-value=0.0017  Score=55.79  Aligned_cols=109  Identities=13%  Similarity=0.085  Sum_probs=64.9

Q ss_pred             CcEEEEEecCCCChhHHHHHHHHHHHhc-------CCeEEEEecCCCCChHHHHHcCCCCCCeEE--eCCCCHHHHHHHH
Q 021239          120 GRIVEIYGREASGKTTLALHVIKEAQKL-------GGYCAYLDVENALDPSLAEAMGIDAENLLI--AQPDSAENLLSVV  190 (315)
Q Consensus       120 G~i~~i~G~~GsGKTtlal~la~~~~~~-------g~~v~~i~~E~~~~~~~~~~~g~~~~~l~i--~~~~~~e~~~~~i  190 (315)
                      ...++|.|+||+|||+++..+|......       +..++.++.                ..+.-  .....+++.+..+
T Consensus        39 k~n~lLVG~~GvGKTalv~~la~ri~~~~vp~~l~~~~i~~l~~----------------~~liag~~~~g~~e~r~~~i  102 (268)
T d1r6bx2          39 KNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLDI----------------GSLLAGTKYRGDFEKRFKAL  102 (268)
T ss_dssp             SCEEEEECCTTSSHHHHHHHHHHHHHHTCSCGGGTTCEEEECCC----------------C---CCCCCSSCHHHHHHHH
T ss_pred             cCCcEEECCCCCcHHHHHHHHHHHHHhCCcccccccceeEEeee----------------chHhccCccchhHHHHHHHH
Confidence            4578899999999999999999887752       233333332                22211  1123566655544


Q ss_pred             HHHHHcCCccEEeehhHhhhccccccCCCccCCChHHHHHHHHHHHHHHHHHHhccCcEEEEEecc
Q 021239          191 DTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQV  256 (315)
Q Consensus       191 ~~l~~~~~~~lVVIDsl~~l~~~~~~~~~~~~~~~~~q~r~i~~~l~~L~~~~~~~~i~VI~inq~  256 (315)
                      -..+...+..+++||.+..++......+  +       .-.++..|+.   ++.+-++.+|..+..
T Consensus       103 ~~~~~~~~~iIlfiDeih~l~~~g~~~g--~-------~~d~a~~Lkp---~L~rg~i~vIgatT~  156 (268)
T d1r6bx2         103 LKQLEQDTNSILFIDEIHTIIGAGAASG--G-------QVDAANLIKP---LLSSGKIRVIGSTTY  156 (268)
T ss_dssp             HHHHSSSSCEEEEETTTTTTTTSCCSSS--C-------HHHHHHHHSS---CSSSCCCEEEEEECH
T ss_pred             HHHhhccCCceEEecchHHHhcCCCCCC--c-------cccHHHHhhH---HHhCCCCeEEEeCCH
Confidence            4444555667899999999984222111  0       1123444443   335667888887754

>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=97.02  E-value=0.00052  Score=57.67  Aligned_cols=42  Identities=26%  Similarity=0.180  Sum_probs=32.0

Q ss_pred             CCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCCh
Q 021239          118 PKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP  162 (315)
Q Consensus       118 ~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~  162 (315)
                      .....++|+||||+||||++..+|...   +..+.+++..+....
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            344579999999999999999888765   556777776555443

>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=96.99  E-value=0.00019  Score=56.38  Aligned_cols=23  Identities=26%  Similarity=0.361  Sum_probs=20.1

Q ss_pred             EEEEEecCCCChhHHHHHHHHHH
Q 021239          122 IVEIYGREASGKTTLALHVIKEA  144 (315)
Q Consensus       122 i~~i~G~~GsGKTtlal~la~~~  144 (315)
                      .++|+|+|||||||+|..++...
T Consensus         6 ~I~i~G~pGsGKTTia~~La~~l   28 (173)
T d1rkba_           6 NILLTGTPGVGKTTLGKELASKS   28 (173)
T ss_dssp             CEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            36799999999999999888765

>d1nksa_ c.37.1.1 (A:) Adenylate kinase {Archaeon Sulfolobus acidocaldarius [TaxId: 2285]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Archaeon Sulfolobus acidocaldarius [TaxId: 2285]

Probab=96.98  E-value=0.00037  Score=55.48  Aligned_cols=36  Identities=19%  Similarity=0.181  Sum_probs=31.2

Q ss_pred             cEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEec
Q 021239          121 RIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDV  156 (315)
Q Consensus       121 ~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~  156 (315)
                      .+++|.|+||+||||++..++.....+|..+..++.
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            478999999999999999999888878888877764

>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=96.94  E-value=0.00026  Score=60.00  Aligned_cols=86  Identities=21%  Similarity=0.238  Sum_probs=50.2

Q ss_pred             EEEEEecCCCChhHHHHHHHHHHHhc------CCeEEEEecCCCCChH-----HHHHcCCCCCCeEEeCCCCHHHHHHHH
Q 021239          122 IVEIYGREASGKTTLALHVIKEAQKL------GGYCAYLDVENALDPS-----LAEAMGIDAENLLIAQPDSAENLLSVV  190 (315)
Q Consensus       122 i~~i~G~~GsGKTtlal~la~~~~~~------g~~v~~i~~E~~~~~~-----~~~~~g~~~~~l~i~~~~~~e~~~~~i  190 (315)
                      ++.|+||||+|||+++..++......      ...+.|+.........     .....+...    .........+...+
T Consensus        48 ~l~l~GppGtGKT~l~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~l  123 (287)
T d1w5sa2          48 IYGSIGRVGIGKTTLAKFTVKRVSEAAAKEGLTVKQAYVNAFNAPNLYTILSLIVRQTGYPI----QVRGAPALDILKAL  123 (287)
T ss_dssp             EEECTTCCSSSHHHHHHHHHHHHHHHHHHTTCCEEEEEEEGGGCCSHHHHHHHHHHHHTCCC----CCTTCCHHHHHHHH
T ss_pred             EEEeECCCCCCHHHHHHHHHHHHHhhcccccCCceeeeeccccccchhhHHHHHhhhccccc----ccccchHHHHHHHH
Confidence            46678999999999999998876431      2355666654444331     122222211    11223344455444


Q ss_pred             HHHH-HcCCccEEeehhHhhhc
Q 021239          191 DTLT-KSGSIDVIVVDSVAALI  211 (315)
Q Consensus       191 ~~l~-~~~~~~lVVIDsl~~l~  211 (315)
                      .... ......++++|.+..+.
T Consensus       124 ~~~~~~~~~~~~~iide~d~l~  145 (287)
T d1w5sa2         124 VDNLYVENHYLLVILDEFQSML  145 (287)
T ss_dssp             HHHHHHHTCEEEEEEESTHHHH
T ss_pred             HHHHHhccCccccceeEEEEec
Confidence            4443 34567788888888776

>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=96.93  E-value=0.00026  Score=55.65  Aligned_cols=33  Identities=12%  Similarity=0.149  Sum_probs=25.5

Q ss_pred             CcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEe
Q 021239          120 GRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLD  155 (315)
Q Consensus       120 G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~  155 (315)
                      ..++.|+|+|||||||+|..++...   +.+...++
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            4689999999999999999987765   33444444

>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=96.93  E-value=0.00097  Score=51.67  Aligned_cols=86  Identities=20%  Similarity=0.227  Sum_probs=54.4

Q ss_pred             CCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCCh---HHHHHcCCCCCCeEEeCCCCHHHHHHHHHHHH
Q 021239          118 PKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP---SLAEAMGIDAENLLIAQPDSAENLLSVVDTLT  194 (315)
Q Consensus       118 ~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~---~~~~~~g~~~~~l~i~~~~~~e~~~~~i~~l~  194 (315)
                      ..|.+.+|+||=.|||||-++..+..+...|.+|++|........   ....+.|...+-+.+   .+..++...+    
T Consensus         5 ~~G~l~lI~GpMfSGKTteLi~~~~~~~~~g~~vl~i~~~~D~Ry~~~~i~sh~g~~~~a~~~---~~~~~~~~~~----   77 (141)
T d1xx6a1           5 DHGWVEVIVGPMYSGKSEELIRRIRRAKIAKQKIQVFKPEIDNRYSKEDVVSHMGEKEQAVAI---KNSREILKYF----   77 (141)
T ss_dssp             TCCEEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEEEC-------CEEECTTSCEEECEEE---SSSTHHHHHC----
T ss_pred             cceeEEEEEeccccHHHHHHHHHHHHhhhcCCcEEEEEeccccccccceeeecccceEEEEEe---cchhhhhhhh----
Confidence            479999999999999999999999999888999998885443210   011111221111122   2223333221    


Q ss_pred             HcCCccEEeehhHhhhc
Q 021239          195 KSGSIDVIVVDSVAALI  211 (315)
Q Consensus       195 ~~~~~~lVVIDsl~~l~  211 (315)
                       ..++++|.||..+-+-
T Consensus        78 -~~~~dvI~IDE~QFf~   93 (141)
T d1xx6a1          78 -EEDTEVIAIDEVQFFD   93 (141)
T ss_dssp             -CTTCSEEEECSGGGSC
T ss_pred             -cccccEEEEeehhhcc
Confidence             2468999999998764

>d1sxjc2 c.37.1.20 (C:12-238) Replication factor C3 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C3
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.90  E-value=0.0024  Score=52.66  Aligned_cols=23  Identities=26%  Similarity=0.472  Sum_probs=21.0

Q ss_pred             EEEEecCCCChhHHHHHHHHHHH
Q 021239          123 VEIYGREASGKTTLALHVIKEAQ  145 (315)
Q Consensus       123 ~~i~G~~GsGKTtlal~la~~~~  145 (315)
                      ++|+||||+|||+++..+|.+..
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

>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=96.88  E-value=0.00033  Score=56.58  Aligned_cols=34  Identities=29%  Similarity=0.348  Sum_probs=27.6

Q ss_pred             CCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEec
Q 021239          118 PKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDV  156 (315)
Q Consensus       118 ~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~  156 (315)
                      |+|--++|.|||||||||.|..+|...     ...|+++
T Consensus         1 p~~~riil~G~pGSGKsT~a~~La~~~-----g~~~i~~   34 (190)
T d1ak2a1           1 PKGVRAVLLGPPGAGKGTQAPKLAKNF-----CVCHLAT   34 (190)
T ss_dssp             CCCCEEEEECCTTSSHHHHHHHHHHHH-----TCEEEEH
T ss_pred             CCccEEEEECCCCCCHHHHHHHHHHHh-----CCeEEeH
Confidence            567778899999999999999988766     3456775

>d1lw7a2 c.37.1.1 (A:220-411) Transcriptional regulator NadR, ribosylnicotinamide kinase domain {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Transcriptional regulator NadR, ribosylnicotinamide kinase domain
species: Haemophilus influenzae [TaxId: 727]

Probab=96.88  E-value=0.00021  Score=56.50  Aligned_cols=24  Identities=33%  Similarity=0.437  Sum_probs=21.5

Q ss_pred             cEEEEEecCCCChhHHHHHHHHHH
Q 021239          121 RIVEIYGREASGKTTLALHVIKEA  144 (315)
Q Consensus       121 ~i~~i~G~~GsGKTtlal~la~~~  144 (315)
                      ..++|.|+||+||||||..++...
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            578999999999999999988765

>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=96.87  E-value=0.0063  Score=49.44  Aligned_cols=108  Identities=17%  Similarity=0.189  Sum_probs=59.5

Q ss_pred             CCcEEEEEecCCCChhHHHHHHHHHHHhc-------CCeEEEEecCCCCChHHHHHcCCCCCCeEEeCCCC---HHH-HH
Q 021239          119 KGRIVEIYGREASGKTTLALHVIKEAQKL-------GGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDS---AEN-LL  187 (315)
Q Consensus       119 ~G~i~~i~G~~GsGKTtlal~la~~~~~~-------g~~v~~i~~E~~~~~~~~~~~g~~~~~l~i~~~~~---~e~-~~  187 (315)
                      ....++|.|+||+|||+++..+|......       +.+++.+|...                + +.....   .++ +.
T Consensus        42 ~k~n~lLvG~pGVGKTalv~~LA~ri~~~~vp~~L~~~~i~~ld~~~----------------L-iAg~~~rG~~E~rl~  104 (195)
T d1jbka_          42 TKNNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLALDMGA----------------L-VAGAKYRGEFEERLK  104 (195)
T ss_dssp             SSCEEEEECCTTSCHHHHHHHHHHHHHHTCSCGGGTTCEEEEECHHH----------------H-HTTTCSHHHHHHHHH
T ss_pred             CCCCeEEEecCCcccHHHHHHHHHHHHhCCCCHHHcCceEEEeeHHH----------------H-hccCCccHHHHHHHH
Confidence            45578999999999999999999887742       34444444210                0 011111   232 22


Q ss_pred             HHHHHHHHcCCccEEeehhHhhhccccccCCCccCCChHHHHHHHHHHHHHHHHHHhccCcEEEEEecc
Q 021239          188 SVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQV  256 (315)
Q Consensus       188 ~~i~~l~~~~~~~lVVIDsl~~l~~~~~~~~~~~~~~~~~q~r~i~~~l~~L~~~~~~~~i~VI~inq~  256 (315)
                      ..+.++.+..+.-+++||.+..++......+   ..       .++..|+..   +.+-.+.+|..+..
T Consensus       105 ~il~e~~~~~~~iILfIDeih~l~~~g~~~g---~~-------d~~~~Lkp~---L~rg~l~~IgatT~  160 (195)
T d1jbka_         105 GVLNDLAKQEGNVILFIDELHTMVGAGKADG---AM-------DAGNMLKPA---LARGELHCVGATTL  160 (195)
T ss_dssp             HHHHHHHHSTTTEEEEEETGGGGTT---------CC-------CCHHHHHHH---HHTTSCCEEEEECH
T ss_pred             HHHHHHhcCCCcEEEEcchHHHHhcCCCCCC---cc-------cHHHHHHHH---HhCCCceEEecCCH
Confidence            3333443333456889999999984322111   11       123444433   35667777776653

>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=96.87  E-value=0.00085  Score=55.36  Aligned_cols=40  Identities=18%  Similarity=0.331  Sum_probs=35.4

Q ss_pred             CCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecC
Q 021239          118 PKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVE  157 (315)
Q Consensus       118 ~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E  157 (315)
                      .+|.++.|.|+.|+||||++..++......|.+|.++...
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            3789999999999999999999999888889899887644

>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=96.87  E-value=0.00012  Score=63.63  Aligned_cols=43  Identities=26%  Similarity=0.451  Sum_probs=32.7

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhc------CCeEEEEecCC
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKL------GGYCAYLDVEN  158 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~------g~~v~~i~~E~  158 (315)
                      -+++|+++.|.||+|+|||||+..++......      ++++.|+.-+.
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            37899999999999999999998887655432      34566666443

>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=96.86  E-value=0.00097  Score=57.37  Aligned_cols=40  Identities=25%  Similarity=0.227  Sum_probs=33.2

Q ss_pred             CCCCcEEEEEecCCCChhH-HHHHHHHHHHhcCCeEEEEec
Q 021239          117 LPKGRIVEIYGREASGKTT-LALHVIKEAQKLGGYCAYLDV  156 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTt-lal~la~~~~~~g~~v~~i~~  156 (315)
                      +.+|..+++.+|+|+|||+ ++..++..+..++.+++|+..
T Consensus         6 ~~~~~~~lv~~~TGsGKT~~~l~~~~~~~~~~~~~~lvi~P   46 (305)
T d2bmfa2           6 FRKKRLTIMDLHPGAGKTKRYLPAIVREAIKRGLRTLILAP   46 (305)
T ss_dssp             SSTTCEEEECCCTTSSTTTTHHHHHHHHHHHHTCCEEEEES
T ss_pred             hhcCCcEEEEECCCCCHHHHHHHHHHHHHHhcCCEEEEEcc
Confidence            5689999999999999995 555677777778889999873

>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=96.86  E-value=0.0024  Score=54.85  Aligned_cols=44  Identities=16%  Similarity=0.209  Sum_probs=32.9

Q ss_pred             CCCcEEEEEecCCCChhHHHHHHHHHHHh----cCCeEEEEecCCCCC
Q 021239          118 PKGRIVEIYGREASGKTTLALHVIKEAQK----LGGYCAYLDVENALD  161 (315)
Q Consensus       118 ~~G~i~~i~G~~GsGKTtlal~la~~~~~----~g~~v~~i~~E~~~~  161 (315)
                      ....++.|+|.+|+||||||.++......    .-..++|++......
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            45678999999999999999988765321    235688888665554

>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=96.86  E-value=0.00035  Score=56.56  Aligned_cols=33  Identities=27%  Similarity=0.434  Sum_probs=26.1

Q ss_pred             CCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEec
Q 021239          119 KGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDV  156 (315)
Q Consensus       119 ~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~  156 (315)
                      +..++.|.|||||||||+|..++...   |  ..++++
T Consensus         5 kp~iI~i~G~pGSGKsT~a~~La~~~---g--~~~i~~   37 (194)
T d1qf9a_           5 KPNVVFVLGGPGSGKGTQCANIVRDF---G--WVHLSA   37 (194)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHHHHHH---C--CEEEEH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHH---C--CceEch
Confidence            34689999999999999999988765   2  345654

>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=96.85  E-value=0.00044  Score=60.71  Aligned_cols=33  Identities=21%  Similarity=0.258  Sum_probs=25.3

Q ss_pred             cEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEec
Q 021239          121 RIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDV  156 (315)
Q Consensus       121 ~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~  156 (315)
                      ..++++||||+|||.+|.++|..+   +.+...++.
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            456789999999999999998775   345555553

>d1ixsb2 c.37.1.20 (B:4-242) Holliday junction helicase RuvB {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Holliday junction helicase RuvB
species: Thermus thermophilus [TaxId: 274]

Probab=96.84  E-value=0.00028  Score=59.16  Aligned_cols=23  Identities=35%  Similarity=0.449  Sum_probs=20.4

Q ss_pred             EEEEEecCCCChhHHHHHHHHHH
Q 021239          122 IVEIYGREASGKTTLALHVIKEA  144 (315)
Q Consensus       122 i~~i~G~~GsGKTtlal~la~~~  144 (315)
                      -++++||||+|||++|..++.++
T Consensus        37 ~~Ll~GPpG~GKTtla~~la~~~   59 (239)
T d1ixsb2          37 HLLLFGPPGLGKTTLAHVIAHEL   59 (239)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHHh
Confidence            37799999999999999988776

>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=96.83  E-value=0.002  Score=52.88  Aligned_cols=85  Identities=14%  Similarity=0.134  Sum_probs=46.3

Q ss_pred             EEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecC-CCCChH-HHHHcCCCCCCeEEeCCC------CHHHHHHHHHHH
Q 021239          122 IVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVE-NALDPS-LAEAMGIDAENLLIAQPD------SAENLLSVVDTL  193 (315)
Q Consensus       122 i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E-~~~~~~-~~~~~g~~~~~l~i~~~~------~~e~~~~~i~~l  193 (315)
                      .++|+||+|+|||+++..+|.........    ..+ ...... +.-.-+...+ ++...+.      ..+++.+.+..+
T Consensus        26 ~lLl~Gp~G~GKtt~a~~~a~~l~~~~~~----~~~~~~~~~~~~~i~~~~~~~-~~~~~~~~~~~~i~~~~ir~l~~~~  100 (207)
T d1a5ta2          26 ALLIQALPGMGDDALIYALSRYLLCQQPQ----GHKSCGHCRGCQLMQAGTHPD-YYTLAPEKGKNTLGVDAVREVTEKL  100 (207)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHTCSSCB----TTBCCSCSHHHHHHHHTCCTT-EEEECCCTTCSSBCHHHHHHHHHHT
T ss_pred             EEEEECCCCCcHHHHHHHHHHhccccccc----ccccccccchhhhhhhccccc-cchhhhhhcccccccchhhHHhhhh
Confidence            48999999999999999999877533210    000 000110 1111122222 2222211      245555444433


Q ss_pred             H---HcCCccEEeehhHhhhc
Q 021239          194 T---KSGSIDVIVVDSVAALI  211 (315)
Q Consensus       194 ~---~~~~~~lVVIDsl~~l~  211 (315)
                      .   ...+.+++|||.+..+.
T Consensus       101 ~~~~~~~~~kviIide~d~l~  121 (207)
T d1a5ta2         101 NEHARLGGAKVVWVTDAALLT  121 (207)
T ss_dssp             TSCCTTSSCEEEEESCGGGBC
T ss_pred             hhccccCccceEEechhhhhh
Confidence            2   23467899999888776

>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=96.80  E-value=0.00058  Score=58.20  Aligned_cols=38  Identities=21%  Similarity=0.353  Sum_probs=35.3

Q ss_pred             EEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCC
Q 021239          122 IVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENA  159 (315)
Q Consensus       122 i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~  159 (315)
                      .+.|+|.-|+||||++.++|...++.|.+|+.||++..
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

>d1njfa_ c.37.1.20 (A:) delta prime subunit of DNA polymerase III, N-domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: delta prime subunit of DNA polymerase III, N-domain
species: Escherichia coli [TaxId: 562]

Probab=96.79  E-value=0.00081  Score=56.49  Aligned_cols=26  Identities=23%  Similarity=0.211  Sum_probs=22.2

Q ss_pred             cEEEEEecCCCChhHHHHHHHHHHHh
Q 021239          121 RIVEIYGREASGKTTLALHVIKEAQK  146 (315)
Q Consensus       121 ~i~~i~G~~GsGKTtlal~la~~~~~  146 (315)
                      ..++|+||||+|||++|..++.....
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            46889999999999999988877653

>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=96.78  E-value=0.00081  Score=57.70  Aligned_cols=48  Identities=13%  Similarity=0.195  Sum_probs=40.1

Q ss_pred             cEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCChHHHHHcCC
Q 021239          121 RIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGI  170 (315)
Q Consensus       121 ~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~~~~~~~g~  170 (315)
                      .++.++|--|+||||++.++|..++++|.+|+.+|++....  ....+|.
T Consensus         9 ~~i~~sGKGGVGKTTvaa~lA~~lA~~G~rVLlvD~Dp~~~--l~~~lg~   56 (296)
T d1ihua1           9 PYLFFTGKGGVGKTSISCATAIRLAEQGKRVLLVSTDPASN--VGQVFSQ   56 (296)
T ss_dssp             SEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEECCTTCC--HHHHTTS
T ss_pred             eEEEEECCCcChHHHHHHHHHHHHHHCCCCEEEEeCCCCCC--HHHHhCC
Confidence            48889999999999999999999999999999999996443  3334443

>d1kaga_ c.37.1.2 (A:) Shikimate kinase (AroK) {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Escherichia coli [TaxId: 562]

Probab=96.78  E-value=0.00033  Score=54.06  Aligned_cols=23  Identities=17%  Similarity=0.328  Sum_probs=20.1

Q ss_pred             EEEEEecCCCChhHHHHHHHHHH
Q 021239          122 IVEIYGREASGKTTLALHVIKEA  144 (315)
Q Consensus       122 i~~i~G~~GsGKTtlal~la~~~  144 (315)
                      .+.|.|+||+||||+|..+|...
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            47788999999999999988765

>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=96.74  E-value=0.00095  Score=55.19  Aligned_cols=40  Identities=28%  Similarity=0.395  Sum_probs=35.0

Q ss_pred             CcEEEEE-ecCCCChhHHHHHHHHHHHhcCCeEEEEecCCC
Q 021239          120 GRIVEIY-GREASGKTTLALHVIKEAQKLGGYCAYLDVENA  159 (315)
Q Consensus       120 G~i~~i~-G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~  159 (315)
                      |.++.++ +..|+||||++.++|..++..|.+|+++|++..
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            5667677 669999999999999999999999999998744

>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=96.72  E-value=0.0061  Score=49.62  Aligned_cols=73  Identities=15%  Similarity=0.160  Sum_probs=48.0

Q ss_pred             CCcEEEEEecCCCChhHHHHHHHHHHHhcCC---eEEEEecCCCCChHHHHHcCCCCCCeEEeCCCCHHHHHHHHHHHHH
Q 021239          119 KGRIVEIYGREASGKTTLALHVIKEAQKLGG---YCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTK  195 (315)
Q Consensus       119 ~G~i~~i~G~~GsGKTtlal~la~~~~~~g~---~v~~i~~E~~~~~~~~~~~g~~~~~l~i~~~~~~e~~~~~i~~l~~  195 (315)
                      .+..++++||||+|||++|..++........   -++++..|...                    -..+++.+....+..
T Consensus        14 ~~~~~l~~G~~g~gk~~~a~~l~~~i~~~~~~h~D~~~i~~~~~~--------------------I~Id~IR~i~~~~~~   73 (198)
T d2gnoa2          14 EGISILINGEDLSYPREVSLELPEYVEKFPPKASDVLEIDPEGEN--------------------IGIDDIRTIKDFLNY   73 (198)
T ss_dssp             SSEEEEEECSSSSHHHHHHHHHHHHHHTSCCCTTTEEEECCSSSC--------------------BCHHHHHHHHHHHTS
T ss_pred             CCceEEEECCCCCCHHHHHHHHHHHHhccccCCCCEEEEeCCcCC--------------------CCHHHHHHHHHHHhh
Confidence            4678999999999999999999876543211   24444432110                    135666665544432


Q ss_pred             ---cCCccEEeehhHhhhc
Q 021239          196 ---SGSIDVIVVDSVAALI  211 (315)
Q Consensus       196 ---~~~~~lVVIDsl~~l~  211 (315)
                         .++.+++|||....+-
T Consensus        74 ~~~~~~~KviIId~ad~l~   92 (198)
T d2gnoa2          74 SPELYTRKYVIVHDCERMT   92 (198)
T ss_dssp             CCSSSSSEEEEETTGGGBC
T ss_pred             CcccCCCEEEEEeCccccc
Confidence               2466899999988775

>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=96.71  E-value=0.0011  Score=55.69  Aligned_cols=44  Identities=23%  Similarity=0.305  Sum_probs=33.2

Q ss_pred             HHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEec
Q 021239          106 LKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDV  156 (315)
Q Consensus       106 ~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~  156 (315)
                      .+|+++..    ..+..++|+||+|+|||+|+.+++...   +..+.|++.
T Consensus        19 ~el~~l~~----~~~~~i~i~G~~G~GKTsLl~~~~~~~---~~~~~~i~~   62 (283)
T d2fnaa2          19 KEIEKLKG----LRAPITLVLGLRRTGKSSIIKIGINEL---NLPYIYLDL   62 (283)
T ss_dssp             HHHHHHHH----TCSSEEEEEESTTSSHHHHHHHHHHHH---TCCEEEEEG
T ss_pred             HHHHHHHh----ccCCEEEEEcCCCCcHHHHHHHHHHHC---CCCeEEEEe
Confidence            35666655    256789999999999999999887654   456667764

>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=96.68  E-value=0.00099  Score=54.57  Aligned_cols=41  Identities=27%  Similarity=0.305  Sum_probs=34.3

Q ss_pred             CCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCC
Q 021239          119 KGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENA  159 (315)
Q Consensus       119 ~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~  159 (315)
                      +|.++.|-|+.||||||++..++......|.+++.+..|..
T Consensus         1 rgkfIviEG~dGsGKsT~~~~L~~~L~~~g~~~~~~~~ep~   41 (210)
T d4tmka_           1 RSKYIVIEGLEGAGKTTARNVVVETLEQLGIRDMVFTREPG   41 (210)
T ss_dssp             CCCEEEEEECTTSCHHHHHHHHHHHHHHTTCCCEEEEESSC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHHHhCCCCeEEEecCCC
Confidence            58899999999999999999998888878877666665543

>d1m7ga_ c.37.1.4 (A:) Adenosine-5'phosphosulfate kinase (APS kinase) {Fungus (Penicillium chrysogenum) [TaxId: 5076]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Adenosine-5'phosphosulfate kinase (APS kinase)
domain: Adenosine-5'phosphosulfate kinase (APS kinase)
species: Fungus (Penicillium chrysogenum) [TaxId: 5076]

Probab=96.66  E-value=0.00065  Score=56.12  Aligned_cols=41  Identities=29%  Similarity=0.316  Sum_probs=34.5

Q ss_pred             CCCcEEEEEecCCCChhHHHHHHHHHHHh-cCCeEEEEecCC
Q 021239          118 PKGRIVEIYGREASGKTTLALHVIKEAQK-LGGYCAYLDVEN  158 (315)
Q Consensus       118 ~~G~i~~i~G~~GsGKTtlal~la~~~~~-~g~~v~~i~~E~  158 (315)
                      .+|.++.|+|.||+||||++..++..... .+..+++++.+.
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            68999999999999999999999877754 466788888654

>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=96.64  E-value=0.00044  Score=56.06  Aligned_cols=34  Identities=24%  Similarity=0.312  Sum_probs=27.3

Q ss_pred             CCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEec
Q 021239          118 PKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDV  156 (315)
Q Consensus       118 ~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~  156 (315)
                      ..+.++.|.|||||||||.|..++...     ...++++
T Consensus         6 ~~~~iI~l~G~pGSGKsT~a~~La~~~-----g~~~is~   39 (194)
T d3adka_           6 KKSKIIFVVGGPGSGKGTQCEKIVQKY-----GYTHLST   39 (194)
T ss_dssp             HTSCEEEEEECTTSSHHHHHHHHHHHT-----CCEEEEH
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHHHHh-----CCeeEec
Confidence            367899999999999999999887654     3456665

>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=96.62  E-value=0.00058  Score=54.80  Aligned_cols=25  Identities=32%  Similarity=0.488  Sum_probs=22.4

Q ss_pred             CcEEEEEecCCCChhHHHHHHHHHH
Q 021239          120 GRIVEIYGREASGKTTLALHVIKEA  144 (315)
Q Consensus       120 G~i~~i~G~~GsGKTtlal~la~~~  144 (315)
                      |.+++|.||+|+||||++..++...
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            8899999999999999998877654

>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=96.61  E-value=0.00092  Score=54.47  Aligned_cols=36  Identities=19%  Similarity=0.122  Sum_probs=32.8

Q ss_pred             EEEEEec-CCCChhHHHHHHHHHHHhcCCeEEEEecC
Q 021239          122 IVEIYGR-EASGKTTLALHVIKEAQKLGGYCAYLDVE  157 (315)
Q Consensus       122 i~~i~G~-~GsGKTtlal~la~~~~~~g~~v~~i~~E  157 (315)
                      -+.|+|- +|+||||++..+|...+++|.+|++|+.+
T Consensus         3 ~~~i~gt~~GVGKTtvs~~La~aLa~~G~rVl~id~d   39 (224)
T d1byia_           3 RYFVTGTDTEVGKTVASCALLQAAKAAGYRTAGYKPV   39 (224)
T ss_dssp             EEEEEESSTTSCHHHHHHHHHHHHHHTTCCEEEECSE
T ss_pred             eEEEEECCCCccHHHHHHHHHHHHHHCCCeEEEECcc
Confidence            5788999 59999999999999999999999999864

>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=96.56  E-value=0.0046  Score=51.79  Aligned_cols=56  Identities=18%  Similarity=0.007  Sum_probs=43.7

Q ss_pred             CcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCCh
Q 021239          104 GSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP  162 (315)
Q Consensus       104 G~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~  162 (315)
                      .+.++..-+.   -+.....+|+|..|+|||-.++..+..+...|..|+++..+....+
T Consensus        63 ~~~~i~~~~~---~~~~~~~LL~GdvGsGKT~V~~~a~~~~~~~g~qv~~l~Pt~~La~  118 (233)
T d2eyqa3          63 AINAVLSDMC---QPLAMDRLVCGDVGFGKTEVAMRAAFLAVDNHKQVAVLVPTTLLAQ  118 (233)
T ss_dssp             HHHHHHHHHH---SSSCCEEEEECCCCTTTHHHHHHHHHHHHTTTCEEEEECSSHHHHH
T ss_pred             HHHHHHHHHh---ccCccCeEEEcCCCCCcHHHHHHHHHHHHHcCCceEEEccHHHhHH
Confidence            3444444443   2334678999999999999999999999999999999997766655

>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=96.56  E-value=0.0014  Score=54.01  Aligned_cols=38  Identities=21%  Similarity=0.317  Sum_probs=33.3

Q ss_pred             EEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCC
Q 021239          123 VEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENAL  160 (315)
Q Consensus       123 ~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~  160 (315)
                      .+..|..|+||||++.++|...++.|.+|+++|++...
T Consensus         5 av~s~KGGvGKTtia~nlA~~la~~g~~VlliD~D~~~   42 (232)
T d1hyqa_           5 TVASGKGGTGKTTITANLGVALAQLGHDVTIVDADITM   42 (232)
T ss_dssp             EEEESSSCSCHHHHHHHHHHHHHHTTCCEEEEECCCSS
T ss_pred             EEECCCCCChHHHHHHHHHHHHHhCCCCEEEEeCCCCC
Confidence            44458899999999999999999999999999997654

>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=96.50  E-value=0.0012  Score=56.77  Aligned_cols=40  Identities=20%  Similarity=0.382  Sum_probs=35.7

Q ss_pred             cEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCC
Q 021239          121 RIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENAL  160 (315)
Q Consensus       121 ~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~  160 (315)
                      ..+.|+|--|+||||++.++|...++.|.+|+.||++...
T Consensus         3 r~IaisgKGGVGKTT~a~NLA~~LA~~G~rVLlID~DpQ~   42 (289)
T d2afhe1           3 RQCAIYGKGGIGKSTTTQNLVAALAEMGKKVMIVGCDPKA   42 (289)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHHHHHTTCCEEEEEECSSS
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHHHHCCCCEEEEecCCCC
Confidence            3567899999999999999999999999999999998643

>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=96.47  E-value=0.00075  Score=53.62  Aligned_cols=22  Identities=23%  Similarity=0.326  Sum_probs=20.0

Q ss_pred             EEEEecCCCChhHHHHHHHHHH
Q 021239          123 VEIYGREASGKTTLALHVIKEA  144 (315)
Q Consensus       123 ~~i~G~~GsGKTtlal~la~~~  144 (315)
                      +.|.|||||||||.|..++...
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            6799999999999999888776

>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=96.45  E-value=0.00089  Score=54.14  Aligned_cols=34  Identities=18%  Similarity=0.254  Sum_probs=27.5

Q ss_pred             CCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEec
Q 021239          118 PKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDV  156 (315)
Q Consensus       118 ~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~  156 (315)
                      ++-.++.|.|||||||||+|..++...     ...||++
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            456689999999999999999987755     3566775

>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=96.43  E-value=0.0017  Score=53.75  Aligned_cols=35  Identities=31%  Similarity=0.335  Sum_probs=28.1

Q ss_pred             EEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecC
Q 021239          122 IVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVE  157 (315)
Q Consensus       122 i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E  157 (315)
                      ++.|.|++|+|||||+..+..... .++.+..++.+
T Consensus         2 vi~v~G~~GsGKTTLl~~ll~~~~-~~~~~~ivn~d   36 (244)
T d1yrba1           2 IVVFVGTAGSGKTTLTGEFGRYLE-DNYKVAYVNLD   36 (244)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHT-TTSCEEEEECC
T ss_pred             EEEEEcCCCCcHHHHHHHHHHHHh-hCCeEEEEecC
Confidence            689999999999999999876553 56677777643

>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=96.42  E-value=0.018  Score=47.96  Aligned_cols=28  Identities=25%  Similarity=0.253  Sum_probs=24.3

Q ss_pred             CCcEEEEEecCCCChhHHHHHHHHHHHh
Q 021239          119 KGRIVEIYGREASGKTTLALHVIKEAQK  146 (315)
Q Consensus       119 ~G~i~~i~G~~GsGKTtlal~la~~~~~  146 (315)
                      ...+.+|+||+.+|||+++.+++.....
T Consensus        40 ~~~~~iiTGpN~~GKSt~lk~i~l~~~l   67 (234)
T d1wb9a2          40 QRRMLIITGPNMGGKSTYMRQTALIALM   67 (234)
T ss_dssp             SSCEEEEECCTTSSHHHHHHHHHHHHHH
T ss_pred             CceEEEEeccCchhhHHHHHHHHHHHHH
Confidence            3578999999999999999999887653

>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=96.41  E-value=0.00091  Score=53.87  Aligned_cols=30  Identities=23%  Similarity=0.417  Sum_probs=24.3

Q ss_pred             EEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEec
Q 021239          122 IVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDV  156 (315)
Q Consensus       122 i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~  156 (315)
                      ++.|.|||||||||.|..++...   |  ..|+++
T Consensus         3 iI~i~GppGSGKsT~a~~La~~~---g--~~~i~~   32 (194)
T d1teva_           3 VVFVLGGPGAGKGTQCARIVEKY---G--YTHLSA   32 (194)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHH---C--CEEEEH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh---C--CceEcH
Confidence            68999999999999999888766   2  455654

>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=96.40  E-value=0.00083  Score=55.78  Aligned_cols=24  Identities=33%  Similarity=0.321  Sum_probs=21.5

Q ss_pred             EEEEEecCCCChhHHHHHHHHHHH
Q 021239          122 IVEIYGREASGKTTLALHVIKEAQ  145 (315)
Q Consensus       122 i~~i~G~~GsGKTtlal~la~~~~  145 (315)
                      .++|+||||+|||+++..+|.+..
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            478999999999999999988764

>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=96.39  E-value=0.0024  Score=55.84  Aligned_cols=103  Identities=18%  Similarity=0.236  Sum_probs=59.8

Q ss_pred             HHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHh--cCCeEEEEecCCCCCh-HHHHHcCCCCCCeEEeCCCCHHH
Q 021239          109 DLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQK--LGGYCAYLDVENALDP-SLAEAMGIDAENLLIAQPDSAEN  185 (315)
Q Consensus       109 D~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~--~g~~v~~i~~E~~~~~-~~~~~~g~~~~~l~i~~~~~~e~  185 (315)
                      ...|+..+-..--++.|+|++||||||||..+.....+  .+.+|..++++.-..+ ...+.-+... +.-.....+.+.
T Consensus        69 ~~fl~~~~~k~P~iIGIaG~sgSGKSTla~~L~~lL~~~~~~~~v~~Is~D~F~~~~~~l~~~~~~~-~~g~Pes~D~~~  147 (308)
T d1sq5a_          69 EQFLGTNGQRIPYIISIAGSVAVGKSTTARVLQALLSRWPEHRRVELITTDGFLHPNQVLKERGLMK-KKGFPESYDMHR  147 (308)
T ss_dssp             HHHHTCC-CCCCEEEEEEECTTSSHHHHHHHHHHHHTTSTTCCCEEEEEGGGGBCCHHHHHHHTCTT-CTTSGGGBCHHH
T ss_pred             HHHhcccCCCCCEEEEEeCCCCCCCcHHHHHHHHHHhhhcCCCceEEEeeeeeECCchHHHHhcCCc-cCCchHhhhHHH
Confidence            34454222233458999999999999999888877654  3568989998765433 2222222111 101112234555


Q ss_pred             HHHHHHHHHH------------------------cCCccEEeehhHhhhcc
Q 021239          186 LLSVVDTLTK------------------------SGSIDVIVVDSVAALIP  212 (315)
Q Consensus       186 ~~~~i~~l~~------------------------~~~~~lVVIDsl~~l~~  212 (315)
                      +.+.+..+..                        ...+++|||+.+..+..
T Consensus       148 L~~~L~~lk~g~~~v~~P~yd~~~~d~~~~~~~~~~~~dIlIvEGi~vL~~  198 (308)
T d1sq5a_         148 LVKFVSDLKSGVPNVTAPVYSHLIYDVIPDGDKTVVQPDILILEGLNVLQS  198 (308)
T ss_dssp             HHHHHHHHTTTCSCEEECCEETTTTEECTTCCEEEC-CCEEEEECTTTTCC
T ss_pred             HHHHHHHHHcCCCcceeeccchhhcccCCCCceEeCCCCEEEEcchhhccC
Confidence            5555544431                        12457999999888763

>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=96.37  E-value=0.00096  Score=53.68  Aligned_cols=23  Identities=35%  Similarity=0.248  Sum_probs=20.0

Q ss_pred             EEEEEecCCCChhHHHHHHHHHH
Q 021239          122 IVEIYGREASGKTTLALHVIKEA  144 (315)
Q Consensus       122 i~~i~G~~GsGKTtlal~la~~~  144 (315)
                      .+.|.|||||||||+|..++...
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            47799999999999998887666

>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=96.36  E-value=0.0023  Score=52.49  Aligned_cols=90  Identities=14%  Similarity=0.045  Sum_probs=51.7

Q ss_pred             EEEEEecCCCChhHHHHHHHHHHHhc--CCeEEEEecCCCCChHHHHHcCCCCC---------CeEEeCCCCHHHHHHHH
Q 021239          122 IVEIYGREASGKTTLALHVIKEAQKL--GGYCAYLDVENALDPSLAEAMGIDAE---------NLLIAQPDSAENLLSVV  190 (315)
Q Consensus       122 i~~i~G~~GsGKTtlal~la~~~~~~--g~~v~~i~~E~~~~~~~~~~~g~~~~---------~l~i~~~~~~e~~~~~i  190 (315)
                      .+.+.|.+++|||||+-++.......  .+.+-+.......+.++.+.+-++..         ++.+.+..--.++...+
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            37899999999999998887655432  12221111111222344444433322         34444444445566555


Q ss_pred             HHHHHcCCccEEeehhHhhhc
Q 021239          191 DTLTKSGSIDVIVVDSVAALI  211 (315)
Q Consensus       191 ~~l~~~~~~~lVVIDsl~~l~  211 (315)
                      .+-+...+..++|||.-..+.
T Consensus        85 ~~~~~~aD~avlVvda~~Gv~  105 (204)
T d2c78a3          85 ITGAAQMDGAILVVSAADGPM  105 (204)
T ss_dssp             HHHHTTCSSEEEEEETTTCCC
T ss_pred             HHHHHHCCEEEEEEECCCCCc
Confidence            555566788999999755444

>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=96.35  E-value=0.0011  Score=54.43  Aligned_cols=30  Identities=37%  Similarity=0.482  Sum_probs=24.6

Q ss_pred             EEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEec
Q 021239          122 IVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDV  156 (315)
Q Consensus       122 i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~  156 (315)
                      ++.|.|||||||||.|..++..+     ...|+++
T Consensus         5 ~IaIdGp~GsGKgT~ak~La~~l-----g~~~ist   34 (223)
T d1q3ta_           5 QIAIDGPASSGKSTVAKIIAKDF-----GFTYLDT   34 (223)
T ss_dssp             EEEEECSSCSSHHHHHHHHHHHH-----CCEEEEH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh-----CCcEECH
Confidence            46688999999999999999888     3456774

>d1ckea_ c.37.1.1 (A:) CMP kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: CMP kinase
species: Escherichia coli [TaxId: 562]

Probab=96.35  E-value=0.001  Score=54.35  Aligned_cols=30  Identities=27%  Similarity=0.364  Sum_probs=25.5

Q ss_pred             EEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEec
Q 021239          122 IVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDV  156 (315)
Q Consensus       122 i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~  156 (315)
                      ++.|.|||||||||.|..++..+     ...|+|+
T Consensus         5 iI~I~GppGSGKgT~ak~La~~~-----gl~~iSt   34 (225)
T d1ckea_           5 VITIDGPSGAGKGTLCKAMAEAL-----QWHLLDS   34 (225)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHH-----TCEEEEH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh-----CCcEECH
Confidence            89999999999999999998887     3456664

>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=96.33  E-value=0.001  Score=53.09  Aligned_cols=23  Identities=26%  Similarity=0.355  Sum_probs=20.4

Q ss_pred             EEEEEecCCCChhHHHHHHHHHH
Q 021239          122 IVEIYGREASGKTTLALHVIKEA  144 (315)
Q Consensus       122 i~~i~G~~GsGKTtlal~la~~~  144 (315)
                      -+.|.|||||||||+|..++...
T Consensus         2 ~I~i~G~pGsGKsT~a~~La~~~   24 (181)
T d2cdna1           2 RVLLLGPPGAGKGTQAVKLAEKL   24 (181)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            36788999999999999998776

>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=96.31  E-value=0.0011  Score=53.07  Aligned_cols=23  Identities=22%  Similarity=0.313  Sum_probs=20.5

Q ss_pred             EEEEEecCCCChhHHHHHHHHHH
Q 021239          122 IVEIYGREASGKTTLALHVIKEA  144 (315)
Q Consensus       122 i~~i~G~~GsGKTtlal~la~~~  144 (315)
                      .+.|.|||||||||+|..++...
T Consensus         2 ~I~i~G~pGSGKsT~a~~La~~~   24 (182)
T d1s3ga1           2 NIVLMGLPGAGKGTQADRIVEKY   24 (182)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            36789999999999999998776

>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=96.29  E-value=0.0011  Score=57.41  Aligned_cols=38  Identities=13%  Similarity=0.204  Sum_probs=30.6

Q ss_pred             EEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCC
Q 021239          122 IVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENA  159 (315)
Q Consensus       122 i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~  159 (315)
                      ++.|+|++||||||++..+.......+-+++.++.+.-
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

>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=96.28  E-value=0.0013  Score=53.83  Aligned_cols=37  Identities=16%  Similarity=0.310  Sum_probs=28.5

Q ss_pred             EEEEEecCCCChhHHHHHHHHHHHhc-----CCeEEEEecCC
Q 021239          122 IVEIYGREASGKTTLALHVIKEAQKL-----GGYCAYLDVEN  158 (315)
Q Consensus       122 i~~i~G~~GsGKTtlal~la~~~~~~-----g~~v~~i~~E~  158 (315)
                      ++.|+|++||||||++..++......     +..+..++.+.
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            68899999999999999888776432     34577777653

>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=96.27  E-value=0.0017  Score=56.29  Aligned_cols=40  Identities=13%  Similarity=0.230  Sum_probs=31.2

Q ss_pred             CcEEEEEecCCCChhHHHHHHHHHHHhc---CCeEEEEecCCC
Q 021239          120 GRIVEIYGREASGKTTLALHVIKEAQKL---GGYCAYLDVENA  159 (315)
Q Consensus       120 G~i~~i~G~~GsGKTtlal~la~~~~~~---g~~v~~i~~E~~  159 (315)
                      -=++.|+|++||||||++..+.......   ...|+.++.++-
T Consensus        27 P~iIGi~G~qGSGKSTl~~~l~~~L~~~~~~~~~v~~iS~Ddf   69 (286)
T d1odfa_          27 PLFIFFSGPQGSGKSFTSIQIYNHLMEKYGGEKSIGYASIDDF   69 (286)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHHHHHGGGSCEEEEEGGGG
T ss_pred             CEEEEeECCCCCCHHHHHHHHHHHHHHHhCCCcceEeeccCCC
Confidence            3578899999999999998887766542   346888887664

>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=96.26  E-value=0.0069  Score=54.55  Aligned_cols=110  Identities=15%  Similarity=0.156  Sum_probs=51.4

Q ss_pred             CcEEEEEecCCCChhHHHHHHHHHHHhc-------CCeEEEEecCCCCChHHHHHcCCCCCCeEEeCCCCHHHHH-HHHH
Q 021239          120 GRIVEIYGREASGKTTLALHVIKEAQKL-------GGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLL-SVVD  191 (315)
Q Consensus       120 G~i~~i~G~~GsGKTtlal~la~~~~~~-------g~~v~~i~~E~~~~~~~~~~~g~~~~~l~i~~~~~~e~~~-~~i~  191 (315)
                      ....+|.|+||+|||+++..+|......       +..++.++...-..-              .......++-+ .++.
T Consensus        43 k~n~llvG~~GvGKtaiv~~la~~i~~~~vp~~l~~~~i~~ld~~~l~ag--------------~~~~g~~e~r~~~i~~  108 (387)
T d1qvra2          43 KNNPVLIGEPGVGKTAIVEGLAQRIVKGDVPEGLKGKRIVSLQMGSLLAG--------------AKYRGEFEERLKAVIQ  108 (387)
T ss_dssp             CCCCEEEECTTSCHHHHHHHHHHHHHHTCSCTTSTTCEEEEECC-------------------------CHHHHHHHHHH
T ss_pred             CCCCeEECCCCCCHHHHHHHHHHHHHhCCCCHHHcCceEEEeeHhhhhcc--------------cCcchhHHHHHHHHHH
Confidence            4457888999999999999998877642       334444443111000              00112344433 3344


Q ss_pred             HHHHcCCccEEeehhHhhhccccccCCCccCCChHHHHHHHHHHHHHHHHHHhccCcEEEEEecc
Q 021239          192 TLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFLNQV  256 (315)
Q Consensus       192 ~l~~~~~~~lVVIDsl~~l~~~~~~~~~~~~~~~~~q~r~i~~~l~~L~~~~~~~~i~VI~inq~  256 (315)
                      ++....+.-+++||.+..++......   |+       ..++.+|+-   ++.+-.+.+|..+..
T Consensus       109 ~~~~~~~~~ilfide~h~l~~~g~~~---g~-------~d~a~~Lkp---~L~rg~~~~I~~tT~  160 (387)
T d1qvra2         109 EVVQSQGEVILFIDELHTVVGAGKAE---GA-------VDAGNMLKP---ALARGELRLIGATTL  160 (387)
T ss_dssp             HHHTTCSSEEEEECCC-----------------------------HH---HHHTTCCCEEEEECH
T ss_pred             HhccCCCceEEEeccHHHHhcCCCCC---Cc-------ccHHHHHHH---HHhCCCcceeeecCH
Confidence            44333345679999999998422111   11       113344443   336667777766643

>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=96.22  E-value=0.002  Score=53.22  Aligned_cols=49  Identities=22%  Similarity=0.206  Sum_probs=32.5

Q ss_pred             cHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHh---cCCeEEEEec
Q 021239          105 SLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQK---LGGYCAYLDV  156 (315)
Q Consensus       105 ~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~---~g~~v~~i~~  156 (315)
                      +..|-..+. .+-.+  .++|+||||+||||++..++.+...   .......+..
T Consensus        21 ~~~l~~~i~-~~~~~--~lll~Gp~G~GKTtl~~~i~~~l~~~~~~~~~~~~~~~   72 (237)
T d1sxjd2          21 VTVLKKTLK-SANLP--HMLFYGPPGTGKTSTILALTKELYGPDLMKSRILELNA   72 (237)
T ss_dssp             HHHHHHHTT-CTTCC--CEEEECSTTSSHHHHHHHHHHHHHHHHHHTTSEEEECS
T ss_pred             HHHHHHHHH-cCCCC--eEEEECCCCCChHHHHHHHHHHHcCCcccccchhheec
Confidence            355666665 33222  2789999999999999999987642   2334444443

>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=96.21  E-value=0.013  Score=48.66  Aligned_cols=26  Identities=27%  Similarity=0.253  Sum_probs=23.0

Q ss_pred             cEEEEEecCCCChhHHHHHHHHHHHh
Q 021239          121 RIVEIYGREASGKTTLALHVIKEAQK  146 (315)
Q Consensus       121 ~i~~i~G~~GsGKTtlal~la~~~~~  146 (315)
                      ++++|+||+.+|||+++.+++.....
T Consensus        36 ~~~iiTGpN~~GKSt~lk~i~l~~il   61 (224)
T d1ewqa2          36 ELVLITGPNMAGKSTFLRQTALIALL   61 (224)
T ss_dssp             CEEEEESCSSSSHHHHHHHHHHHHHH
T ss_pred             cEEEEECCCccccchhhhhhHHHHHH
Confidence            48999999999999999999887653

>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=96.16  E-value=0.0015  Score=51.96  Aligned_cols=23  Identities=22%  Similarity=0.343  Sum_probs=19.9

Q ss_pred             EEEEEecCCCChhHHHHHHHHHH
Q 021239          122 IVEIYGREASGKTTLALHVIKEA  144 (315)
Q Consensus       122 i~~i~G~~GsGKTtlal~la~~~  144 (315)
                      .++|.|||||||||.|..++...
T Consensus         2 ~I~i~G~pGSGKsT~~~~La~~~   24 (179)
T d1e4va1           2 RIILLGAPVAGKGTQAQFIMEKY   24 (179)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            36789999999999999888765

>d1sxje2 c.37.1.20 (E:4-255) Replication factor C5 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C5
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.15  E-value=0.0011  Score=55.38  Aligned_cols=24  Identities=21%  Similarity=0.451  Sum_probs=21.6

Q ss_pred             EEEEecCCCChhHHHHHHHHHHHh
Q 021239          123 VEIYGREASGKTTLALHVIKEAQK  146 (315)
Q Consensus       123 ~~i~G~~GsGKTtlal~la~~~~~  146 (315)
                      ++|+||||+||||++..++.+...
T Consensus        36 lll~Gp~G~GKTt~~~~la~~l~~   59 (252)
T d1sxje2          36 LLLYGPNGTGKKTRCMALLESIFG   59 (252)
T ss_dssp             EEEECSTTSSHHHHHHTHHHHHSC
T ss_pred             EEEECCCCCCHHHHHHHHHHhhcC
Confidence            789999999999999999988754

>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=96.14  E-value=0.0014  Score=54.15  Aligned_cols=38  Identities=24%  Similarity=0.111  Sum_probs=26.9

Q ss_pred             HHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHh
Q 021239          106 LKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQK  146 (315)
Q Consensus       106 ~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~  146 (315)
                      ..|-..+. .|-.+  -++|+||||+||||+|..++.+...
T Consensus        25 ~~L~~~~~-~~~~~--~~ll~Gp~G~GKTt~a~~la~~l~~   62 (224)
T d1sxjb2          25 DRLQQIAK-DGNMP--HMIISGMPGIGKTTSVHCLAHELLG   62 (224)
T ss_dssp             HHHHHHHH-SCCCC--CEEEECSTTSSHHHHHHHHHHHHHG
T ss_pred             HHHHHHHH-cCCCC--eEEEECCCCCCchhhHHHHHHHHhc
Confidence            44445554 33222  2789999999999999999887653

>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=96.12  E-value=0.0014  Score=51.71  Aligned_cols=31  Identities=19%  Similarity=0.416  Sum_probs=24.5

Q ss_pred             EEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecC
Q 021239          122 IVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVE  157 (315)
Q Consensus       122 i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E  157 (315)
                      .+.|.|+|||||||++..+|...   |  .-|+|.+
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            46688999999999999998776   3  3477754

>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=96.11  E-value=0.0015  Score=52.06  Aligned_cols=29  Identities=24%  Similarity=0.242  Sum_probs=23.1

Q ss_pred             EEEEecCCCChhHHHHHHHHHHHhcCCeEEEEec
Q 021239          123 VEIYGREASGKTTLALHVIKEAQKLGGYCAYLDV  156 (315)
Q Consensus       123 ~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~  156 (315)
                      ++|.|||||||||+|..++...     .+.++++
T Consensus         5 Ivl~G~pGSGKtT~a~~La~~~-----g~~~i~~   33 (180)
T d1akya1           5 MVLIGPPGAGKGTQAPNLQERF-----HAAHLAT   33 (180)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHH-----CCEEEEH
T ss_pred             EEEECCCCCCHHHHHHHHHHHh-----CCceEec
Confidence            5678999999999999998765     3446665

>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=96.11  E-value=0.052  Score=40.17  Aligned_cols=110  Identities=13%  Similarity=0.158  Sum_probs=81.6

Q ss_pred             EEEEEecCCCC-hhHHHHHHHHHHHhc--CCeEEEEecCCCCChHHHHHcCCCCCCeEEeCCCCHHHHHHHHHHHHHcCC
Q 021239          122 IVEIYGREASG-KTTLALHVIKEAQKL--GGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTKSGS  198 (315)
Q Consensus       122 i~~i~G~~GsG-KTtlal~la~~~~~~--g~~v~~i~~E~~~~~~~~~~~g~~~~~l~i~~~~~~e~~~~~i~~l~~~~~  198 (315)
                      ++++.++...| -..|..-+.......  +..++||+....+........|++++++.+.++.+..+..+.+++.++.+.
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            55666555444 355555555555432  457999999988888889999999999999999999999999999999988


Q ss_pred             ccEEeehhHhhhccccccCCCccCCChHHHHHHHHHHHHHHHHHHhccCcEEEEE
Q 021239          199 IDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTLIIFL  253 (315)
Q Consensus       199 ~~lVVIDsl~~l~~~~~~~~~~~~~~~~~q~r~i~~~l~~L~~~~~~~~i~VI~i  253 (315)
                      +..||... .      .++               ...+|+|.-.+++.+...+++
T Consensus        84 ~~aVl~w~-~------~l~---------------~~~~RRLqlAA~~g~t~~~ll  116 (119)
T d1ofux_          84 SHTVVSWL-E------PLS---------------RAARKQLSRAAQLGQAQSLNI  116 (119)
T ss_dssp             EEEEEECC-S------SCC---------------HHHHHHHHHHHHHHTCEEEEE
T ss_pred             ccEEEEcC-C------CCC---------------hHHHHHHHHHHHhcCCEEEEE
Confidence            88888652 1      110               134677777778888888775

>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=96.09  E-value=0.0037  Score=54.80  Aligned_cols=40  Identities=18%  Similarity=0.087  Sum_probs=31.3

Q ss_pred             CCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCC
Q 021239          119 KGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVEN  158 (315)
Q Consensus       119 ~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~  158 (315)
                      |..+++++||+|+|||.+|..+|......+.+.+.++..+
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            3446789999999999999999988865556676676543

>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=96.08  E-value=0.0023  Score=51.66  Aligned_cols=33  Identities=24%  Similarity=0.193  Sum_probs=25.4

Q ss_pred             CCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEec
Q 021239          119 KGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDV  156 (315)
Q Consensus       119 ~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~  156 (315)
                      +.--++|.|||||||||+|..+|...     ...++++
T Consensus         5 r~mrIiliG~PGSGKtT~a~~La~~~-----g~~~is~   37 (189)
T d2ak3a1           5 RLLRAAIMGAPGSGKGTVSSRITKHF-----ELKHLSS   37 (189)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHHHB-----CCEEEEH
T ss_pred             cceeEEEECCCCCCHHHHHHHHHHHH-----CCeEEcH
Confidence            34457788999999999999988764     3556775

>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=96.06  E-value=0.0019  Score=53.09  Aligned_cols=26  Identities=19%  Similarity=0.394  Sum_probs=22.9

Q ss_pred             CCcEEEEEecCCCChhHHHHHHHHHH
Q 021239          119 KGRIVEIYGREASGKTTLALHVIKEA  144 (315)
Q Consensus       119 ~G~i~~i~G~~GsGKTtlal~la~~~  144 (315)
                      .|.+++|+||+|+||||+...++...
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            48899999999999999998877664

>d1viaa_ c.37.1.2 (A:) Shikimate kinase (AroK) {Campylobacter jejuni [TaxId: 197]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Campylobacter jejuni [TaxId: 197]

Probab=95.95  E-value=0.002  Score=50.48  Aligned_cols=30  Identities=33%  Similarity=0.475  Sum_probs=24.0

Q ss_pred             EEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecC
Q 021239          123 VEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVE  157 (315)
Q Consensus       123 ~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E  157 (315)
                      +.|.|+||+||||++..+|...   |  .-|+|++
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            6677999999999999988877   2  3467754

>d2iyva1 c.37.1.2 (A:2-166) Shikimate kinase (AroK) {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=95.94  E-value=0.0021  Score=50.44  Aligned_cols=30  Identities=30%  Similarity=0.398  Sum_probs=22.8

Q ss_pred             EEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecC
Q 021239          123 VEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVE  157 (315)
Q Consensus       123 ~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E  157 (315)
                      ++|.|+||+||||++..++...   |-+  |+|++
T Consensus         4 IvliG~~G~GKSTig~~La~~l---~~~--fiD~D   33 (165)
T d2iyva1           4 AVLVGLPGSGKSTIGRRLAKAL---GVG--LLDTD   33 (165)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHH---TCC--EEEHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHh---CCC--eEeec
Confidence            4566999999999999988666   323  67754

>d1gsia_ c.37.1.1 (A:) Thymidylate kinase {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=95.80  E-value=0.0057  Score=49.34  Aligned_cols=36  Identities=25%  Similarity=0.317  Sum_probs=31.4

Q ss_pred             EEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecC
Q 021239          122 IVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVE  157 (315)
Q Consensus       122 i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E  157 (315)
                      +|.|.|..||||||++..++......|.+|.++...
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            688999999999999999998888888888887654

>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=95.79  E-value=0.0067  Score=52.08  Aligned_cols=113  Identities=18%  Similarity=0.179  Sum_probs=61.2

Q ss_pred             EEEEEecCCCChhHHHHHHHHHHHhcCC--eE----EEEecCCCCChHHHHHcCCCCC---------CeEEeCCCCHHHH
Q 021239          122 IVEIYGREASGKTTLALHVIKEAQKLGG--YC----AYLDVENALDPSLAEAMGIDAE---------NLLIAQPDSAENL  186 (315)
Q Consensus       122 i~~i~G~~GsGKTtlal~la~~~~~~g~--~v----~~i~~E~~~~~~~~~~~g~~~~---------~l~i~~~~~~e~~  186 (315)
                      .+.|.|..|+|||||+-.++.....-..  ++    ...|.+.   .++.+.+.+...         .+.+.+.+--.++
T Consensus         8 ni~i~gh~~~GKTtL~e~ll~~~g~~~~~g~v~~~~~~~D~~~---~E~~r~~si~~~~~~~~~~~~~~n~iDtPG~~dF   84 (276)
T d2bv3a2           8 NIGIAAHIDAGKTTTTERILYYTGRIHKIGEVHEGAATMDFME---QERERGITITAAVTTCFWKDHRINIIDAPGHVDF   84 (276)
T ss_dssp             EEEEEECTTSCHHHHHHHHHHHHTSSCC----------------------CCCCCCCSEEEEEETTEEEEEECCCSSSSC
T ss_pred             EEEEEeCCCCCHHHHHHHHHHhcCccccccceecCceEEeccH---HHHhcCCccccceeeeccCCeEEEEecCCchhhh
Confidence            5889999999999999999876653211  11    1122111   122333333222         3344444433344


Q ss_pred             HHHHHHHHHcCCccEEeehhHhhhccccccCCCccCCChHHHHHHHHHHHHHHHHHHhccCcE-EEEEeccccc
Q 021239          187 LSVVDTLTKSGSIDVIVVDSVAALIPKCEIGVPINGMYSDAQSRIMTQALRKIHYSLCQSHTL-IIFLNQVRFS  259 (315)
Q Consensus       187 ~~~i~~l~~~~~~~lVVIDsl~~l~~~~~~~~~~~~~~~~~q~r~i~~~l~~L~~~~~~~~i~-VI~inq~~~~  259 (315)
                      ...+...+......++|||....+..               |.+       ++-+.+++++++ ++++|.+-+.
T Consensus        85 ~~e~~~~l~~~D~avlVvda~~Gv~~---------------~T~-------~~w~~a~~~~lP~i~fINKmDr~  136 (276)
T d2bv3a2          85 TIEVERSMRVLDGAIVVFDSSQGVEP---------------QSE-------TVWRQAEKYKVPRIAFANKMDKT  136 (276)
T ss_dssp             STTHHHHHHHCCEEEEEEETTTSSCH---------------HHH-------HHHHHHHTTTCCEEEEEECTTST
T ss_pred             HHHHHHHHHhhhheEEeccccCCcch---------------hHH-------HHHHHHHHcCCCEEEEEeccccc
Confidence            44344444445788999998876652               221       233444788887 6678887554

>d1g5ta_ c.37.1.11 (A:) ATP:corrinoid adenosyltransferase CobA {Salmonella typhimurium [TaxId: 90371]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: ATP:corrinoid adenosyltransferase CobA
species: Salmonella typhimurium [TaxId: 90371]

Probab=95.77  E-value=0.038  Score=43.03  Aligned_cols=93  Identities=17%  Similarity=0.264  Sum_probs=58.7

Q ss_pred             CCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCCh----HHHHHcCCCCCC---eEEeCCCCHH-------
Q 021239          119 KGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP----SLAEAMGIDAEN---LLIAQPDSAE-------  184 (315)
Q Consensus       119 ~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~----~~~~~~g~~~~~---l~i~~~~~~e-------  184 (315)
                      +|- +.|+=.+|=||||-|+-+|..++-.|.+|+++-|=-....    ...+..++....   -......+.+       
T Consensus         2 kG~-i~vytG~GKGKTTAAlG~alRA~G~G~rV~ivQFlKg~~~~ge~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~a~   80 (157)
T d1g5ta_           2 RGI-IIVFTGNGKGKTTAAFGTAARAVGHGKNVGVVQFIKGTWPNGERNLLEPHGVEFQVMATGFTWETQNREADTAACM   80 (157)
T ss_dssp             CCC-EEEEESSSSCHHHHHHHHHHHHHHTTCCEEEEESSCCSSCCHHHHHHGGGTCEEEECCTTCCCCGGGHHHHHHHHH
T ss_pred             CcE-EEEEeCCCCCcHHHHHHHHHHHhcCCCEEEEEEEecCCcccchhhhhcccCcEEEEecCCCcccCCChHHHHHHHH
Confidence            343 5556667899999999999999999999999998554322    223333322110   0011111112       


Q ss_pred             HHHHHHHHHHHcCCccEEeehhHhhhcc
Q 021239          185 NLLSVVDTLTKSGSIDVIVVDSVAALIP  212 (315)
Q Consensus       185 ~~~~~i~~l~~~~~~~lVVIDsl~~l~~  212 (315)
                      +.++..+..+.+..+++||+|.+.....
T Consensus        81 ~~~~~a~~~~~~~~~dllILDEi~~Ai~  108 (157)
T d1g5ta_          81 AVWQHGKRMLADPLLDMVVLDELTYMVA  108 (157)
T ss_dssp             HHHHHHHHHTTCTTCSEEEEETHHHHHH
T ss_pred             HHHHHHHHHhhcCccCEEeHHHHHHHHH
Confidence            2334445556678899999999998773

>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=95.64  E-value=0.0049  Score=53.23  Aligned_cols=38  Identities=21%  Similarity=0.077  Sum_probs=28.4

Q ss_pred             EEEEEecCCCChhHHHHHHHHHHHhcC----CeEEEEecCCC
Q 021239          122 IVEIYGREASGKTTLALHVIKEAQKLG----GYCAYLDVENA  159 (315)
Q Consensus       122 i~~i~G~~GsGKTtlal~la~~~~~~g----~~v~~i~~E~~  159 (315)
                      .++|.|+|||||||.+.+-++.....+    .+++++++...
T Consensus        26 ~~lV~g~aGSGKTt~l~~ri~~ll~~~~~~p~~il~lt~t~~   67 (318)
T d1pjra1          26 PLLIMAGAGSGKTRVLTHRIAYLMAEKHVAPWNILAITFTNK   67 (318)
T ss_dssp             CEEEEECTTSCHHHHHHHHHHHHHHTTCCCGGGEEEEESSHH
T ss_pred             CEEEEecCCccHHHHHHHHHHHHHHcCCCCHHHeEeEeccHH
Confidence            367889999999999988766655433    47888886543

>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=95.57  E-value=0.0062  Score=55.00  Aligned_cols=37  Identities=16%  Similarity=0.196  Sum_probs=33.0

Q ss_pred             EEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCC
Q 021239          122 IVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVEN  158 (315)
Q Consensus       122 i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~  158 (315)
                      -+.|.|++|+|||+++..++.++...|..++++|...
T Consensus        52 H~~I~G~tGsGKT~~l~~li~~~~~~g~~~iiiD~kg   88 (433)
T d1e9ra_          52 HLLVNGATGTGKSVLLRELAYTGLLRGDRMVIVDPNG   88 (433)
T ss_dssp             CEEEEECTTSSHHHHHHHHHHHHHHTTCEEEEEEETT
T ss_pred             eEEEEeCCCCcHHHHHHHHHHHHHhCCCCEEEEeCCh
Confidence            3899999999999999999999998899999888754

>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=95.52  E-value=0.0064  Score=53.39  Aligned_cols=81  Identities=15%  Similarity=0.106  Sum_probs=45.9

Q ss_pred             CCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCChHHHHHcCCC-CCCeEEeCCCCHHHHHHHHHHHHHc
Q 021239          118 PKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGID-AENLLIAQPDSAENLLSVVDTLTKS  196 (315)
Q Consensus       118 ~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~~~~~~~g~~-~~~l~i~~~~~~e~~~~~i~~l~~~  196 (315)
                      ..+..++|+|++||||||++..++.. .....+++.+  |++.+-.      +. ..++........-.+.+.++..++ 
T Consensus       164 ~~~~nili~G~tgSGKTT~l~al~~~-i~~~~rivti--Ed~~El~------l~~~~~~~~~~~~~~~~~~~ll~~~lR-  233 (323)
T d1g6oa_         164 AIGKNVIVCGGTGSGKTTYIKSIMEF-IPKEERIISI--EDTEEIV------FKHHKNYTQLFFGGNITSADCLKSCLR-  233 (323)
T ss_dssp             HHTCCEEEEESTTSSHHHHHHHHGGG-SCTTCCEEEE--ESSCCCC------CSSCSSEEEEECBTTBCHHHHHHHHTT-
T ss_pred             HhCCCEEEEeeccccchHHHHHHhhh-cccccceeec--cchhhhh------cccccccceeccccchhHHHHHHHHhc-
Confidence            34566899999999999999777644 3456676666  3333311      11 112221111111123334444443 


Q ss_pred             CCccEEeehhHh
Q 021239          197 GSIDVIVVDSVA  208 (315)
Q Consensus       197 ~~~~lVVIDsl~  208 (315)
                      .+|+.|+|..+-
T Consensus       234 ~~pd~iivgEiR  245 (323)
T d1g6oa_         234 MRPDRIILGELR  245 (323)
T ss_dssp             SCCSEEEESCCC
T ss_pred             cCCCcccCCccC
Confidence            589999998654

>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=95.45  E-value=0.005  Score=48.39  Aligned_cols=29  Identities=28%  Similarity=0.327  Sum_probs=26.0

Q ss_pred             CCCCcEEEEEecCCCChhHHHHHHHHHHH
Q 021239          117 LPKGRIVEIYGREASGKTTLALHVIKEAQ  145 (315)
Q Consensus       117 l~~G~i~~i~G~~GsGKTtlal~la~~~~  145 (315)
                      .++|.++.+.|+=|+|||||+..++....
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            36899999999999999999999987764

>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=95.43  E-value=0.015  Score=49.41  Aligned_cols=43  Identities=23%  Similarity=0.149  Sum_probs=36.8

Q ss_pred             CcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCCh
Q 021239          120 GRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDP  162 (315)
Q Consensus       120 G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~  162 (315)
                      ....+|.|..|||||-.+...+..+...|..|+++..+.....
T Consensus       104 ~m~rLL~GdvGSGKT~Va~~a~~~~~~~g~q~~~m~Pt~~La~  146 (264)
T d1gm5a3         104 PMNRLLQGDVGSGKTVVAQLAILDNYEAGFQTAFMVPTSILAI  146 (264)
T ss_dssp             CCCCEEECCSSSSHHHHHHHHHHHHHHHTSCEEEECSCHHHHH
T ss_pred             cceeeeeccccccccHHHHHHHHHHHhcccceeEEeehHhhhH
Confidence            3457899999999999999999999999999999886665543

>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=95.43  E-value=0.0058  Score=50.62  Aligned_cols=36  Identities=31%  Similarity=0.369  Sum_probs=29.6

Q ss_pred             EEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCC
Q 021239          122 IVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENA  159 (315)
Q Consensus       122 i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~  159 (315)
                      +++|+|.-|+|||||...++.+  ..+.+++.|--|..
T Consensus         5 v~iitGFLGaGKTTll~~lL~~--~~~~riaVI~Ne~g   40 (222)
T d1nija1           5 VTLLTGFLGAGKTTLLRHILNE--QHGYKIAVIENEFG   40 (222)
T ss_dssp             EEEEEESSSSSCHHHHHHHHHS--CCCCCEEEECSSCC
T ss_pred             EEEEeeCCCCCHHHHHHHHHhc--CCCCcEEEEEeccc
Confidence            7899999999999999888764  45778888876643

>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=95.42  E-value=0.0051  Score=52.53  Aligned_cols=37  Identities=19%  Similarity=0.114  Sum_probs=27.7

Q ss_pred             EEEEEecCCCChhHHHHHHHHHHHhc----CCeEEEEecCC
Q 021239          122 IVEIYGREASGKTTLALHVIKEAQKL----GGYCAYLDVEN  158 (315)
Q Consensus       122 i~~i~G~~GsGKTtlal~la~~~~~~----g~~v~~i~~E~  158 (315)
                      ..+|.|+||||||+.+..-+..++..    ..+++++++-.
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            36788999999999988766555432    35799998754

>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=95.37  E-value=0.0043  Score=49.75  Aligned_cols=23  Identities=30%  Similarity=0.400  Sum_probs=20.1

Q ss_pred             EEEEEecCCCChhHHHHHHHHHH
Q 021239          122 IVEIYGREASGKTTLALHVIKEA  144 (315)
Q Consensus       122 i~~i~G~~GsGKTtlal~la~~~  144 (315)
                      .++|+||+|+||||++..++...
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            47899999999999999887664

>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=95.36  E-value=0.0046  Score=49.81  Aligned_cols=24  Identities=29%  Similarity=0.414  Sum_probs=20.6

Q ss_pred             EEEEEecCCCChhHHHHHHHHHHH
Q 021239          122 IVEIYGREASGKTTLALHVIKEAQ  145 (315)
Q Consensus       122 i~~i~G~~GsGKTtlal~la~~~~  145 (315)
                      .++|.||+|+||||++..++....
T Consensus         2 pIvl~GPsGsGK~tl~~~L~~~~~   25 (190)
T d1lvga_           2 PVVLSGPSGAGKSTLLKKLFQEHS   25 (190)
T ss_dssp             CEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             eEEEECCCCCCHHHHHHHHHHhCC
Confidence            378999999999999988877753

>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=95.28  E-value=0.0062  Score=50.65  Aligned_cols=35  Identities=26%  Similarity=0.321  Sum_probs=29.2

Q ss_pred             ccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHH
Q 021239          102 STGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIK  142 (315)
Q Consensus       102 ~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~  142 (315)
                      ..|++.|-..+.      |..+++.|++|+|||||...+..
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            457788877775      67999999999999999988753

>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=95.27  E-value=0.005  Score=47.04  Aligned_cols=21  Identities=29%  Similarity=0.415  Sum_probs=18.7

Q ss_pred             EEEEecCCCChhHHHHHHHHH
Q 021239          123 VEIYGREASGKTTLALHVIKE  143 (315)
Q Consensus       123 ~~i~G~~GsGKTtlal~la~~  143 (315)
                      ++|.|+||+|||||+..++.+
T Consensus         3 ivlvG~~~vGKSsLi~~l~~~   23 (160)
T d1r8sa_           3 ILMVGLDAAGKTTILYKLKLG   23 (160)
T ss_dssp             EEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHhcC
Confidence            679999999999999998654

>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=95.24  E-value=0.031  Score=44.00  Aligned_cols=20  Identities=35%  Similarity=0.473  Sum_probs=18.0

Q ss_pred             EEEEEecCCCChhHHHHHHH
Q 021239          122 IVEIYGREASGKTTLALHVI  141 (315)
Q Consensus       122 i~~i~G~~GsGKTtlal~la  141 (315)
                      .+.|.|.|.+|||||...+.
T Consensus         7 nIaiiG~~naGKSTL~n~L~   26 (179)
T d1wb1a4           7 NLGIFGHIDHGKTTLSKVLT   26 (179)
T ss_dssp             EEEEEECTTSSHHHHHHHHH
T ss_pred             EEEEEeCCCCcHHHHHHHHH
Confidence            38899999999999998875

>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=95.21  E-value=0.015  Score=49.59  Aligned_cols=90  Identities=12%  Similarity=0.166  Sum_probs=50.4

Q ss_pred             EEEEEecCCCChhHHHHHHHHHHHhcC--CeEEEEecC-CCCChHHHHHcCCCCC---------CeEEeCCCCHHHHHHH
Q 021239          122 IVEIYGREASGKTTLALHVIKEAQKLG--GYCAYLDVE-NALDPSLAEAMGIDAE---------NLLIAQPDSAENLLSV  189 (315)
Q Consensus       122 i~~i~G~~GsGKTtlal~la~~~~~~g--~~v~~i~~E-~~~~~~~~~~~g~~~~---------~l~i~~~~~~e~~~~~  189 (315)
                      .+.|.|..|+|||||+-++....-...  +++---++- +..+.++.+.+.+...         ++.+.+.+--.++...
T Consensus         4 Nv~iiGh~~~GKTtL~e~ll~~~g~~~~~g~v~~g~~~~D~~~~E~~r~~ti~~~~~~~~~~~~~~n~iDtPGh~dF~~e   83 (267)
T d2dy1a2           4 TVALVGHAGSGKTTLTEALLYKTGAKERRGRVEEGTTTTDYTPEAKLHRTTVRTGVAPLLFRGHRVFLLDAPGYGDFVGE   83 (267)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHTTSSSSCCCGGGTCCSSCCSHHHHHTTSCCSCEEEEEEETTEEEEEEECCCSGGGHHH
T ss_pred             EEEEEcCCCCcHHHHHHHHHHHcCCchhhccchhccccccchHHHHHhCCeEEeecccccccccceeEEccCchhhhhhh
Confidence            578999999999999998876543211  111000000 0011234444433321         3445555544556655


Q ss_pred             HHHHHHcCCccEEeehhHhhhc
Q 021239          190 VDTLTKSGSIDVIVVDSVAALI  211 (315)
Q Consensus       190 i~~l~~~~~~~lVVIDsl~~l~  211 (315)
                      +...+...+..++|||....+.
T Consensus        84 ~~~al~~~D~avlvvda~~Gv~  105 (267)
T d2dy1a2          84 IRGALEAADAALVAVSAEAGVQ  105 (267)
T ss_dssp             HHHHHHHCSEEEEEEETTTCSC
T ss_pred             hhhhhcccCceEEEeeccCCcc
Confidence            5555556688999999776655

>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=95.18  E-value=0.0066  Score=49.52  Aligned_cols=46  Identities=22%  Similarity=0.244  Sum_probs=36.8

Q ss_pred             CCCCccccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHH
Q 021239           96 RRGPVISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEA  144 (315)
Q Consensus        96 ~~~~~i~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~  144 (315)
                      ...+.++. +..|-..|.  |.|+-..+.|+|||++|||.||..++...
T Consensus        32 q~i~~~~F-l~~l~~~l~--~~PKkn~i~~~GP~~TGKS~f~~sl~~~l   77 (205)
T d1tuea_          32 QQIEFITF-LGALKSFLK--GTPKKNCLVFCGPANTGKSYFGMSFIHFI   77 (205)
T ss_dssp             TTCCHHHH-HHHHHHHHH--TCTTCSEEEEESCGGGCHHHHHHHHHHHH
T ss_pred             cCccHHHH-HHHHHHHHc--CCCCceEEEEECCCCccHHHHHHHHHHHh
Confidence            34455544 567777787  78999999999999999999998887765

>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=95.12  E-value=0.019  Score=46.17  Aligned_cols=46  Identities=22%  Similarity=0.213  Sum_probs=33.9

Q ss_pred             HHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecC
Q 021239          106 LKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVE  157 (315)
Q Consensus       106 ~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E  157 (315)
                      ..++.++.      |.-+++.+|+|+|||+.+...+......+++++|+..-
T Consensus        32 ~ai~~l~~------~~~~il~apTGsGKT~~a~l~i~~~~~~~~~vl~l~P~   77 (202)
T d2p6ra3          32 EAVEKVFS------GKNLLLAMPTAAGKTLLAEMAMVREAIKGGKSLYVVPL   77 (202)
T ss_dssp             HHHHHHTT------CSCEEEECSSHHHHHHHHHHHHHHHHHTTCCEEEEESS
T ss_pred             HHHHHHHc------CCCEEEEcCCCCchhHHHHHHHHHHhhccCcceeeccc
Confidence            44666665      34578999999999998866666666677889998743

>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=95.02  E-value=0.014  Score=45.58  Aligned_cols=20  Identities=30%  Similarity=0.491  Sum_probs=17.9

Q ss_pred             EEEEecCCCChhHHHHHHHH
Q 021239          123 VEIYGREASGKTTLALHVIK  142 (315)
Q Consensus       123 ~~i~G~~GsGKTtlal~la~  142 (315)
                      ++|.|++|+|||+|+.+++.
T Consensus         7 ivlvG~~~vGKTsli~~~~~   26 (168)
T d1u8za_           7 VIMVGSGGVGKSALTLQFMY   26 (168)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            67899999999999998864

>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=94.98  E-value=0.0072  Score=50.16  Aligned_cols=44  Identities=16%  Similarity=0.046  Sum_probs=35.7

Q ss_pred             HHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEec
Q 021239          107 KLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDV  156 (315)
Q Consensus       107 ~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~  156 (315)
                      .++.++.      |+-+++.+|+|+|||..+...+......|.+++|+..
T Consensus        51 ~i~~~l~------g~~~~i~apTGsGKT~~~~~~~~~~~~~~~rvliv~P   94 (237)
T d1gkub1          51 WAKRILR------KESFAATAPTGVGKTSFGLAMSLFLALKGKRCYVIFP   94 (237)
T ss_dssp             HHHHHHT------TCCEECCCCBTSCSHHHHHHHHHHHHTTSCCEEEEES
T ss_pred             HHHHHHC------CCCEEEEecCCChHHHHHHHHHHHHHHhcCeEEEEec
Confidence            3456665      5778899999999999887777777778889999984

>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=94.96  E-value=0.0079  Score=47.96  Aligned_cols=25  Identities=12%  Similarity=0.320  Sum_probs=21.0

Q ss_pred             CcEEEEEecCCCChhHHHHHHHHHH
Q 021239          120 GRIVEIYGREASGKTTLALHVIKEA  144 (315)
Q Consensus       120 G~i~~i~G~~GsGKTtlal~la~~~  144 (315)
                      ..+++|.||+|+||||++..++...
T Consensus         3 ~k~ivl~Gpsg~GK~tl~~~L~~~~   27 (178)
T d1kgda_           3 RKTLVLLGAHGVGRRHIKNTLITKH   27 (178)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHC
T ss_pred             CCcEEEECCCCCCHHHHHHHHHHhC
Confidence            3579999999999999998877543

>d1r6bx3 c.37.1.20 (X:437-751) ClpA, an Hsp100 chaperone, AAA+ modules {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpA, an Hsp100 chaperone, AAA+ modules
species: Escherichia coli [TaxId: 562]

Probab=94.90  E-value=0.015  Score=50.67  Aligned_cols=34  Identities=21%  Similarity=0.177  Sum_probs=27.0

Q ss_pred             CcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEec
Q 021239          120 GRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDV  156 (315)
Q Consensus       120 G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~  156 (315)
                      ...++++||+|+|||.||..+|...   +.+.+.+++
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            3467899999999999999998765   456666664

>d1uf9a_ c.37.1.1 (A:) Dephospho-CoA kinase {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Dephospho-CoA kinase
species: Thermus thermophilus [TaxId: 274]

Probab=94.84  E-value=0.0069  Score=48.34  Aligned_cols=20  Identities=40%  Similarity=0.494  Sum_probs=17.4

Q ss_pred             cEEEEEecCCCChhHHHHHH
Q 021239          121 RIVEIYGREASGKTTLALHV  140 (315)
Q Consensus       121 ~i~~i~G~~GsGKTtlal~l  140 (315)
                      -++.|+|++||||||+|..+
T Consensus         4 ~IIgitG~~gSGKstva~~l   23 (191)
T d1uf9a_           4 IIIGITGNIGSGKSTVAALL   23 (191)
T ss_dssp             EEEEEEECTTSCHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHH
Confidence            36789999999999999765

>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=94.83  E-value=0.0088  Score=46.73  Aligned_cols=20  Identities=30%  Similarity=0.282  Sum_probs=17.5

Q ss_pred             EEEEecCCCChhHHHHHHHH
Q 021239          123 VEIYGREASGKTTLALHVIK  142 (315)
Q Consensus       123 ~~i~G~~GsGKTtlal~la~  142 (315)
                      +++.|++|+|||+|+..+..
T Consensus         4 i~lvG~~~vGKTsLi~~~~~   23 (168)
T d2gjsa1           4 VLLLGAPGVGKSALARIFGG   23 (168)
T ss_dssp             EEEECCTTSSHHHHHHHHHT
T ss_pred             EEEECCCCcCHHHHHHHHhC
Confidence            67899999999999988753

>d1kkma_ c.91.1.2 (A:) HPr kinase HprK C-terminal domain {Lactobacillus casei [TaxId: 1582]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: HPr kinase HprK C-terminal domain
domain: HPr kinase HprK C-terminal domain
species: Lactobacillus casei [TaxId: 1582]

Probab=94.61  E-value=0.0098  Score=47.49  Aligned_cols=24  Identities=33%  Similarity=0.412  Sum_probs=20.4

Q ss_pred             CCcEEEEEecCCCChhHHHHHHHH
Q 021239          119 KGRIVEIYGREASGKTTLALHVIK  142 (315)
Q Consensus       119 ~G~i~~i~G~~GsGKTtlal~la~  142 (315)
                      .|.-++|.|++|+||||+++.++.
T Consensus        13 ~g~gvl~~G~sG~GKStlal~l~~   36 (176)
T d1kkma_          13 YGLGVLITGDSGVGKSETALELVQ   36 (176)
T ss_dssp             TTEEEEEECCTTSCHHHHHHHHHH
T ss_pred             CCEEEEEEeCCCCCHHHHHHHHHH
Confidence            366799999999999999987654

>d1knxa2 c.91.1.2 (A:133-309) HPr kinase HprK C-terminal domain {Mycoplasma pneumoniae [TaxId: 2104]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: HPr kinase HprK C-terminal domain
domain: HPr kinase HprK C-terminal domain
species: Mycoplasma pneumoniae [TaxId: 2104]

Probab=94.60  E-value=0.0095  Score=47.60  Aligned_cols=24  Identities=38%  Similarity=0.440  Sum_probs=20.7

Q ss_pred             CCcEEEEEecCCCChhHHHHHHHH
Q 021239          119 KGRIVEIYGREASGKTTLALHVIK  142 (315)
Q Consensus       119 ~G~i~~i~G~~GsGKTtlal~la~  142 (315)
                      .|.-++|.|++|+|||++++.++.
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            366799999999999999988764

>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=94.60  E-value=0.019  Score=51.05  Aligned_cols=37  Identities=22%  Similarity=0.155  Sum_probs=27.9

Q ss_pred             CcEEEEEecCCCChhHHHHHHHHHHHh----cCCeEEEEec
Q 021239          120 GRIVEIYGREASGKTTLALHVIKEAQK----LGGYCAYLDV  156 (315)
Q Consensus       120 G~i~~i~G~~GsGKTtlal~la~~~~~----~g~~v~~i~~  156 (315)
                      +.+++|.|+||+|||+++..++.....    .+.+++....
T Consensus       163 ~~~~vI~G~pGTGKTt~i~~~l~~l~~~~~~~~~~I~l~Ap  203 (359)
T d1w36d1         163 RRISVISGGPGTGKTTTVAKLLAALIQMADGERCRIRLAAP  203 (359)
T ss_dssp             BSEEEEECCTTSTHHHHHHHHHHHHHHTCSSCCCCEEEEBS
T ss_pred             CCeEEEEcCCCCCceehHHHHHHHHHHHHhccCCeEEEecC
Confidence            679999999999999998777665543    3456665553

>d1svia_ c.37.1.8 (A:) Probable GTPase EngB {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngB
species: Bacillus subtilis [TaxId: 1423]

Probab=94.38  E-value=0.012  Score=46.99  Aligned_cols=19  Identities=26%  Similarity=0.536  Sum_probs=18.0

Q ss_pred             EEEEecCCCChhHHHHHHH
Q 021239          123 VEIYGREASGKTTLALHVI  141 (315)
Q Consensus       123 ~~i~G~~GsGKTtlal~la  141 (315)
                      +.|.|+||+|||||...+.
T Consensus        26 I~lvG~~n~GKSTLin~L~   44 (195)
T d1svia_          26 IALAGRSNVGKSSFINSLI   44 (195)
T ss_dssp             EEEEEBTTSSHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHhc
Confidence            9999999999999999886

>d1ko7a2 c.91.1.2 (A:130-298) HPr kinase HprK C-terminal domain {Staphylococcus xylosus [TaxId: 1288]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: HPr kinase HprK C-terminal domain
domain: HPr kinase HprK C-terminal domain
species: Staphylococcus xylosus [TaxId: 1288]

Probab=94.31  E-value=0.013  Score=46.37  Aligned_cols=25  Identities=40%  Similarity=0.428  Sum_probs=21.1

Q ss_pred             CCcEEEEEecCCCChhHHHHHHHHH
Q 021239          119 KGRIVEIYGREASGKTTLALHVIKE  143 (315)
Q Consensus       119 ~G~i~~i~G~~GsGKTtlal~la~~  143 (315)
                      .|.-++|.|++|+|||++++.++..
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            3667999999999999999887654

>d1upta_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARL1 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL1 [TaxId: 9606]

Probab=94.18  E-value=0.012  Score=45.07  Aligned_cols=21  Identities=29%  Similarity=0.436  Sum_probs=18.6

Q ss_pred             EEEEecCCCChhHHHHHHHHH
Q 021239          123 VEIYGREASGKTTLALHVIKE  143 (315)
Q Consensus       123 ~~i~G~~GsGKTtlal~la~~  143 (315)
                      ++|.|+||+|||||...+...
T Consensus         8 I~ivG~~~vGKSSLi~~~~~~   28 (169)
T d1upta_           8 ILILGLDGAGKTTILYRLQVG   28 (169)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            789999999999999987643

>d2qtvb1 c.37.1.8 (B:24-189) SAR1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: SAR1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=94.13  E-value=0.013  Score=44.40  Aligned_cols=20  Identities=30%  Similarity=0.381  Sum_probs=17.8

Q ss_pred             EEEEecCCCChhHHHHHHHH
Q 021239          123 VEIYGREASGKTTLALHVIK  142 (315)
Q Consensus       123 ~~i~G~~GsGKTtlal~la~  142 (315)
                      ++|.|+|++|||+|...+..
T Consensus         3 I~liG~~nvGKSSLln~l~~   22 (166)
T d2qtvb1           3 LLFLGLDNAGKTTLLHMLKN   22 (166)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHhC
Confidence            57999999999999988765

>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=94.03  E-value=0.014  Score=45.50  Aligned_cols=23  Identities=30%  Similarity=0.345  Sum_probs=19.2

Q ss_pred             CcEEEEEecCCCChhHHHHHHHH
Q 021239          120 GRIVEIYGREASGKTTLALHVIK  142 (315)
Q Consensus       120 G~i~~i~G~~GsGKTtlal~la~  142 (315)
                      .-=++|.|.||+|||||+.++..
T Consensus        15 ~~kI~vvG~~~~GKSsLi~rl~~   37 (177)
T d1zj6a1          15 EHKVIIVGLDNAGKTTILYQFSM   37 (177)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHT
T ss_pred             eEEEEEECCCCCCHHHHHHHHhc
Confidence            34588999999999999988753

>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=93.99  E-value=0.012  Score=45.77  Aligned_cols=23  Identities=30%  Similarity=0.319  Sum_probs=19.0

Q ss_pred             CCcEEEEEecCCCChhHHHHHHH
Q 021239          119 KGRIVEIYGREASGKTTLALHVI  141 (315)
Q Consensus       119 ~G~i~~i~G~~GsGKTtlal~la  141 (315)
                      +.-=++|.|++|+|||||...+.
T Consensus        12 k~~kI~lvG~~~vGKTsLl~~l~   34 (186)
T d1f6ba_          12 KTGKLVFLGLDNAGKTTLLHMLK   34 (186)
T ss_dssp             CCEEEEEEEETTSSHHHHHHHHS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHh
Confidence            33457899999999999998874

>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=93.75  E-value=0.016  Score=44.86  Aligned_cols=21  Identities=24%  Similarity=0.370  Sum_probs=18.5

Q ss_pred             EEEEecCCCChhHHHHHHHHH
Q 021239          123 VEIYGREASGKTTLALHVIKE  143 (315)
Q Consensus       123 ~~i~G~~GsGKTtlal~la~~  143 (315)
                      +++.|++|+|||+|+..+..+
T Consensus         5 v~liG~~~vGKSsLi~rl~~~   25 (164)
T d1z2aa1           5 MVVVGNGAVGKSSMIQRYCKG   25 (164)
T ss_dssp             EEEECSTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            679999999999999988753

>d1g41a_ c.37.1.20 (A:) HslU {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: HslU
species: Haemophilus influenzae [TaxId: 727]

Probab=93.69  E-value=0.015  Score=53.29  Aligned_cols=33  Identities=21%  Similarity=0.241  Sum_probs=25.9

Q ss_pred             CcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEe
Q 021239          120 GRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLD  155 (315)
Q Consensus       120 G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~  155 (315)
                      .+.+++.||+|||||.+|..+|..+   +-+.+..+
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            3579999999999999999998755   44555444

>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=93.62  E-value=0.019  Score=46.87  Aligned_cols=36  Identities=31%  Similarity=0.493  Sum_probs=27.4

Q ss_pred             CCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecC
Q 021239          119 KGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVE  157 (315)
Q Consensus       119 ~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E  157 (315)
                      +|.++.|-|.-||||||++..++.....   ++.++..+
T Consensus         2 kGk~I~iEG~DGsGKST~~~~L~~~L~~---~~~~~~~p   37 (214)
T d1tmka_           2 RGKLILIEGLDRTGKTTQCNILYKKLQP---NCKLLKFP   37 (214)
T ss_dssp             CCCEEEEEESTTSSHHHHHHHHHHHTTT---SEEEEESS
T ss_pred             CeEEEEEECCCCCcHHHHHHHHHHHHHh---CCEEEEEC
Confidence            6899999999999999999888765533   33445544

>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=93.46  E-value=0.018  Score=44.42  Aligned_cols=19  Identities=26%  Similarity=0.380  Sum_probs=17.2

Q ss_pred             EEEEecCCCChhHHHHHHH
Q 021239          123 VEIYGREASGKTTLALHVI  141 (315)
Q Consensus       123 ~~i~G~~GsGKTtlal~la  141 (315)
                      ++|.|++|+|||+|...+.
T Consensus         5 i~ivG~~~~GKTsLi~~l~   23 (165)
T d1ksha_           5 LLMLGLDNAGKTTILKKFN   23 (165)
T ss_dssp             EEEECSTTSSHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHc
Confidence            6899999999999998874

>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=93.43  E-value=0.0082  Score=50.07  Aligned_cols=37  Identities=14%  Similarity=0.151  Sum_probs=27.8

Q ss_pred             ccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHH
Q 021239          102 STGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEA  144 (315)
Q Consensus       102 ~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~  144 (315)
                      ..|+++|-..|.      |..+++.|++|+|||||...+....
T Consensus        85 ~~gl~~L~~~l~------~~~~vl~G~SGVGKSSLiN~L~~~~  121 (231)
T d1t9ha2          85 QDSLADIIPHFQ------DKTTVFAGQSGVGKSSLLNAISPEL  121 (231)
T ss_dssp             HTTCTTTGGGGT------TSEEEEEESHHHHHHHHHHHHCC--
T ss_pred             hhHHHHHHHhhc------cceEEEECCCCccHHHHHHhhccHh
Confidence            356777666664      5688899999999999998886543

>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=93.42  E-value=0.019  Score=44.62  Aligned_cols=21  Identities=43%  Similarity=0.534  Sum_probs=18.6

Q ss_pred             EEEEEecCCCChhHHHHHHHH
Q 021239          122 IVEIYGREASGKTTLALHVIK  142 (315)
Q Consensus       122 i~~i~G~~GsGKTtlal~la~  142 (315)
                      .+.|.|++|+|||||..+++.
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            478999999999999998863

>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=93.32  E-value=0.022  Score=44.15  Aligned_cols=21  Identities=24%  Similarity=0.561  Sum_probs=18.6

Q ss_pred             EEEEecCCCChhHHHHHHHHH
Q 021239          123 VEIYGREASGKTTLALHVIKE  143 (315)
Q Consensus       123 ~~i~G~~GsGKTtlal~la~~  143 (315)
                      +++.|++|+|||+|+.+++..
T Consensus         6 i~viG~~~vGKTsli~~l~~~   26 (166)
T d1ctqa_           6 LVVVGAGGVGKSALTIQLIQN   26 (166)
T ss_dssp             EEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            688999999999999998753

>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=93.30  E-value=0.021  Score=44.22  Aligned_cols=21  Identities=24%  Similarity=0.504  Sum_probs=18.6

Q ss_pred             EEEEecCCCChhHHHHHHHHH
Q 021239          123 VEIYGREASGKTTLALHVIKE  143 (315)
Q Consensus       123 ~~i~G~~GsGKTtlal~la~~  143 (315)
                      ++|.|++|+|||+|+..++..
T Consensus         6 i~lvG~~~vGKTsLi~r~~~~   26 (167)
T d1kaoa_           6 VVVLGSGGVGKSALTVQFVTG   26 (167)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            678999999999999998754

>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=93.28  E-value=0.021  Score=44.64  Aligned_cols=21  Identities=29%  Similarity=0.401  Sum_probs=18.2

Q ss_pred             EEEEecCCCChhHHHHHHHHH
Q 021239          123 VEIYGREASGKTTLALHVIKE  143 (315)
Q Consensus       123 ~~i~G~~GsGKTtlal~la~~  143 (315)
                      +++.|++|+|||+|+..++..
T Consensus         6 ivvvG~~~vGKTsli~r~~~~   26 (173)
T d2a5ja1           6 YIIIGDTGVGKSCLLLQFTDK   26 (173)
T ss_dssp             EEEESSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHhcC
Confidence            678999999999999987644

>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=93.25  E-value=0.022  Score=44.31  Aligned_cols=21  Identities=24%  Similarity=0.517  Sum_probs=18.7

Q ss_pred             EEEEecCCCChhHHHHHHHHH
Q 021239          123 VEIYGREASGKTTLALHVIKE  143 (315)
Q Consensus       123 ~~i~G~~GsGKTtlal~la~~  143 (315)
                      ++|.|.+|+|||+|+..++..
T Consensus         8 i~lvG~~~vGKTsLi~r~~~~   28 (171)
T d2erya1           8 LVVVGGGGVGKSALTIQFIQS   28 (171)
T ss_dssp             EEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            789999999999999998753

>d1g8pa_ c.37.1.20 (A:) ATPase subunit of magnesium chelatase, BchI {Rhodobacter capsulatus [TaxId: 1061]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ATPase subunit of magnesium chelatase, BchI
species: Rhodobacter capsulatus [TaxId: 1061]

Probab=93.25  E-value=0.015  Score=50.80  Aligned_cols=23  Identities=22%  Similarity=0.281  Sum_probs=20.0

Q ss_pred             EEEEEecCCCChhHHHHHHHHHH
Q 021239          122 IVEIYGREASGKTTLALHVIKEA  144 (315)
Q Consensus       122 i~~i~G~~GsGKTtlal~la~~~  144 (315)
                      -++|.|+||+|||+++..++.-.
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            58999999999999999887643

>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=93.23  E-value=0.023  Score=43.84  Aligned_cols=20  Identities=30%  Similarity=0.398  Sum_probs=17.6

Q ss_pred             EEEEecCCCChhHHHHHHHH
Q 021239          123 VEIYGREASGKTTLALHVIK  142 (315)
Q Consensus       123 ~~i~G~~GsGKTtlal~la~  142 (315)
                      ++|.|++|+|||+|..++..
T Consensus         5 i~i~G~~~~GKTsLl~~l~~   24 (164)
T d1zd9a1           5 LTLVGLQYSGKTTFVNVIAS   24 (164)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHc
Confidence            57889999999999998854

>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=93.17  E-value=0.024  Score=44.13  Aligned_cols=20  Identities=35%  Similarity=0.489  Sum_probs=18.1

Q ss_pred             EEEEecCCCChhHHHHHHHH
Q 021239          123 VEIYGREASGKTTLALHVIK  142 (315)
Q Consensus       123 ~~i~G~~GsGKTtlal~la~  142 (315)
                      ++|.|++|+|||+|+.++..
T Consensus         5 i~~vG~~~vGKSsLi~~~~~   24 (175)
T d1ky3a_           5 VIILGDSGVGKTSLMHRYVN   24 (175)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHc
Confidence            67999999999999998865

>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=93.14  E-value=0.025  Score=45.82  Aligned_cols=19  Identities=42%  Similarity=0.496  Sum_probs=16.9

Q ss_pred             EEEEEecCCCChhHHHHHH
Q 021239          122 IVEIYGREASGKTTLALHV  140 (315)
Q Consensus       122 i~~i~G~~GsGKTtlal~l  140 (315)
                      ++.|+|.+||||||+|..+
T Consensus         5 iIgitG~igSGKStv~~~l   23 (208)
T d1vhta_           5 IVALTGGIGSGKSTVANAF   23 (208)
T ss_dssp             EEEEECCTTSCHHHHHHHH
T ss_pred             EEEEECCCcCCHHHHHHHH
Confidence            6889999999999999654

>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=93.14  E-value=0.023  Score=43.98  Aligned_cols=21  Identities=24%  Similarity=0.289  Sum_probs=18.5

Q ss_pred             EEEEecCCCChhHHHHHHHHH
Q 021239          123 VEIYGREASGKTTLALHVIKE  143 (315)
Q Consensus       123 ~~i~G~~GsGKTtlal~la~~  143 (315)
                      ++|.|++|+|||+|+.+++.+
T Consensus         7 ivlvG~~~vGKTsli~~~~~~   27 (166)
T d1z0fa1           7 YIIIGDMGVGKSCLLHQFTEK   27 (166)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            678999999999999988754

>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=93.13  E-value=0.023  Score=45.98  Aligned_cols=19  Identities=47%  Similarity=0.497  Sum_probs=16.5

Q ss_pred             EEEEEecCCCChhHHHHHH
Q 021239          122 IVEIYGREASGKTTLALHV  140 (315)
Q Consensus       122 i~~i~G~~GsGKTtlal~l  140 (315)
                      ++.|+|.+||||||+|..+
T Consensus         4 iIgITG~igSGKStv~~~l   22 (205)
T d1jjva_           4 IVGLTGGIGSGKTTIANLF   22 (205)
T ss_dssp             EEEEECSTTSCHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            6789999999999998654

>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=93.10  E-value=0.027  Score=45.20  Aligned_cols=22  Identities=32%  Similarity=0.335  Sum_probs=19.3

Q ss_pred             EEEEEecCCCChhHHHHHHHHH
Q 021239          122 IVEIYGREASGKTTLALHVIKE  143 (315)
Q Consensus       122 i~~i~G~~GsGKTtlal~la~~  143 (315)
                      .++|.|+||+|||||...+...
T Consensus         2 ~V~ivG~~~~GKTsLl~~l~~~   23 (207)
T d2fh5b1           2 AVLFVGLCDSGKTLLFVRLLTG   23 (207)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHcC
Confidence            5899999999999999888653

>d2f7sa1 c.37.1.8 (A:5-190) Rab27b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab27b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.01  E-value=0.024  Score=44.73  Aligned_cols=20  Identities=25%  Similarity=0.321  Sum_probs=17.6

Q ss_pred             EEEEecCCCChhHHHHHHHH
Q 021239          123 VEIYGREASGKTTLALHVIK  142 (315)
Q Consensus       123 ~~i~G~~GsGKTtlal~la~  142 (315)
                      ++|.|++|+|||+|+..++.
T Consensus         8 i~ivG~~~vGKTsLi~~l~~   27 (186)
T d2f7sa1           8 LLALGDSGVGKTTFLYRYTD   27 (186)
T ss_dssp             EEEESCTTSSHHHHHHHHHC
T ss_pred             EEEECCCCcCHHHHHHHHhc
Confidence            67899999999999988753

>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=93.01  E-value=0.025  Score=43.93  Aligned_cols=20  Identities=35%  Similarity=0.737  Sum_probs=17.8

Q ss_pred             EEEEecCCCChhHHHHHHHH
Q 021239          123 VEIYGREASGKTTLALHVIK  142 (315)
Q Consensus       123 ~~i~G~~GsGKTtlal~la~  142 (315)
                      +++.|++|+|||+|+..++.
T Consensus         5 i~viG~~~vGKTsLi~r~~~   24 (171)
T d2erxa1           5 VAVFGAGGVGKSSLVLRFVK   24 (171)
T ss_dssp             EEEECCTTSSHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHHh
Confidence            57899999999999988864

>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=92.96  E-value=0.025  Score=43.80  Aligned_cols=21  Identities=33%  Similarity=0.515  Sum_probs=18.6

Q ss_pred             EEEEecCCCChhHHHHHHHHH
Q 021239          123 VEIYGREASGKTTLALHVIKE  143 (315)
Q Consensus       123 ~~i~G~~GsGKTtlal~la~~  143 (315)
                      ++|.|.+|+|||+|+..++.+
T Consensus         6 ivlvG~~~vGKTsLi~r~~~~   26 (167)
T d1z08a1           6 VVLLGEGCVGKTSLVLRYCEN   26 (167)
T ss_dssp             EEEECCTTSCHHHHHHHHHHC
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            689999999999999988754

>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=92.92  E-value=0.017  Score=45.95  Aligned_cols=26  Identities=38%  Similarity=0.245  Sum_probs=21.3

Q ss_pred             CCcEEEEEecCCCChhHHHHHHHHHH
Q 021239          119 KGRIVEIYGREASGKTTLALHVIKEA  144 (315)
Q Consensus       119 ~G~i~~i~G~~GsGKTtlal~la~~~  144 (315)
                      +.-++.|.|..||||||++..++...
T Consensus         8 kp~~I~ieG~~GsGKTTl~~~L~~~l   33 (197)
T d2vp4a1           8 QPFTVLIEGNIGSGKTTYLNHFEKYK   33 (197)
T ss_dssp             CCEEEEEECSTTSCHHHHHHTTGGGT
T ss_pred             CceEEEEECCCCCCHHHHHHHHHHHh
Confidence            34589999999999999998776433

>d1xtqa1 c.37.1.8 (A:3-169) GTP-binding protein RheB {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein RheB
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.92  E-value=0.027  Score=43.57  Aligned_cols=21  Identities=24%  Similarity=0.594  Sum_probs=18.5

Q ss_pred             EEEEecCCCChhHHHHHHHHH
Q 021239          123 VEIYGREASGKTTLALHVIKE  143 (315)
Q Consensus       123 ~~i~G~~GsGKTtlal~la~~  143 (315)
                      ++|.|++|+|||+|+.+++..
T Consensus         7 v~liG~~~vGKTsLl~~~~~~   27 (167)
T d1xtqa1           7 IAILGYRSVGKSSLTIQFVEG   27 (167)
T ss_dssp             EEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            678999999999999988754

>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=92.92  E-value=0.029  Score=44.75  Aligned_cols=22  Identities=32%  Similarity=0.412  Sum_probs=19.5

Q ss_pred             EEEEEecCCCChhHHHHHHHHH
Q 021239          122 IVEIYGREASGKTTLALHVIKE  143 (315)
Q Consensus       122 i~~i~G~~GsGKTtlal~la~~  143 (315)
                      .++|.|+|++|||||...+..+
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            6899999999999999888754

>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=92.92  E-value=0.026  Score=44.06  Aligned_cols=21  Identities=24%  Similarity=0.401  Sum_probs=18.9

Q ss_pred             EEEEecCCCChhHHHHHHHHH
Q 021239          123 VEIYGREASGKTTLALHVIKE  143 (315)
Q Consensus       123 ~~i~G~~GsGKTtlal~la~~  143 (315)
                      +++.|++|+|||+|+.+++.+
T Consensus         9 I~vvG~~~vGKSSli~~~~~~   29 (174)
T d1wmsa_           9 VILLGDGGVGKSSLMNRYVTN   29 (174)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            789999999999999988753

>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=92.91  E-value=0.026  Score=43.85  Aligned_cols=21  Identities=33%  Similarity=0.610  Sum_probs=18.7

Q ss_pred             EEEEecCCCChhHHHHHHHHH
Q 021239          123 VEIYGREASGKTTLALHVIKE  143 (315)
Q Consensus       123 ~~i~G~~GsGKTtlal~la~~  143 (315)
                      +++.|++|+|||+|+.+++..
T Consensus         9 i~vvG~~~vGKTsLi~~l~~~   29 (170)
T d1r2qa_           9 LVLLGESAVGKSSLVLRFVKG   29 (170)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            678999999999999998754

>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=92.91  E-value=0.54  Score=37.34  Aligned_cols=89  Identities=20%  Similarity=0.157  Sum_probs=46.3

Q ss_pred             EEEEEecCCCChhHHHHHHHHHHHhcCCeEE--EEecCCCCChHHHHHc---------CCCCCCeEEeCCCCHHHHHHHH
Q 021239          122 IVEIYGREASGKTTLALHVIKEAQKLGGYCA--YLDVENALDPSLAEAM---------GIDAENLLIAQPDSAENLLSVV  190 (315)
Q Consensus       122 i~~i~G~~GsGKTtlal~la~~~~~~g~~v~--~i~~E~~~~~~~~~~~---------g~~~~~l~i~~~~~~e~~~~~i  190 (315)
                      .+.+.|...+|||||+-.+.......++...  +...+. ...++.+.+         ......+.+.+..--.++...+
T Consensus         5 ni~iiGHvd~GKSTL~~~l~~~~~~~~~~~~~~~~~~~~-~~~Er~rgiTi~~~~~~~~~~~~~~~~iDtPGh~~f~~~~   83 (196)
T d1d2ea3           5 NVGTIGHVDHGKTTLTAAITKILAEGGGAKFKKYEEIDN-APEERARGITINAAHVEYSTAARHYAHTDCPGHADYVKNM   83 (196)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHHHHHTTSBCCCCHHHHHS-CCEEEETTEEEECEEEEEECSSCEEEEEECSSHHHHHHHH
T ss_pred             EEEEEeCCCCcHHHHHHHHHHHHHHcCcchhhhhhhccc-chhhcCCCccCCcceEEEEeceeeEEeecCcchHHHHHHH
Confidence            4789999999999999888665433221100  000000 000010100         0111234445555556666555


Q ss_pred             HHHHHcCCccEEeehhHhhhc
Q 021239          191 DTLTKSGSIDVIVVDSVAALI  211 (315)
Q Consensus       191 ~~l~~~~~~~lVVIDsl~~l~  211 (315)
                      .+-+......++|||.-..+.
T Consensus        84 ~~~~~~aD~allVVda~~G~~  104 (196)
T d1d2ea3          84 ITGTAPLDGCILVVAANDGPM  104 (196)
T ss_dssp             HHTSSCCSEEEEEEETTTCSC
T ss_pred             HHHHhhcCeEEEEEEcCCCCc
Confidence            554555577888998765544

>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=92.90  E-value=0.045  Score=40.77  Aligned_cols=36  Identities=17%  Similarity=0.109  Sum_probs=27.2

Q ss_pred             CCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecC
Q 021239          119 KGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVE  157 (315)
Q Consensus       119 ~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E  157 (315)
                      .-...+|.+|.|+|||+++..++   ...|.+++|+..-
T Consensus         7 ~~~~~ll~apTGsGKT~~~~~~~---~~~~~~vli~~P~   42 (136)
T d1a1va1           7 SFQVAHLHAPTGSGKSTKVPAAY---AAQGYKVLVLNPS   42 (136)
T ss_dssp             SCEEEEEECCTTSCTTTHHHHHH---HTTTCCEEEEESC
T ss_pred             CCCEEEEEeCCCCCHHHHHHHHH---HHcCCcEEEEcCh
Confidence            45678999999999998775443   4567888888753

>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=92.81  E-value=0.028  Score=43.67  Aligned_cols=21  Identities=24%  Similarity=0.385  Sum_probs=18.8

Q ss_pred             EEEEecCCCChhHHHHHHHHH
Q 021239          123 VEIYGREASGKTTLALHVIKE  143 (315)
Q Consensus       123 ~~i~G~~GsGKTtlal~la~~  143 (315)
                      ++|.|++|+|||+|+.+++..
T Consensus         8 i~lvG~~~vGKTsLi~~l~~~   28 (171)
T d2ew1a1           8 IVLIGNAGVGKTCLVRRFTQG   28 (171)
T ss_dssp             EEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            689999999999999998754

>d2cxxa1 c.37.1.8 (A:2-185) GTP-binding protein engB {Pyrococcus horikoshii [TaxId: 53953]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein engB
species: Pyrococcus horikoshii [TaxId: 53953]

Probab=92.81  E-value=0.028  Score=43.92  Aligned_cols=20  Identities=30%  Similarity=0.461  Sum_probs=17.8

Q ss_pred             EEEEEecCCCChhHHHHHHH
Q 021239          122 IVEIYGREASGKTTLALHVI  141 (315)
Q Consensus       122 i~~i~G~~GsGKTtlal~la  141 (315)
                      -+.|.|+|++|||||...+.
T Consensus         2 ~I~lvG~~nvGKSsLin~l~   21 (184)
T d2cxxa1           2 TIIFAGRSNVGKSTLIYRLT   21 (184)
T ss_dssp             EEEEEEBTTSSHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHh
Confidence            47899999999999998875

>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=92.80  E-value=0.027  Score=43.71  Aligned_cols=21  Identities=24%  Similarity=0.466  Sum_probs=18.7

Q ss_pred             EEEEecCCCChhHHHHHHHHH
Q 021239          123 VEIYGREASGKTTLALHVIKE  143 (315)
Q Consensus       123 ~~i~G~~GsGKTtlal~la~~  143 (315)
                      +++.|++|+|||+|+..++.+
T Consensus         8 i~vvG~~~vGKTsLi~~l~~~   28 (169)
T d3raba_           8 ILIIGNSSVGKTSFLFRYADD   28 (169)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHcC
Confidence            689999999999999988754

>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=92.80  E-value=0.028  Score=43.74  Aligned_cols=21  Identities=24%  Similarity=0.445  Sum_probs=18.7

Q ss_pred             EEEEecCCCChhHHHHHHHHH
Q 021239          123 VEIYGREASGKTTLALHVIKE  143 (315)
Q Consensus       123 ~~i~G~~GsGKTtlal~la~~  143 (315)
                      +++.|.+|+|||+|+.++...
T Consensus         8 I~lvG~~~vGKTsll~~~~~~   28 (174)
T d2bmea1           8 FLVIGNAGTGKSCLLHQFIEK   28 (174)
T ss_dssp             EEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            789999999999999988654

>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=92.78  E-value=0.028  Score=43.68  Aligned_cols=21  Identities=29%  Similarity=0.703  Sum_probs=18.7

Q ss_pred             EEEEecCCCChhHHHHHHHHH
Q 021239          123 VEIYGREASGKTTLALHVIKE  143 (315)
Q Consensus       123 ~~i~G~~GsGKTtlal~la~~  143 (315)
                      +++.|++|+|||+|+.+++..
T Consensus         5 i~lvG~~~vGKTsli~r~~~~   25 (168)
T d2atva1           5 LAIFGRAGVGKSALVVRFLTK   25 (168)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            678999999999999998754

>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=92.76  E-value=0.032  Score=49.39  Aligned_cols=24  Identities=21%  Similarity=0.318  Sum_probs=19.9

Q ss_pred             CCcEEEEEecCCCChhHHHHHHHH
Q 021239          119 KGRIVEIYGREASGKTTLALHVIK  142 (315)
Q Consensus       119 ~G~i~~i~G~~GsGKTtlal~la~  142 (315)
                      .+.+++|+|++|+|||++.-.+..
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            345899999999999999877653

>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=92.76  E-value=0.029  Score=43.80  Aligned_cols=21  Identities=24%  Similarity=0.517  Sum_probs=18.6

Q ss_pred             EEEEecCCCChhHHHHHHHHH
Q 021239          123 VEIYGREASGKTTLALHVIKE  143 (315)
Q Consensus       123 ~~i~G~~GsGKTtlal~la~~  143 (315)
                      ++|.|.+|+|||+|+..++.+
T Consensus         9 v~lvG~~~vGKTsLi~r~~~~   29 (173)
T d2fn4a1           9 LVVVGGGGVGKSALTIQFIQS   29 (173)
T ss_dssp             EEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            789999999999999988753

>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=92.72  E-value=0.028  Score=44.24  Aligned_cols=20  Identities=35%  Similarity=0.481  Sum_probs=18.0

Q ss_pred             EEEEecCCCChhHHHHHHHH
Q 021239          123 VEIYGREASGKTTLALHVIK  142 (315)
Q Consensus       123 ~~i~G~~GsGKTtlal~la~  142 (315)
                      +++.|.+|+|||+|+..++.
T Consensus         5 v~vvG~~~vGKSSLi~~l~~   24 (184)
T d1vg8a_           5 VIILGDSGVGKTSLMNQYVN   24 (184)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            67999999999999998864

>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=92.70  E-value=0.034  Score=42.45  Aligned_cols=20  Identities=35%  Similarity=0.428  Sum_probs=17.9

Q ss_pred             EEEEEecCCCChhHHHHHHH
Q 021239          122 IVEIYGREASGKTTLALHVI  141 (315)
Q Consensus       122 i~~i~G~~GsGKTtlal~la  141 (315)
                      -+.|.|+|++|||||..++.
T Consensus         3 kI~lvG~~nvGKSsLin~l~   22 (161)
T d2gj8a1           3 KVVIAGRPNAGKSSLLNALA   22 (161)
T ss_dssp             EEEEEESTTSSHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHh
Confidence            47899999999999998876

>d1fzqa_ c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus musculus), ARL3 [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Mouse (Mus musculus), ARL3 [TaxId: 10090]

Probab=92.69  E-value=0.028  Score=43.69  Aligned_cols=79  Identities=14%  Similarity=0.154  Sum_probs=40.1

Q ss_pred             CcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCChHHHHHcCCCCCCeEEeCCCCHHHHHHHHHHHHHcCCc
Q 021239          120 GRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGIDAENLLIAQPDSAENLLSVVDTLTKSGSI  199 (315)
Q Consensus       120 G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~~~~~~~g~~~~~l~i~~~~~~e~~~~~i~~l~~~~~~  199 (315)
                      ---+++.|++|+|||+|+..+..     +...-+..... ...   +.+....-++.+.+....+.+.............
T Consensus        16 ~~kI~vvG~~~vGKSsLi~~l~~-----~~~~~~~~~~~-~~~---~~i~~~~~~~~i~d~~g~~~~~~~~~~~~~~~~~   86 (176)
T d1fzqa_          16 EVRILLLGLDNAGKTTLLKQLAS-----EDISHITPTQG-FNI---KSVQSQGFKLNVWDIGGQRKIRPYWRSYFENTDI   86 (176)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHCC-----SCCEEEEEETT-EEE---EEEEETTEEEEEEECSSCGGGHHHHHHHHTTCSE
T ss_pred             EEEEEEECCCCCCHHHHHHHHhc-----CCCCcceeeee-eeE---EEeccCCeeEeEeeccccccchhHHHHHhhccce
Confidence            33488999999999999987632     21111111111 000   0000111133444444444444555555555566


Q ss_pred             cEEeehhH
Q 021239          200 DVIVVDSV  207 (315)
Q Consensus       200 ~lVVIDsl  207 (315)
                      -++++|.-
T Consensus        87 ii~v~d~~   94 (176)
T d1fzqa_          87 LIYVIDSA   94 (176)
T ss_dssp             EEEEEETT
T ss_pred             eEEeeccc
Confidence            67777743

>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=92.68  E-value=0.032  Score=43.02  Aligned_cols=21  Identities=19%  Similarity=0.501  Sum_probs=18.4

Q ss_pred             EEEEecCCCChhHHHHHHHHH
Q 021239          123 VEIYGREASGKTTLALHVIKE  143 (315)
Q Consensus       123 ~~i~G~~GsGKTtlal~la~~  143 (315)
                      +++.|++|+|||+|..+++..
T Consensus         5 i~vvG~~~vGKTSli~~l~~~   25 (166)
T d1g16a_           5 ILLIGDSGVGKSCLLVRFVED   25 (166)
T ss_dssp             EEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            679999999999999988653

>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=92.56  E-value=0.052  Score=45.98  Aligned_cols=37  Identities=16%  Similarity=0.163  Sum_probs=30.1

Q ss_pred             HHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHH
Q 021239          107 KLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEA  144 (315)
Q Consensus       107 ~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~  144 (315)
                      .|=..|. |+.++-..+.|+||+++|||+|+..++...
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            3444566 788999999999999999999997776554

>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=92.55  E-value=0.031  Score=42.97  Aligned_cols=21  Identities=24%  Similarity=0.363  Sum_probs=18.8

Q ss_pred             EEEEecCCCChhHHHHHHHHH
Q 021239          123 VEIYGREASGKTTLALHVIKE  143 (315)
Q Consensus       123 ~~i~G~~GsGKTtlal~la~~  143 (315)
                      +++.|++|+|||+|+.+++..
T Consensus         5 v~liG~~~vGKTsLl~~~~~~   25 (165)
T d1z06a1           5 IIVIGDSNVGKTCLTYRFCAG   25 (165)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            679999999999999998754

>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=92.47  E-value=0.035  Score=43.33  Aligned_cols=21  Identities=38%  Similarity=0.447  Sum_probs=18.3

Q ss_pred             EEEEecCCCChhHHHHHHHHH
Q 021239          123 VEIYGREASGKTTLALHVIKE  143 (315)
Q Consensus       123 ~~i~G~~GsGKTtlal~la~~  143 (315)
                      ++|.|++|+|||+|+.+++..
T Consensus         5 ivvvG~~~vGKTsLi~~~~~~   25 (177)
T d1kmqa_           5 LVIVGDGACGKTCLLIVNSKD   25 (177)
T ss_dssp             EEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            578899999999999888754

>d1p5zb_ c.37.1.1 (B:) Deoxycytidine kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxycytidine kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.44  E-value=0.018  Score=47.18  Aligned_cols=26  Identities=23%  Similarity=0.267  Sum_probs=22.4

Q ss_pred             CCcEEEEEecCCCChhHHHHHHHHHH
Q 021239          119 KGRIVEIYGREASGKTTLALHVIKEA  144 (315)
Q Consensus       119 ~G~i~~i~G~~GsGKTtlal~la~~~  144 (315)
                      ++.++.|-|+.||||||++..++...
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            46789999999999999998877654

>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=92.44  E-value=0.034  Score=43.39  Aligned_cols=20  Identities=25%  Similarity=0.416  Sum_probs=18.1

Q ss_pred             EEEEecCCCChhHHHHHHHH
Q 021239          123 VEIYGREASGKTTLALHVIK  142 (315)
Q Consensus       123 ~~i~G~~GsGKTtlal~la~  142 (315)
                      +++.|++|+|||+|+..+..
T Consensus         7 i~vvG~~~vGKTsLi~~~~~   26 (175)
T d2f9la1           7 VVLIGDSGVGKSNLLSRFTR   26 (175)
T ss_dssp             EEEESSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            68999999999999988865

>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=92.39  E-value=0.036  Score=42.94  Aligned_cols=21  Identities=24%  Similarity=0.566  Sum_probs=18.5

Q ss_pred             EEEEecCCCChhHHHHHHHHH
Q 021239          123 VEIYGREASGKTTLALHVIKE  143 (315)
Q Consensus       123 ~~i~G~~GsGKTtlal~la~~  143 (315)
                      +++.|++|+|||+|+.++...
T Consensus         6 i~vvG~~~vGKTsLi~~~~~~   26 (170)
T d1ek0a_           6 LVLLGEAAVGKSSIVLRFVSN   26 (170)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            678999999999999998754

>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=92.39  E-value=0.034  Score=44.29  Aligned_cols=21  Identities=24%  Similarity=0.436  Sum_probs=18.7

Q ss_pred             EEEEecCCCChhHHHHHHHHH
Q 021239          123 VEIYGREASGKTTLALHVIKE  143 (315)
Q Consensus       123 ~~i~G~~GsGKTtlal~la~~  143 (315)
                      ++|.|++|+|||+|+.++...
T Consensus         9 ivvvG~~~vGKTsli~~l~~~   29 (194)
T d2bcgy1           9 LLLIGNSGVGKSCLLLRFSDD   29 (194)
T ss_dssp             EEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCcCHHHHHHHHhhC
Confidence            689999999999999998754

>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=92.38  E-value=0.035  Score=42.65  Aligned_cols=21  Identities=24%  Similarity=0.464  Sum_probs=18.4

Q ss_pred             EEEEecCCCChhHHHHHHHHH
Q 021239          123 VEIYGREASGKTTLALHVIKE  143 (315)
Q Consensus       123 ~~i~G~~GsGKTtlal~la~~  143 (315)
                      ++|.|.+|+|||+|+..+..+
T Consensus         3 v~vvG~~~vGKTsLi~r~~~~   23 (164)
T d1yzqa1           3 LVFLGEQSVGKTSLITRFMYD   23 (164)
T ss_dssp             EEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            678999999999999998753

>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=92.36  E-value=0.034  Score=43.14  Aligned_cols=21  Identities=29%  Similarity=0.379  Sum_probs=18.6

Q ss_pred             EEEEecCCCChhHHHHHHHHH
Q 021239          123 VEIYGREASGKTTLALHVIKE  143 (315)
Q Consensus       123 ~~i~G~~GsGKTtlal~la~~  143 (315)
                      ++|.|++|+|||+|+.++...
T Consensus         9 i~vvG~~~vGKTsli~~~~~~   29 (170)
T d2g6ba1           9 VMLVGDSGVGKTCLLVRFKDG   29 (170)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            789999999999999988653

>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=92.34  E-value=0.037  Score=42.79  Aligned_cols=21  Identities=19%  Similarity=0.501  Sum_probs=18.5

Q ss_pred             EEEEecCCCChhHHHHHHHHH
Q 021239          123 VEIYGREASGKTTLALHVIKE  143 (315)
Q Consensus       123 ~~i~G~~GsGKTtlal~la~~  143 (315)
                      +++.|.+|+|||+|+..++..
T Consensus         6 ivvvG~~~vGKTsli~r~~~~   26 (167)
T d1c1ya_           6 LVVLGSGGVGKSALTVQFVQG   26 (167)
T ss_dssp             EEEECSTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHHcC
Confidence            678999999999999998654

>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=92.32  E-value=0.061  Score=42.63  Aligned_cols=36  Identities=25%  Similarity=0.232  Sum_probs=27.0

Q ss_pred             EEEEecCCCChhHHHHHHHHHHH-hcCCeEEEEecCC
Q 021239          123 VEIYGREASGKTTLALHVIKEAQ-KLGGYCAYLDVEN  158 (315)
Q Consensus       123 ~~i~G~~GsGKTtlal~la~~~~-~~g~~v~~i~~E~  158 (315)
                      +++++|.|+|||..+..++.... ..+++++|+....
T Consensus        26 ~lv~~pTGsGKT~i~~~~~~~~~~~~~~~il~i~P~~   62 (200)
T d1wp9a1          26 CLIVLPTGLGKTLIAMMIAEYRLTKYGGKVLMLAPTK   62 (200)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHHHHHSCSCEEEECSSH
T ss_pred             eEEEeCCCCcHHHHHHHHHHHHHHhcCCcEEEEcCch
Confidence            67889999999987776665444 4577899987433

>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=92.24  E-value=0.036  Score=42.85  Aligned_cols=21  Identities=19%  Similarity=0.490  Sum_probs=18.4

Q ss_pred             EEEEecCCCChhHHHHHHHHH
Q 021239          123 VEIYGREASGKTTLALHVIKE  143 (315)
Q Consensus       123 ~~i~G~~GsGKTtlal~la~~  143 (315)
                      ++|.|.+|+|||+|+..+...
T Consensus         7 i~lvG~~~vGKTsli~rl~~~   27 (167)
T d1z0ja1           7 VCLLGDTGVGKSSIMWRFVED   27 (167)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            678899999999999998753

>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=92.04  E-value=0.042  Score=42.90  Aligned_cols=21  Identities=33%  Similarity=0.526  Sum_probs=18.8

Q ss_pred             EEEEEecCCCChhHHHHHHHH
Q 021239          122 IVEIYGREASGKTTLALHVIK  142 (315)
Q Consensus       122 i~~i~G~~GsGKTtlal~la~  142 (315)
                      .+.|.|.+|+|||||...++.
T Consensus         7 ~I~lvG~~~~GKSSLin~l~~   27 (178)
T d1wf3a1           7 FVAIVGKPNVGKSTLLNNLLG   27 (178)
T ss_dssp             EEEEECSTTSSHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHhC
Confidence            699999999999999988753

>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=92.04  E-value=0.0061  Score=48.06  Aligned_cols=23  Identities=17%  Similarity=0.348  Sum_probs=19.6

Q ss_pred             EEEEEecCCCChhHHHHHHHHHH
Q 021239          122 IVEIYGREASGKTTLALHVIKEA  144 (315)
Q Consensus       122 i~~i~G~~GsGKTtlal~la~~~  144 (315)
                      +++|+|++|+||||++-.+...+
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            77899999999999998776554

>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=92.02  E-value=0.074  Score=44.34  Aligned_cols=42  Identities=21%  Similarity=0.134  Sum_probs=29.6

Q ss_pred             CCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCC
Q 021239          119 KGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENAL  160 (315)
Q Consensus       119 ~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~  160 (315)
                      ...-++|.|++|+||+++|..+...........+-+++....
T Consensus        22 ~~~pvlI~Ge~GtGK~~~A~~ih~~s~~~~~~~~~~~~~~~~   63 (247)
T d1ny5a2          22 AECPVLITGESGVGKEVVARLIHKLSDRSKEPFVALNVASIP   63 (247)
T ss_dssp             CCSCEEEECSTTSSHHHHHHHHHHHSTTTTSCEEEEETTTSC
T ss_pred             CCCCEEEECCCCcCHHHHHHHHHHhcCCcccccccchhhhhh
Confidence            445689999999999999988765444444556566654433

>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=91.97  E-value=0.026  Score=43.95  Aligned_cols=20  Identities=30%  Similarity=0.463  Sum_probs=17.6

Q ss_pred             EEEEEecCCCChhHHHHHHH
Q 021239          122 IVEIYGREASGKTTLALHVI  141 (315)
Q Consensus       122 i~~i~G~~GsGKTtlal~la  141 (315)
                      =+++.|+||+|||+|...++
T Consensus        14 kIvlvG~~~vGKTSli~rl~   33 (173)
T d1e0sa_          14 RILMLGLDAAGKTTILYKLK   33 (173)
T ss_dssp             EEEEEEETTSSHHHHHHHTT
T ss_pred             EEEEECCCCCCHHHHHHHHh
Confidence            37799999999999998875

>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=91.96  E-value=0.037  Score=47.05  Aligned_cols=22  Identities=27%  Similarity=0.403  Sum_probs=18.4

Q ss_pred             cEEEEEecCCCChhHHHHHHHH
Q 021239          121 RIVEIYGREASGKTTLALHVIK  142 (315)
Q Consensus       121 ~i~~i~G~~GsGKTtlal~la~  142 (315)
                      .+++|+|++|+|||++.-.+..
T Consensus        25 ~lnvlvG~NgsGKS~iL~Ai~~   46 (308)
T d1e69a_          25 RVTAIVGPNGSGKSNIIDAIKW   46 (308)
T ss_dssp             SEEEEECCTTTCSTHHHHHHHH
T ss_pred             CeEEEECCCCCcHHHHHHHHHH
Confidence            3899999999999999765543

>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=91.89  E-value=0.044  Score=42.48  Aligned_cols=21  Identities=33%  Similarity=0.544  Sum_probs=18.8

Q ss_pred             EEEEEecCCCChhHHHHHHHH
Q 021239          122 IVEIYGREASGKTTLALHVIK  142 (315)
Q Consensus       122 i~~i~G~~GsGKTtlal~la~  142 (315)
                      ++.|.|.|++|||||...+..
T Consensus         7 ~I~iiG~~nvGKSSLin~L~~   27 (179)
T d1egaa1           7 FIAIVGRPNVGKSTLLNKLLG   27 (179)
T ss_dssp             EEEEECSSSSSHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHhC
Confidence            588999999999999998864

>d1lnza2 c.37.1.8 (A:158-342) Obg GTP-binding protein middle domain {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Obg GTP-binding protein middle domain
species: Bacillus subtilis [TaxId: 1423]

Probab=91.84  E-value=0.03  Score=44.02  Aligned_cols=19  Identities=37%  Similarity=0.377  Sum_probs=16.8

Q ss_pred             EEEEecCCCChhHHHHHHH
Q 021239          123 VEIYGREASGKTTLALHVI  141 (315)
Q Consensus       123 ~~i~G~~GsGKTtlal~la  141 (315)
                      +.|.|+|++|||||...+.
T Consensus         4 VaiiG~~nvGKSSLin~L~   22 (185)
T d1lnza2           4 VGLVGFPSVGKSTLLSVVS   22 (185)
T ss_dssp             EEEESSTTSSHHHHHHHSE
T ss_pred             EEEECCCCCCHHHHHHHHh
Confidence            6899999999999997763

>d1moza_ c.37.1.8 (A:) ADP-ribosylation factor {Baker's yeast (Saccharomyces cerevisiae), ARL1 [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Baker's yeast (Saccharomyces cerevisiae), ARL1 [TaxId: 4932]

Probab=91.69  E-value=0.033  Score=43.65  Aligned_cols=25  Identities=32%  Similarity=0.444  Sum_probs=20.3

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHH
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHV  140 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~l  140 (315)
                      |-.+--=+++.|++|+|||||..++
T Consensus        13 ~~~k~~KI~lvG~~~vGKTsLi~~l   37 (182)
T d1moza_          13 GSNKELRILILGLDGAGKTTILYRL   37 (182)
T ss_dssp             TCSSCEEEEEEEETTSSHHHHHHHT
T ss_pred             CCCceEEEEEECCCCCCHHHHHHHH
Confidence            4445556889999999999999876

>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=91.68  E-value=0.045  Score=42.47  Aligned_cols=21  Identities=19%  Similarity=0.496  Sum_probs=18.3

Q ss_pred             EEEEecCCCChhHHHHHHHHH
Q 021239          123 VEIYGREASGKTTLALHVIKE  143 (315)
Q Consensus       123 ~~i~G~~GsGKTtlal~la~~  143 (315)
                      +++.|++|+|||+|+..++..
T Consensus         7 i~lvG~~~vGKTsll~~~~~~   27 (169)
T d1x1ra1           7 LVVVGDGGVGKSALTIQFFQK   27 (169)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            567899999999999998753

>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=91.58  E-value=0.047  Score=42.50  Aligned_cols=20  Identities=35%  Similarity=0.418  Sum_probs=17.6

Q ss_pred             EEEEecCCCChhHHHHHHHH
Q 021239          123 VEIYGREASGKTTLALHVIK  142 (315)
Q Consensus       123 ~~i~G~~GsGKTtlal~la~  142 (315)
                      +++.|.+|+|||+|+..+..
T Consensus         6 v~lvG~~~vGKTsLi~~~~~   25 (172)
T d2g3ya1           6 VVLIGEQGVGKSTLANIFAG   25 (172)
T ss_dssp             EEEECCTTSSHHHHHHHHHC
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            67899999999999988753

>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=91.57  E-value=0.047  Score=42.87  Aligned_cols=26  Identities=27%  Similarity=0.368  Sum_probs=21.1

Q ss_pred             CCCcEEEEEecCCCChhHHHHHHHHH
Q 021239          118 PKGRIVEIYGREASGKTTLALHVIKE  143 (315)
Q Consensus       118 ~~G~i~~i~G~~GsGKTtlal~la~~  143 (315)
                      |+.==++|.|.+|+|||+|+.+++..
T Consensus         3 p~~iKivviG~~~vGKTsli~~~~~~   28 (183)
T d1mh1a_           3 PQAIKCVVVGDGAVGKTCLLISYTTN   28 (183)
T ss_dssp             CEEEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             ceeEEEEEECCCCCCHHHHHHHHHhC
Confidence            33334889999999999999998754

>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=91.55  E-value=0.048  Score=43.16  Aligned_cols=22  Identities=27%  Similarity=0.351  Sum_probs=19.0

Q ss_pred             EEEEecCCCChhHHHHHHHHHH
Q 021239          123 VEIYGREASGKTTLALHVIKEA  144 (315)
Q Consensus       123 ~~i~G~~GsGKTtlal~la~~~  144 (315)
                      +++.|++|+|||+|+.+++..-
T Consensus         6 vvllG~~~vGKTSli~r~~~~~   27 (191)
T d2ngra_           6 CVVVGDGAVGKTCLLISYTTNK   27 (191)
T ss_dssp             EEEEESTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            6789999999999999887543

>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=91.53  E-value=0.048  Score=42.58  Aligned_cols=21  Identities=29%  Similarity=0.528  Sum_probs=18.7

Q ss_pred             EEEEecCCCChhHHHHHHHHH
Q 021239          123 VEIYGREASGKTTLALHVIKE  143 (315)
Q Consensus       123 ~~i~G~~GsGKTtlal~la~~  143 (315)
                      +++.|++|+|||+|...+..+
T Consensus        10 i~vvG~~~vGKTsli~~l~~~   30 (177)
T d1x3sa1          10 ILIIGESGVGKSSLLLRFTDD   30 (177)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            789999999999999988754

>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=91.50  E-value=0.056  Score=44.31  Aligned_cols=23  Identities=26%  Similarity=0.420  Sum_probs=19.2

Q ss_pred             cEEEEEecCCCChhHHHHHHHHH
Q 021239          121 RIVEIYGREASGKTTLALHVIKE  143 (315)
Q Consensus       121 ~i~~i~G~~GsGKTtlal~la~~  143 (315)
                      .++.|+|..||||||+|..++..
T Consensus         2 ~iIgiTG~igSGKsTva~~l~e~   24 (241)
T d1deka_           2 KLIFLSGVKRSGKDTTADFIMSN   24 (241)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHHh
Confidence            47899999999999999776543

>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=91.45  E-value=0.051  Score=42.68  Aligned_cols=21  Identities=29%  Similarity=0.423  Sum_probs=18.7

Q ss_pred             EEEEecCCCChhHHHHHHHHH
Q 021239          123 VEIYGREASGKTTLALHVIKE  143 (315)
Q Consensus       123 ~~i~G~~GsGKTtlal~la~~  143 (315)
                      +++.|++|+|||+|+..++..
T Consensus         5 ivliG~~~vGKTsli~r~~~~   25 (179)
T d1m7ba_           5 IVVVGDSQCGKTALLHVFAKD   25 (179)
T ss_dssp             EEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            678999999999999988764

>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=91.35  E-value=0.053  Score=48.04  Aligned_cols=36  Identities=31%  Similarity=0.294  Sum_probs=26.3

Q ss_pred             CCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEe
Q 021239          116 GLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLD  155 (315)
Q Consensus       116 Gl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~  155 (315)
                      ..|++. +++.||+|+|||-+|..+|...   +.+.+-++
T Consensus        65 ~~p~~n-iLfiGPTGvGKTElAk~LA~~~---~~~~ir~D  100 (364)
T d1um8a_          65 ELSKSN-ILLIGPTGSGKTLMAQTLAKHL---DIPIAISD  100 (364)
T ss_dssp             TCCCCC-EEEECCTTSSHHHHHHHHHHHT---TCCEEEEE
T ss_pred             cCCCcc-eeeeCCCCccHHHHHHHHHhhc---ccceeehh
Confidence            556665 6778999999999999998654   33444444

>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=91.35  E-value=0.053  Score=42.75  Aligned_cols=21  Identities=29%  Similarity=0.411  Sum_probs=18.8

Q ss_pred             EEEEecCCCChhHHHHHHHHH
Q 021239          123 VEIYGREASGKTTLALHVIKE  143 (315)
Q Consensus       123 ~~i~G~~GsGKTtlal~la~~  143 (315)
                      ++|.|.+|+|||+|...++..
T Consensus        12 i~lvG~~~vGKTsLi~r~~~~   32 (185)
T d2atxa1          12 CVVVGDGAVGKTCLLMSYAND   32 (185)
T ss_dssp             EEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHhhC
Confidence            789999999999999988754

>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=91.23  E-value=0.028  Score=43.77  Aligned_cols=21  Identities=24%  Similarity=0.392  Sum_probs=17.1

Q ss_pred             EEEEecCCCChhHHHHHHHHH
Q 021239          123 VEIYGREASGKTTLALHVIKE  143 (315)
Q Consensus       123 ~~i~G~~GsGKTtlal~la~~  143 (315)
                      +++.|++|+|||+|+.+++..
T Consensus         6 i~vvG~~~vGKTsli~~~~~~   26 (170)
T d1i2ma_           6 LVLVGDGGTGKTTFVKRHLTG   26 (170)
T ss_dssp             EEEEECTTSSHHHHHHTTC--
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            678899999999999887654

>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=91.12  E-value=0.051  Score=42.86  Aligned_cols=19  Identities=26%  Similarity=0.412  Sum_probs=17.4

Q ss_pred             EEEEecCCCChhHHHHHHH
Q 021239          123 VEIYGREASGKTTLALHVI  141 (315)
Q Consensus       123 ~~i~G~~GsGKTtlal~la  141 (315)
                      ++|.|.+|+|||+|+.++.
T Consensus         5 ivllG~~~vGKTsll~r~~   23 (200)
T d1zcba2           5 ILLLGAGESGKSTFLKQMR   23 (200)
T ss_dssp             EEEECSTTSSHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHh
Confidence            6799999999999999983

>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=90.91  E-value=0.036  Score=43.18  Aligned_cols=21  Identities=19%  Similarity=0.387  Sum_probs=8.2

Q ss_pred             EEEEecCCCChhHHHHHHHHH
Q 021239          123 VEIYGREASGKTTLALHVIKE  143 (315)
Q Consensus       123 ~~i~G~~GsGKTtlal~la~~  143 (315)
                      ++|.|.+|+|||+|+..++.+
T Consensus         9 i~vvG~~~vGKTsLi~~l~~~   29 (173)
T d2fu5c1           9 LLLIGDSGVGKTCVLFRFSED   29 (173)
T ss_dssp             EEEECCCCC------------
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            678999999999999888754

>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=90.66  E-value=0.043  Score=42.89  Aligned_cols=19  Identities=26%  Similarity=0.422  Sum_probs=17.2

Q ss_pred             EEEEecCCCChhHHHHHHH
Q 021239          123 VEIYGREASGKTTLALHVI  141 (315)
Q Consensus       123 ~~i~G~~GsGKTtlal~la  141 (315)
                      +.|.|.|++|||||...+.
T Consensus         4 VaivG~~nvGKSTLin~L~   22 (180)
T d1udxa2           4 VGLVGYPNAGKSSLLAAMT   22 (180)
T ss_dssp             EEEECCGGGCHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHh
Confidence            7899999999999998875

>d1puia_ c.37.1.8 (A:) Probable GTPase EngB {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngB
species: Escherichia coli [TaxId: 562]

Probab=90.52  E-value=0.037  Score=42.96  Aligned_cols=20  Identities=25%  Similarity=0.336  Sum_probs=17.6

Q ss_pred             EEEEEecCCCChhHHHHHHH
Q 021239          122 IVEIYGREASGKTTLALHVI  141 (315)
Q Consensus       122 i~~i~G~~GsGKTtlal~la  141 (315)
                      -+.|.|+|++|||||...+.
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            48999999999999997764

>d1mkya2 c.37.1.8 (A:173-358) Probable GTPase Der, N-terminal and middle domains {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase Der, N-terminal and middle domains
species: Thermotoga maritima [TaxId: 2336]

Probab=90.47  E-value=0.069  Score=41.70  Aligned_cols=21  Identities=38%  Similarity=0.510  Sum_probs=18.1

Q ss_pred             EEEEEecCCCChhHHHHHHHH
Q 021239          122 IVEIYGREASGKTTLALHVIK  142 (315)
Q Consensus       122 i~~i~G~~GsGKTtlal~la~  142 (315)
                      -+.|.|.+|+|||||...+..
T Consensus        10 kV~iiG~~~~GKSTLin~l~~   30 (186)
T d1mkya2          10 KVAIVGRPNVGKSTLFNAILN   30 (186)
T ss_dssp             EEEEECSTTSSHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHC
Confidence            478999999999999987753

>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=90.39  E-value=0.071  Score=41.76  Aligned_cols=21  Identities=24%  Similarity=0.460  Sum_probs=18.5

Q ss_pred             EEEEecCCCChhHHHHHHHHH
Q 021239          123 VEIYGREASGKTTLALHVIKE  143 (315)
Q Consensus       123 ~~i~G~~GsGKTtlal~la~~  143 (315)
                      +++.|++|+|||+|+.+++..
T Consensus         8 i~vlG~~~vGKTsLi~~~~~~   28 (175)
T d2bmja1           8 LGVLGDARSGKSSLIHRFLTG   28 (175)
T ss_dssp             EEEECCTTTTHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            688999999999999988654

>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=90.18  E-value=0.029  Score=42.80  Aligned_cols=21  Identities=33%  Similarity=0.529  Sum_probs=18.6

Q ss_pred             EEEEecCCCChhHHHHHHHHH
Q 021239          123 VEIYGREASGKTTLALHVIKE  143 (315)
Q Consensus       123 ~~i~G~~GsGKTtlal~la~~  143 (315)
                      +.|.|+|++|||||...+...
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            679999999999999988654

>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=90.12  E-value=0.092  Score=42.84  Aligned_cols=25  Identities=32%  Similarity=0.335  Sum_probs=21.7

Q ss_pred             cEEEEEecCCCChhHHHHHHHHHHH
Q 021239          121 RIVEIYGREASGKTTLALHVIKEAQ  145 (315)
Q Consensus       121 ~i~~i~G~~GsGKTtlal~la~~~~  145 (315)
                      .++.|-|.-||||||++..++....
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            4899999999999999988877653

>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=90.11  E-value=0.09  Score=41.15  Aligned_cols=22  Identities=23%  Similarity=0.264  Sum_probs=19.1

Q ss_pred             EEEEecCCCChhHHHHHHHHHH
Q 021239          123 VEIYGREASGKTTLALHVIKEA  144 (315)
Q Consensus       123 ~~i~G~~GsGKTtlal~la~~~  144 (315)
                      +++.|.+|+|||+|..++....
T Consensus         5 iv~lG~~~vGKTsll~r~~~~~   26 (200)
T d2bcjq2           5 LLLLGTGESGKSTFIKQMRIIH   26 (200)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHhCCC
Confidence            6899999999999999986553

>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=89.73  E-value=0.094  Score=42.63  Aligned_cols=22  Identities=23%  Similarity=0.282  Sum_probs=19.2

Q ss_pred             EEEEecCCCChhHHHHHHHHHH
Q 021239          123 VEIYGREASGKTTLALHVIKEA  144 (315)
Q Consensus       123 ~~i~G~~GsGKTtlal~la~~~  144 (315)
                      ++|.|.+|+|||+|+.++...-
T Consensus         9 illlG~~~vGKTsll~~~~~~~   30 (221)
T d1azta2           9 LLLLGAGESGKSTIVKQMRILH   30 (221)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHhcCC
Confidence            6899999999999999986554

>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=89.41  E-value=0.23  Score=43.30  Aligned_cols=24  Identities=21%  Similarity=0.314  Sum_probs=20.6

Q ss_pred             EEEEEecCCCChhHHHHHHHHHHH
Q 021239          122 IVEIYGREASGKTTLALHVIKEAQ  145 (315)
Q Consensus       122 i~~i~G~~GsGKTtlal~la~~~~  145 (315)
                      .+.|.|..++|||||+-.+....-
T Consensus        19 NI~iiGhvd~GKTTL~d~Ll~~~g   42 (341)
T d1n0ua2          19 NMSVIAHVDHGKSTLTDSLVQRAG   42 (341)
T ss_dssp             EEEEECCGGGTHHHHHHHHHHHHB
T ss_pred             EEEEEeCCCCcHHHHHHHHHHHCC
Confidence            489999999999999988876553

>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=89.01  E-value=0.1  Score=43.60  Aligned_cols=22  Identities=23%  Similarity=0.434  Sum_probs=19.3

Q ss_pred             EEEEEecCCCChhHHHHHHHHH
Q 021239          122 IVEIYGREASGKTTLALHVIKE  143 (315)
Q Consensus       122 i~~i~G~~GsGKTtlal~la~~  143 (315)
                      -++|.|.+|+|||||+..+...
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            5889999999999999888753

>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=89.00  E-value=0.09  Score=45.88  Aligned_cols=34  Identities=18%  Similarity=0.092  Sum_probs=28.6

Q ss_pred             EEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEe
Q 021239          122 IVEIYGREASGKTTLALHVIKEAQKLGGYCAYLD  155 (315)
Q Consensus       122 i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~  155 (315)
                      .|.|-|.-|+||||++..++......+.++.++.
T Consensus         7 rI~IEG~iGsGKSTl~~~L~~~l~~~g~~v~~~~   40 (331)
T d1osna_           7 RIYLDGAYGIGKTTAAEEFLHHFAITPNRILLIG   40 (331)
T ss_dssp             EEEEEESSSSCTTHHHHHHHHTTTTSGGGEEEEC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHhhcCCceEEEe
Confidence            3789999999999999998887776777777765

>d1svsa1 c.37.1.8 (A:32-60,A:182-347) Transducin (alpha subunit) {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=88.96  E-value=0.12  Score=40.18  Aligned_cols=23  Identities=22%  Similarity=0.300  Sum_probs=19.7

Q ss_pred             EEEEecCCCChhHHHHHHHHHHH
Q 021239          123 VEIYGREASGKTTLALHVIKEAQ  145 (315)
Q Consensus       123 ~~i~G~~GsGKTtlal~la~~~~  145 (315)
                      +++.|..|+|||+|+.++.....
T Consensus         5 ivllG~~~vGKTsl~~r~~~~~~   27 (195)
T d1svsa1           5 LLLLGAGESGKSTIVKQMKIIHE   27 (195)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHhhCCC
Confidence            68999999999999999876543

>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=88.44  E-value=0.28  Score=39.16  Aligned_cols=42  Identities=26%  Similarity=0.121  Sum_probs=29.0

Q ss_pred             HHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEec
Q 021239          106 LKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDV  156 (315)
Q Consensus       106 ~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~  156 (315)
                      ..++.++. +     .-.+|.+|+|+|||..+..++..   .+.+++++..
T Consensus        77 eav~~~~~-~-----~~~ll~~~tG~GKT~~a~~~~~~---~~~~~Liv~p  118 (206)
T d2fz4a1          77 KALERWLV-D-----KRGCIVLPTGSGKTHVAMAAINE---LSTPTLIVVP  118 (206)
T ss_dssp             HHHHHHTT-T-----SEEEEEESSSTTHHHHHHHHHHH---SCSCEEEEES
T ss_pred             HHHHHHHh-C-----CCcEEEeCCCCCceehHHhHHHH---hcCceeEEEc
Confidence            45566665 2     23468899999999888766543   3668888774

>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=87.71  E-value=0.14  Score=44.18  Aligned_cols=21  Identities=38%  Similarity=0.661  Sum_probs=18.7

Q ss_pred             CCCcEEEEEecCCCChhHHHH
Q 021239          118 PKGRIVEIYGREASGKTTLAL  138 (315)
Q Consensus       118 ~~G~i~~i~G~~GsGKTtlal  138 (315)
                      +.|++.++.|-+|+|||||..
T Consensus        12 ~~~~~alfFGLSGTGKTTLs~   32 (313)
T d2olra1          12 EKGDVAVFFGLSGTGKTTLST   32 (313)
T ss_dssp             TTSCEEEEECSTTSSHHHHHC
T ss_pred             CCCCEEEEEccCCCCccccee
Confidence            468999999999999999873

>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=86.83  E-value=0.15  Score=43.94  Aligned_cols=20  Identities=35%  Similarity=0.669  Sum_probs=18.1

Q ss_pred             CCcEEEEEecCCCChhHHHH
Q 021239          119 KGRIVEIYGREASGKTTLAL  138 (315)
Q Consensus       119 ~G~i~~i~G~~GsGKTtlal  138 (315)
                      .|++.+++|.+|+|||||..
T Consensus        13 ~~~valffGLSGTGKTTLs~   32 (318)
T d1j3ba1          13 EGDVAVFFGLSGTGKTTLST   32 (318)
T ss_dssp             TCCEEEEEECTTSCHHHHTC
T ss_pred             CCCEEEEEccCCCCcccccc
Confidence            57899999999999999874

>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=86.81  E-value=0.16  Score=43.88  Aligned_cols=21  Identities=33%  Similarity=0.632  Sum_probs=18.8

Q ss_pred             CCCcEEEEEecCCCChhHHHH
Q 021239          118 PKGRIVEIYGREASGKTTLAL  138 (315)
Q Consensus       118 ~~G~i~~i~G~~GsGKTtlal  138 (315)
                      +.|++.++.|-+|+|||||..
T Consensus        12 ~~gd~alfFGLSGTGKTTLs~   32 (323)
T d1ii2a1          12 KQGDVTVFFGLSGTGKTTLSA   32 (323)
T ss_dssp             TTCCEEEEECCTTSSHHHHHC
T ss_pred             CCCCEEEEEccCCCCccccee
Confidence            468899999999999999983

>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=86.31  E-value=0.38  Score=35.38  Aligned_cols=40  Identities=10%  Similarity=0.192  Sum_probs=31.4

Q ss_pred             CCCcEEEEEecCCCChhHHHHHHHHHHHh-cC-CeEEEEecC
Q 021239          118 PKGRIVEIYGREASGKTTLALHVIKEAQK-LG-GYCAYLDVE  157 (315)
Q Consensus       118 ~~G~i~~i~G~~GsGKTtlal~la~~~~~-~g-~~v~~i~~E  157 (315)
                      ..|-.+.+.|-+|+||+|+|..+.....+ .| .++-.++.+
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            35778999999999999999999888876 44 455556544

>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=84.26  E-value=2  Score=33.68  Aligned_cols=21  Identities=29%  Similarity=0.385  Sum_probs=18.4

Q ss_pred             EEEEEecCCCChhHHHHHHHH
Q 021239          122 IVEIYGREASGKTTLALHVIK  142 (315)
Q Consensus       122 i~~i~G~~GsGKTtlal~la~  142 (315)
                      .+.|.|...+|||||+-.+..
T Consensus        10 ni~iiGhVd~GKSTL~~~L~~   30 (205)
T d2qn6a3          10 NIGVVGHVDHGKTTLVQAITG   30 (205)
T ss_dssp             EEEEECSTTSSHHHHHHHHHS
T ss_pred             EEEEEEccCCcHHHHHHHHHh
Confidence            589999999999999988753

>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=83.17  E-value=0.38  Score=38.97  Aligned_cols=24  Identities=42%  Similarity=0.498  Sum_probs=20.5

Q ss_pred             EEEEEecCCCChhHHHHHHHHHHH
Q 021239          122 IVEIYGREASGKTTLALHVIKEAQ  145 (315)
Q Consensus       122 i~~i~G~~GsGKTtlal~la~~~~  145 (315)
                      ++.|.|.+.+|||||+-.+.....
T Consensus         7 ~IaIiGh~d~GKSTL~~~L~~~~~   30 (227)
T d1g7sa4           7 IVSVLGHVDHGKTTLLDHIRGSAV   30 (227)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             EEEEEeCCCccHHHHHHHHHhhcc
Confidence            589999999999999988876543

>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=82.62  E-value=0.13  Score=42.64  Aligned_cols=90  Identities=17%  Similarity=0.204  Sum_probs=47.7

Q ss_pred             EEEEEecCCCChhHHHHHHHHHHH---------------hcCCeEEEEecC-CCCChHHHHHcCCCCC---------CeE
Q 021239          122 IVEIYGREASGKTTLALHVIKEAQ---------------KLGGYCAYLDVE-NALDPSLAEAMGIDAE---------NLL  176 (315)
Q Consensus       122 i~~i~G~~GsGKTtlal~la~~~~---------------~~g~~v~~i~~E-~~~~~~~~~~~g~~~~---------~l~  176 (315)
                      .+.+.|-.++|||||+-.++...-               ..++.+.-++.- ...+.++.+.+.++..         ++.
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               011111000000 0000122222222221         345


Q ss_pred             EeCCCCHHHHHHHHHHHHHcCCccEEeehhHhhhc
Q 021239          177 IAQPDSAENLLSVVDTLTKSGSIDVIVVDSVAALI  211 (315)
Q Consensus       177 i~~~~~~e~~~~~i~~l~~~~~~~lVVIDsl~~l~  211 (315)
                      +.+.+--.++...+..-+......++|||.....+
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            55555555666555554455577899999876654

>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=82.37  E-value=2.7  Score=33.73  Aligned_cols=21  Identities=24%  Similarity=0.359  Sum_probs=18.2

Q ss_pred             EEEEecCCCChhHHHHHHHHH
Q 021239          123 VEIYGREASGKTTLALHVIKE  143 (315)
Q Consensus       123 ~~i~G~~GsGKTtlal~la~~  143 (315)
                      +.++|...+|||||+-++...
T Consensus        12 i~viGHVd~GKSTL~~~Ll~~   32 (222)
T d1zunb3          12 FLTCGNVDDGKSTLIGRLLHD   32 (222)
T ss_dssp             EEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEEcCCCCCHHHHHHHHHHH
Confidence            578899999999999888654

>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=81.71  E-value=0.36  Score=42.87  Aligned_cols=21  Identities=24%  Similarity=0.325  Sum_probs=18.7

Q ss_pred             EEEEEecCCCChhHHHHHHHH
Q 021239          122 IVEIYGREASGKTTLALHVIK  142 (315)
Q Consensus       122 i~~i~G~~GsGKTtlal~la~  142 (315)
                      -+.|.|+||+|||||...+..
T Consensus        58 ~Iai~G~~n~GKSSLiNaL~G   78 (400)
T d1tq4a_          58 NVAVTGETGSGKSSFINTLRG   78 (400)
T ss_dssp             EEEEEECTTSSHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHhC
Confidence            489999999999999988863

>d2fzwa2 c.2.1.1 (A:163-338) Alcohol dehydrogenase {Human (Homo sapiens), different isozymes [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: NAD(P)-binding Rossmann-fold domains
superfamily: NAD(P)-binding Rossmann-fold domains
family: Alcohol dehydrogenase-like, C-terminal domain
domain: Alcohol dehydrogenase
species: Human (Homo sapiens), different isozymes [TaxId: 9606]

Probab=80.78  E-value=1.1  Score=34.09  Aligned_cols=63  Identities=21%  Similarity=0.086  Sum_probs=39.7

Q ss_pred             cccCcHHHHHhhcCCCCCCCcEEEEEecCCCChhHHHHHHHHHHHhcCCeEEEEecCCCCChHHHHHcCCC
Q 021239          101 ISTGSLKLDLALGIGGLPKGRIVEIYGREASGKTTLALHVIKEAQKLGGYCAYLDVENALDPSLAEAMGID  171 (315)
Q Consensus       101 i~TG~~~LD~~l~~GGl~~G~i~~i~G~~GsGKTtlal~la~~~~~~g~~v~~i~~E~~~~~~~~~~~g~~  171 (315)
                      ..|++..+-+   .+++++|+.++|.|..|.  -.++.|++...   |.++++...-.....+.++.+|.+
T Consensus        13 ~~Tay~al~~---~~~~~~G~tVlI~GaGGv--G~~aiq~ak~~---G~~~vi~~~~~~~k~~~ak~lGa~   75 (176)
T d2fzwa2          13 ISTGYGAAVN---TAKLEPGSVCAVFGLGGV--GLAVIMGCKVA---GASRIIGVDINKDKFARAKEFGAT   75 (176)
T ss_dssp             HHHHHHHHHT---TTCCCTTCEEEEECCSHH--HHHHHHHHHHH---TCSEEEEECSCGGGHHHHHHHTCS
T ss_pred             HHHHHHHHHH---hhCCCCCCEEEEecchhH--HHHHHHHHHHH---hcCceEEEcccHHHHHHHHHhCCc
Confidence            4555555422   268999999999997555  45556665554   545555543333334678888865